Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 196 of 230
Found at i:59050886 original size:114 final size:114
Alignment explanation
Indices: 59050686--59050916 Score: 435
Period size: 114 Copynumber: 2.0 Consensus size: 114
59050676 TGCACAATTG
59050686 TGTTTTAAGTGATGTTATTTTGAAAATGTTTCAAAATAGCCAAAATTGGTGCCACAAGGGCGACC
1 TGTTTTAAGTGATGTTATTTTGAAAATGTTTCAAAATAGCCAAAATTGGTGCCACAAGGGCGACC
*
59050751 ATATGGCCGTATGAGATACACAGGCCAGAGGCACGATCGTGTTCTTATT
66 ATACGGCCGTATGAGATACACAGGCCAGAGGCACGATCGTGTTCTTATT
*
59050800 TGTTTTAAGTGATGTTATTTTGAAAATGTTTCAAAATAGCCAAAATTGGTGCCACAAGGGCGGCC
1 TGTTTTAAGTGATGTTATTTTGAAAATGTTTCAAAATAGCCAAAATTGGTGCCACAAGGGCGACC
*
59050865 ATACGGCCGTATGAGATACACAGGCTAGAGGCACGATCGTGTTCTTATT
66 ATACGGCCGTATGAGATACACAGGCCAGAGGCACGATCGTGTTCTTATT
59050914 TGT
1 TGT
59050917 AAATTTTTTA
Statistics
Matches: 114, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
114 114 1.00
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (114 bp):
TGTTTTAAGTGATGTTATTTTGAAAATGTTTCAAAATAGCCAAAATTGGTGCCACAAGGGCGACC
ATACGGCCGTATGAGATACACAGGCCAGAGGCACGATCGTGTTCTTATT
Found at i:59054934 original size:11 final size:11
Alignment explanation
Indices: 59054918--59054950 Score: 66
Period size: 11 Copynumber: 3.0 Consensus size: 11
59054908 TATTTTTTAA
59054918 TTTTAAAATAT
1 TTTTAAAATAT
59054929 TTTTAAAATAT
1 TTTTAAAATAT
59054940 TTTTAAAATAT
1 TTTTAAAATAT
59054951 ATATTTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:59057646 original size:21 final size:19
Alignment explanation
Indices: 59057602--59057646 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
59057592 ATTTTACATG
*
59057602 CACACATGATTCCACTAAT
1 CACACACGATTCCACTAAT
59057621 CACACACGATTCCACTAAT
1 CACACACGATTCCACTAAT
*
59057640 CAGACAC
1 CACACAC
59057647 CATTAACGAG
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:0.38, C:0.36, G:0.07, T:0.20
Consensus pattern (19 bp):
CACACACGATTCCACTAAT
Found at i:59063855 original size:17 final size:17
Alignment explanation
Indices: 59063833--59063865 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
59063823 TTTCAGATTT
59063833 TGATACCCATATCTTTC
1 TGATACCCATATCTTTC
59063850 TGATACCCATATCTTT
1 TGATACCCATATCTTT
59063866 GACTTTCTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.27, G:0.06, T:0.42
Consensus pattern (17 bp):
TGATACCCATATCTTTC
Found at i:59064679 original size:3 final size:3
Alignment explanation
Indices: 59064671--59064706 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
59064661 CATTTGACCC
59064671 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
59064707 CATCATCATC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:59064711 original size:3 final size:3
Alignment explanation
Indices: 59064705--59064748 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
59064695 TATTATTATT
59064705 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
59064749 TAAAACTAGA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.34, C:0.32, G:0.00, T:0.34
Consensus pattern (3 bp):
ATC
Found at i:59073670 original size:26 final size:26
Alignment explanation
Indices: 59073634--59073695 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 26
59073624 ACATGTTTTC
* *
59073634 TCAAATTTTTACT-AGGAGCAAAATTG
1 TCAAAATTTTACTAAAG-GCAAAATTG
* *
59073660 TCAAAATTTTATTAAAGGTAAAATTG
1 TCAAAATTTTACTAAAGGCAAAATTG
59073686 TCAAAATTTT
1 TCAAAATTTT
59073696 GCTGGGGGTA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 29 0.94
27 2 0.06
ACGTcount: A:0.42, C:0.08, G:0.11, T:0.39
Consensus pattern (26 bp):
TCAAAATTTTACTAAAGGCAAAATTG
Found at i:59085707 original size:20 final size:20
Alignment explanation
Indices: 59085676--59085737 Score: 70
Period size: 20 Copynumber: 2.9 Consensus size: 20
59085666 TAAAAAATTC
59085676 AAATATTAAAAATTAGAAAAA
1 AAATA-TAAAAATTAGAAAAA
* *
59085697 AAATATAAAAATCATAAAAA
1 AAATATAAAAATTAGAAAAA
59085717 AAATTATAAAACATATAGAAA
1 AAA-TATAAAA-AT-TAGAAA
59085738 TATAAAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
20 16 0.47
21 12 0.35
22 2 0.06
23 4 0.12
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.23
Consensus pattern (20 bp):
AAATATAAAAATTAGAAAAA
Found at i:59085715 original size:19 final size:18
Alignment explanation
Indices: 59085693--59085745 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 18
59085683 AAAAATTAGA
59085693 AAAAAAATATAAAAATCAT
1 AAAAAAATATAAAAA-CAT
59085712 AAAAAAA-ATTATAAAACAT
1 AAAAAAATA-TA-AAAACAT
* *
59085731 ATAGAAATATAAAAA
1 AAAAAAATATAAAAA
59085746 AATTATAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
18 5 0.17
19 19 0.66
20 5 0.17
ACGTcount: A:0.74, C:0.04, G:0.02, T:0.21
Consensus pattern (18 bp):
AAAAAAATATAAAAACAT
Found at i:59085745 original size:28 final size:30
Alignment explanation
Indices: 59085694--59085755 Score: 92
Period size: 28 Copynumber: 2.1 Consensus size: 30
59085684 AAAATTAGAA
59085694 AAAAAATATAAAAATCATAAAAAAAATTAT
1 AAAAAATATAAAAATCATAAAAAAAATTAT
* *
59085724 AAAACATATAGAAAT-AT-AAAAAAATTAT
1 AAAAAATATAAAAATCATAAAAAAAATTAT
59085752 AAAA
1 AAAA
59085756 TTTTATAAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 15 0.50
29 2 0.07
30 13 0.43
ACGTcount: A:0.73, C:0.03, G:0.02, T:0.23
Consensus pattern (30 bp):
AAAAAATATAAAAATCATAAAAAAAATTAT
Found at i:59086038 original size:36 final size:36
Alignment explanation
Indices: 59085971--59086040 Score: 115
Period size: 36 Copynumber: 1.9 Consensus size: 36
59085961 GGTCATTAAT
*
59085971 TTTTTTATGATTTTTATAAAAATTTTCAATTTTTTA
1 TTTTTTATGATTTTTATAAAAATTGTCAATTTTTTA
59086007 TTTTTTATGATTTTTATAAAAAATTGT-AATTTTT
1 TTTTTTATGATTTTTAT-AAAAATTGTCAATTTTT
59086041 AATAAATTGT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
36 24 0.75
37 8 0.25
ACGTcount: A:0.31, C:0.01, G:0.04, T:0.63
Consensus pattern (36 bp):
TTTTTTATGATTTTTATAAAAATTGTCAATTTTTTA
Found at i:59086040 original size:19 final size:18
Alignment explanation
Indices: 59086016--59086059 Score: 63
Period size: 17 Copynumber: 2.4 Consensus size: 18
59086006 ATTTTTTATG
59086016 ATTTTTATAAAAAATTGTA
1 ATTTTT-TAAAAAATTGTA
*
59086035 A-TTTTTAATAAATTGTA
1 ATTTTTTAAAAAATTGTA
59086052 ATTTTTTA
1 ATTTTTTA
59086060 TATTTTTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 12 0.52
18 10 0.43
19 1 0.04
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.55
Consensus pattern (18 bp):
ATTTTTTAAAAAATTGTA
Found at i:59086094 original size:46 final size:46
Alignment explanation
Indices: 59086006--59086118 Score: 115
Period size: 46 Copynumber: 2.4 Consensus size: 46
59085996 TCAATTTTTT
*
59086006 ATTTTTTATGATTTTTATAAAAAATTGTAATTTTTAATAAATTG-TA
1 ATTTTTTAT-ATTTTTATAAAAAATTATAATTTTTAATAAATTGATA
* * * *
59086052 ATTTTTTATATTTTTATTAAAATTTAATAATTTTT-CTAAAATTGATT
1 ATTTTTTATATTTTTATAAAAAATT-ATAATTTTTAAT-AAATTGATA
59086099 ATTATTTTAT-TATTTTATAA
1 ATT-TTTTATAT-TTTTATAA
59086119 TTTTTTTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
45 15 0.27
46 23 0.41
47 5 0.09
48 13 0.23
ACGTcount: A:0.37, C:0.01, G:0.04, T:0.58
Consensus pattern (46 bp):
ATTTTTTATATTTTTATAAAAAATTATAATTTTTAATAAATTGATA
Found at i:59086473 original size:22 final size:22
Alignment explanation
Indices: 59086445--59086490 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
59086435 TGGGCCTCAC
59086445 TTAATTCCCCTTTAATCCTTTG
1 TTAATTCCCCTTTAATCCTTTG
59086467 TTAATTCCCCTTTAATCCTTTG
1 TTAATTCCCCTTTAATCCTTTG
59086489 TT
1 TT
59086491 TGGTTCAGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.17, C:0.26, G:0.04, T:0.52
Consensus pattern (22 bp):
TTAATTCCCCTTTAATCCTTTG
Found at i:59090003 original size:26 final size:26
Alignment explanation
Indices: 59089969--59090111 Score: 86
Period size: 26 Copynumber: 5.5 Consensus size: 26
59089959 TATATTTTTA
59089969 TTAAATTATATTTAATAATAATTATT
1 TTAAATTATATTTAATAATAATTATT
*
59089995 TTAAATTATATTT--T-AT-AGTATT
1 TTAAATTATATTTAATAATAATTATT
* * *
59090017 ATATATTATGATTT--TAGTAAATTCA-T
1 TTAAATTAT-ATTTAATAAT-AATT-ATT
* * *
59090043 ATAAGAATATATTTAATATTAAGAATT-TT
1 TTAA-ATTATATTT-A-A-TAATAATTATT
*
59090072 ATTAAATTATATTTAATAATAATTATG
1 -TTAAATTATATTTAATAATAATTATT
59090099 TTAAATTATATTT
1 TTAAATTATATTT
59090112 TATAGTATTA
Statistics
Matches: 90, Mismatches: 13, Indels: 28
0.69 0.10 0.21
Matches are distributed among these distances:
22 12 0.13
23 7 0.08
24 2 0.02
26 43 0.48
27 7 0.08
28 1 0.01
29 9 0.10
30 7 0.08
31 2 0.02
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (26 bp):
TTAAATTATATTTAATAATAATTATT
Found at i:59090073 original size:104 final size:103
Alignment explanation
Indices: 59089964--59090186 Score: 385
Period size: 104 Copynumber: 2.2 Consensus size: 103
59089954 AATTATATAT
*
59089964 TTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGAT
1 TTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATTATATATTATGAT
* *
59090029 TTTAGTAAATTCATA-TAAGAATATATTTAATATTAAGAA
66 TTTAGTAAATTAATATTAAG-A-ATATCTAATATTAAGAA
59090068 TTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATTATATATTATGAT
1 TTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATTATATATTATGAT
*
59090133 TTTAGTAATTTAATATTAAGAATATCTAATATTAAGAA
66 TTTAGTAAATTAATATTAAGAATATCTAATATTAAGAA
59090171 TTTTATTAAATTATAT
1 TTTTATTAAATTATAT
59090187 ATTTTTATTA
Statistics
Matches: 114, Mismatches: 4, Indels: 3
0.94 0.03 0.02
Matches are distributed among these distances:
103 32 0.28
104 78 0.68
105 4 0.04
ACGTcount: A:0.43, C:0.01, G:0.05, T:0.52
Consensus pattern (103 bp):
TTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATTATATATTATGAT
TTTAGTAAATTAATATTAAGAATATCTAATATTAAGAA
Found at i:59090148 original size:22 final size:21
Alignment explanation
Indices: 59090099--59090150 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 21
59090089 AATAATTATG
*
59090099 TTAA-ATTATATTTTATAGTA
1 TTAATATTATATTTTATAATA
59090119 TTATATATTATGATTTTAGTAAT-
1 TTA-ATATTAT-ATTTTA-TAATA
59090142 TTAATATTA
1 TTAATATTA
59090151 AGAATATCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 3 0.11
21 1 0.04
22 11 0.41
23 9 0.33
24 3 0.11
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (21 bp):
TTAATATTATATTTTATAATA
Found at i:59091079 original size:82 final size:83
Alignment explanation
Indices: 59090964--59091126 Score: 202
Period size: 83 Copynumber: 2.0 Consensus size: 83
59090954 CACTTTCGCC
* * *
59090964 ACCAAGAAATCGGTTTGGTTTAATTTAAGTAAGT-TCATTGTTTTTGTATCATGTCTAAGAGATA
1 ACCAAGAAATCGGTTCGGTTCAATTCAAGTAAGTATCATTGTTTTTGTATCATGTCTAAGAGATA
*
59091028 GTTTAATAATGCTTTTCA
66 GTTTAACAATGCTTTTCA
* * * ** * * *
59091046 ACCAAGAGATCGGTTCGGTTCAATTCGATTAAGTATGTTTTTTTTTGTATCATGTCTAAGAGTTG
1 ACCAAGAAATCGGTTCGGTTCAATTCAAGTAAGTATCATTGTTTTTGTATCATGTCTAAGAGATA
*
59091111 GTTTAGCAATGCTTTT
66 GTTTAACAATGCTTTT
59091127 TAAAAGTGTT
Statistics
Matches: 67, Mismatches: 13, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
82 28 0.42
83 39 0.58
ACGTcount: A:0.27, C:0.11, G:0.19, T:0.43
Consensus pattern (83 bp):
ACCAAGAAATCGGTTCGGTTCAATTCAAGTAAGTATCATTGTTTTTGTATCATGTCTAAGAGATA
GTTTAACAATGCTTTTCA
Found at i:59092884 original size:13 final size:13
Alignment explanation
Indices: 59092866--59092906 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
59092856 CAAAACTAAT
*
59092866 AGAAAAGGAAGAA
1 AGAAAAGAAAGAA
59092879 AGAAAAGAAAGAA
1 AGAAAAGAAAGAA
**
59092892 AGACGAGAAAGAA
1 AGAAAAGAAAGAA
59092905 AG
1 AG
59092907 GGGCGCACGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.68, C:0.02, G:0.29, T:0.00
Consensus pattern (13 bp):
AGAAAAGAAAGAA
Found at i:59094028 original size:18 final size:18
Alignment explanation
Indices: 59094005--59094097 Score: 80
Period size: 18 Copynumber: 4.7 Consensus size: 18
59093995 GAAATGACCA
59094005 AGATGAGAAATGAATATG
1 AGATGAGAAATGAATATG
59094023 AGATGAGAAATATTGAAT-TGG
1 AGATGAG-AA-A-TGAATAT-G
59094044 CAAAGATGAGAAATGAATATG
1 ---AGATGAGAAATGAATATG
*
59094065 AGATGAGAAATGTGATATG
1 AGATGAGAAATG-AATATG
*
59094084 AAATGATGAAATGA
1 AGATGA-GAAATGA
59094098 GATGTGAAAC
Statistics
Matches: 62, Mismatches: 3, Indels: 19
0.74 0.04 0.23
Matches are distributed among these distances:
18 19 0.31
19 12 0.19
20 8 0.13
21 12 0.19
22 2 0.03
23 2 0.03
24 7 0.11
ACGTcount: A:0.48, C:0.01, G:0.27, T:0.24
Consensus pattern (18 bp):
AGATGAGAAATGAATATG
Found at i:59094050 original size:42 final size:42
Alignment explanation
Indices: 59093990--59094075 Score: 145
Period size: 42 Copynumber: 2.0 Consensus size: 42
59093980 TATGTGATTG
*
59093990 ATATTGAAATGACCAAGATGAGAAATGAATATGAGATGAGAA
1 ATATTGAAATGACAAAGATGAGAAATGAATATGAGATGAGAA
* *
59094032 ATATTGAATTGGCAAAGATGAGAAATGAATATGAGATGAGAA
1 ATATTGAAATGACAAAGATGAGAAATGAATATGAGATGAGAA
59094074 AT
1 AT
59094076 GTGATATGAA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.49, C:0.03, G:0.24, T:0.23
Consensus pattern (42 bp):
ATATTGAAATGACAAAGATGAGAAATGAATATGAGATGAGAA
Found at i:59097357 original size:19 final size:19
Alignment explanation
Indices: 59097335--59097375 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
59097325 CATTATCAAA
59097335 GATTAAATAACTCAATAAT
1 GATTAAATAACTCAATAAT
*
59097354 GATTCAATAACTCAATAAT
1 GATTAAATAACTCAATAAT
59097373 GAT
1 GAT
59097376 ACATTGGCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.49, C:0.12, G:0.07, T:0.32
Consensus pattern (19 bp):
GATTAAATAACTCAATAAT
Found at i:59097998 original size:37 final size:38
Alignment explanation
Indices: 59097957--59098032 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
59097947 ATCTATTTTC
59097957 ATTTTCTTTCTTCTATC-TTTTTCCCTGGTCTGCTGGT
1 ATTTTCTTTCTTCTATCTTTTTTCCCTGGTCTGCTGGT
*
59097994 ATTTTTTTTCTTCTATCTTTTTTCCCTGGTCTGCTGGT
1 ATTTTCTTTCTTCTATCTTTTTTCCCTGGTCTGCTGGT
59098032 A
1 A
59098033 AAGAAGATGG
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
37 16 0.43
38 21 0.57
ACGTcount: A:0.07, C:0.22, G:0.13, T:0.58
Consensus pattern (38 bp):
ATTTTCTTTCTTCTATCTTTTTTCCCTGGTCTGCTGGT
Found at i:59102092 original size:40 final size:41
Alignment explanation
Indices: 59102010--59102220 Score: 257
Period size: 41 Copynumber: 5.2 Consensus size: 41
59102000 CTTTCGGGGT
* *
59102010 TTTAGCGGCGTTTTTTAGAAAGCGCCGCTAATGTTCTGGGA
1 TTTAGCGGCGTTTTTTAGGAAGCGCCGCTAATGCTCTGGGA
59102051 TTTAGCGGCGTTTTTTAGGAAGCGCCGCTAATGCTCT-GGA
1 TTTAGCGGCGTTTTTTAGGAAGCGCCGCTAATGCTCTGGGA
*** *
59102091 TTTAGCGATATTTTTTAGGAAGCGCTGCTAATGCTCTGGGA
1 TTTAGCGGCGTTTTTTAGGAAGCGCCGCTAATGCTCTGGGA
* * * * *
59102132 TTTAGCGGCGTCTTTTAGGAAGCGCCGCTATTGCTCAGTGC
1 TTTAGCGGCGTTTTTTAGGAAGCGCCGCTAATGCTCTGGGA
* * * *
59102173 TTTAGCGGCG-TTTTTAGAAAGCACCACTAATACT-TAGGGA
1 TTTAGCGGCGTTTTTTAGGAAGCGCCGCTAATGCTCT-GGGA
59102213 TTTAGCGG
1 TTTAGCGG
59102221 TACTAATGCT
Statistics
Matches: 144, Mismatches: 24, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
40 64 0.44
41 80 0.56
ACGTcount: A:0.20, C:0.18, G:0.28, T:0.33
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTTAGGAAGCGCCGCTAATGCTCTGGGA
Found at i:59102187 original size:81 final size:80
Alignment explanation
Indices: 59102010--59102220 Score: 262
Period size: 81 Copynumber: 2.6 Consensus size: 80
59102000 CTTTCGGGGT
* *
59102010 TTTAGCGGCGTTTTTTAGAAAGCGCCGCTAATGTTCTGGGATTTAGCGGCGTTTTTTAGGAAGCG
1 TTTAGCGGCG-TTTTTAGAAAGCGCCGCTAATGCTCTGGGATTTAGCGGCGTCTTTTAGGAAGCG
*
59102075 CCGCTAATGCTCTGGA
65 CCGCTAATGCTCAGGA
*** * *
59102091 TTTAGCGATATTTTTTAGGAAGCGCTGCTAATGCTCTGGGATTTAGCGGCGTCTTTTAGGAAGCG
1 TTTAGCG-GCGTTTTTAGAAAGCGCCGCTAATGCTCTGGGATTTAGCGGCGTCTTTTAGGAAGCG
* *
59102156 CCGCTATTGCTCAGTGC
65 CCGCTAATGCTCAG-GA
* * *
59102173 TTTAGCGGCGTTTTTAGAAAGCACCACTAATACT-TAGGGATTTAGCGG
1 TTTAGCGGCGTTTTTAGAAAGCGCCGCTAATGCTCT-GGGATTTAGCGG
59102221 TACTAATGCT
Statistics
Matches: 109, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
80 1 0.01
81 100 0.92
82 8 0.07
ACGTcount: A:0.20, C:0.18, G:0.28, T:0.33
Consensus pattern (80 bp):
TTTAGCGGCGTTTTTAGAAAGCGCCGCTAATGCTCTGGGATTTAGCGGCGTCTTTTAGGAAGCGC
CGCTAATGCTCAGGA
Found at i:59102290 original size:40 final size:40
Alignment explanation
Indices: 59102237--59102312 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
59102227 TGCTCGGGGC
**
59102237 TTTAGCGGCGTTTT-TGAAGTAGCGCCGCTAATGCTCTATT
1 TTTAGCGGCGTTTTCT-AAAAAGCGCCGCTAATGCTCTATT
*
59102277 TTTAGCGGCGTTTTCTAAAAAGCGTCGCTAATGCTC
1 TTTAGCGGCGTTTTCTAAAAAGCGCCGCTAATGCTC
59102313 AGGGATTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
40 31 0.97
41 1 0.03
ACGTcount: A:0.20, C:0.21, G:0.24, T:0.36
Consensus pattern (40 bp):
TTTAGCGGCGTTTTCTAAAAAGCGCCGCTAATGCTCTATT
Found at i:59102308 original size:105 final size:105
Alignment explanation
Indices: 59102118--59102321 Score: 252
Period size: 105 Copynumber: 1.9 Consensus size: 105
59102108 GGAAGCGCTG
* * *
59102118 CTAATGCTCTGGGATTTAGCGGCGTCTTTTAGGAAGCGCCGCTATTGCTCAGTGCTTTAGCGGCG
1 CTAATGCTCGGGGATTTAGCGGCGTCTTTTAAGAAGCGCCGCTAATGCTCAGTGCTTTAGCGGCG
* *
59102183 TTTTTAGAAAGCACCACTAATACTTAGGGATTTAGCGGTA
66 TTTTTAAAAAGCACCACTAATACTCAGGGATTTAGCGGTA
* * *
59102223 CTAATGCTCGGGGCTTTAGCGGCGT-TTTTGAAGTAGCGCCGCTAATGCTCTA-T-TTTTAGCGG
1 CTAATGCTCGGGGATTTAGCGGCGTCTTTT-AAGAAGCGCCGCTAATGCTC-AGTGCTTTAGCGG
** * *
59102285 CGTTTTCTAAAAAGCGTCGCTAATGCTCAGGGATTTA
64 CGTTTT-TAAAAAGCACCACTAATACTCAGGGATTTA
59102322 AAATAATTTA
Statistics
Matches: 84, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
104 18 0.21
105 65 0.77
106 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.26, T:0.32
Consensus pattern (105 bp):
CTAATGCTCGGGGATTTAGCGGCGTCTTTTAAGAAGCGCCGCTAATGCTCAGTGCTTTAGCGGCG
TTTTTAAAAAGCACCACTAATACTCAGGGATTTAGCGGTA
Found at i:59107278 original size:15 final size:15
Alignment explanation
Indices: 59107258--59107288 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
59107248 GAGTTGAAAG
59107258 TGAAGAAGAAGATGA
1 TGAAGAAGAAGATGA
*
59107273 TGAAGATGAAGATGA
1 TGAAGAAGAAGATGA
59107288 T
1 T
59107289 CCATATCCCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.32, T:0.19
Consensus pattern (15 bp):
TGAAGAAGAAGATGA
Found at i:59107604 original size:43 final size:43
Alignment explanation
Indices: 59107556--59107800 Score: 266
Period size: 43 Copynumber: 5.7 Consensus size: 43
59107546 ATCAAAGTGT
* * * *
59107556 CGCTAAAGGTCTTGAGCTATAGCGGCATTTGCGGAAAAAGCGC
1 CGCTAAAGGTCTTGAGCTTTAGCGGCGTTTGTGGGAAAAGCGC
* * *
59107599 CGCTAAAGGTC-TGGGTCTTTAGCGGCGTTTGTGGGAACAGCGT
1 CGCTAAAGGTCTTGAG-CTTTAGCGGCGTTTGTGGGAAAAGCGC
* * * *
59107642 CGCTAAAGGTCTGGATCTTTAGCAGCGTTTGTGGGAAAAGCAC
1 CGCTAAAGGTCTTGAGCTTTAGCGGCGTTTGTGGGAAAAGCGC
* ** * *
59107685 CGCTAAAGGTCCTGTTCTTTAGCAGCGTTTGTGGGAAAATCGC
1 CGCTAAAGGTCTTGAGCTTTAGCGGCGTTTGTGGGAAAAGCGC
*
59107728 CGCTAAAGGTCTTG-GTCTTTAGCGGCGTTT-TGGGAAAAGCGT
1 CGCTAAAGGTCTTGAG-CTTTAGCGGCGTTTGTGGGAAAAGCGC
*
59107770 CGCTAAAGGTCTTG-GTCTTTAGC-ACGTTTGT
1 CGCTAAAGGTCTTGAG-CTTTAGCGGCGTTTGT
59107801 TTCTAAAAAT
Statistics
Matches: 173, Mismatches: 25, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
41 5 0.03
42 37 0.21
43 130 0.75
44 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.31, T:0.29
Consensus pattern (43 bp):
CGCTAAAGGTCTTGAGCTTTAGCGGCGTTTGTGGGAAAAGCGC
Found at i:59107682 original size:86 final size:84
Alignment explanation
Indices: 59107531--59107800 Score: 301
Period size: 86 Copynumber: 3.2 Consensus size: 84
59107521 TAATAGTACT
**** * * * * * * *
59107531 TTTAGCGCGTTTGTAATCAAAGTGTCGCTAAAGGTCTTGAGCTATAGCGGCATTTGCGGAAAAAG
1 TTTAGCGCGTTTGTGGGAAAAGCGTCGCTAAAGGTCTGGATCTTTAGCGGCGTTTGTGGGAAAAG
59107596 CGCCGCTAAAGGTCTGGGTC
66 CGCCGCTAAAGGTCT-GGTC
* *
59107616 TTTAGCGGCGTTTGTGGGAACAGCGTCGCTAAAGGTCTGGATCTTTAGCAGCGTTTGTGGGAAAA
1 TTTAGC-GCGTTTGTGGGAAAAGCGTCGCTAAAGGTCTGGATCTTTAGCGGCGTTTGTGGGAAAA
* *
59107681 GCACCGCTAAAGGTCCTGTTC
65 GCGCCGCTAAAGGT-CTGGTC
* *
59107702 TTTAGCAGCGTTTGTGGGAAAATCGCCGCTAAAGGTCTTGG-TCTTTAGCGGCGTTT-TGGGAAA
1 TTTAGC-GCGTTTGTGGGAAAAGCGTCGCTAAAGGTC-TGGATCTTTAGCGGCGTTTGTGGGAAA
*
59107765 AGCGTCGCTAAAGGTCTTGGTC
64 AGCGCCGCTAAAGGTC-TGGTC
*
59107787 TTTAGCACGTTTGT
1 TTTAGCGCGTTTGT
59107801 TTCTAAAAAT
Statistics
Matches: 157, Mismatches: 24, Indels: 9
0.83 0.13 0.05
Matches are distributed among these distances:
84 8 0.05
85 36 0.23
86 108 0.69
87 5 0.03
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (84 bp):
TTTAGCGCGTTTGTGGGAAAAGCGTCGCTAAAGGTCTGGATCTTTAGCGGCGTTTGTGGGAAAAG
CGCCGCTAAAGGTCTGGTC
Found at i:59113072 original size:7 final size:7
Alignment explanation
Indices: 59113060--59113102 Score: 52
Period size: 7 Copynumber: 6.1 Consensus size: 7
59113050 TCTCTCTTTA
59113060 TTTTCTT
1 TTTTCTT
59113067 TTTTCTT
1 TTTTCTT
59113074 TTTTC-T
1 TTTTCTT
*
59113080 ATTTCTT
1 TTTTCTT
59113087 TCTTTCTT
1 T-TTTCTT
*
59113095 CTTTCTT
1 TTTTCTT
59113102 T
1 T
59113103 ATAATTTCTA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
6 5 0.17
7 19 0.63
8 6 0.20
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (7 bp):
TTTTCTT
Found at i:59113082 original size:21 final size:21
Alignment explanation
Indices: 59113048--59113100 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
59113038 TTACATTATT
*
59113048 TTTCTCTCTTTAT-TTTCTTT-
1 TTTCT-TCTTTCTATTTCTTTC
*
59113068 TTTCTTTTTTCTATTTCTTTC
1 TTTCTTCTTTCTATTTCTTTC
59113089 TTTCTTCTTTCT
1 TTTCTTCTTTCT
59113101 TTATAATTTC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 5 0.18
20 12 0.43
21 11 0.39
ACGTcount: A:0.04, C:0.21, G:0.00, T:0.75
Consensus pattern (21 bp):
TTTCTTCTTTCTATTTCTTTC
Found at i:59117958 original size:24 final size:24
Alignment explanation
Indices: 59117931--59117982 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
59117921 TTAGTAAGTC
* *
59117931 AAATAAACTATGCTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
59117955 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
59117979 AAAT
1 AAAT
59117983 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:59124612 original size:17 final size:17
Alignment explanation
Indices: 59124590--59124623 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
59124580 TTATGCGTAA
59124590 ACTTTTACGAAAGTTTT
1 ACTTTTACGAAAGTTTT
59124607 ACTTTTACGAAAGTTTT
1 ACTTTTACGAAAGTTTT
59124624 TCAAACTCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.12, G:0.12, T:0.47
Consensus pattern (17 bp):
ACTTTTACGAAAGTTTT
Found at i:59126333 original size:24 final size:24
Alignment explanation
Indices: 59126306--59126351 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
59126296 AACCTAATTC
59126306 TAATCAAA-GTCAAATATATTATGT
1 TAAT-AAATGTCAAATATATTATGT
*
59126330 TAATAAATGTTAAATATATTAT
1 TAATAAATGTCAAATATATTAT
59126352 ACTCATAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 3 0.15
24 17 0.85
ACGTcount: A:0.48, C:0.04, G:0.07, T:0.41
Consensus pattern (24 bp):
TAATAAATGTCAAATATATTATGT
Found at i:59126367 original size:24 final size:24
Alignment explanation
Indices: 59126317--59126368 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
59126307 AATCAAAGTC
** **
59126317 AAATATATTATGTTAATAAATGTT
1 AAATATATTATACTAATAAATACT
*
59126341 AAATATATTATACTCATAAATACT
1 AAATATATTATACTAATAAATACT
59126365 AAAT
1 AAAT
59126369 CTTCTAGAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.40
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:59130759 original size:24 final size:24
Alignment explanation
Indices: 59130732--59130783 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
59130722 AATCAAAGTC
*
59130732 AAATATATTATGT-TAATAAATGCT
1 AAATATATTAT-TCTAATAAATACT
*
59130756 AAATATATTATTCTCATAAATACT
1 AAATATATTATTCTAATAAATACT
59130780 AAAT
1 AAAT
59130784 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 1 0.04
24 24 0.96
ACGTcount: A:0.48, C:0.08, G:0.04, T:0.40
Consensus pattern (24 bp):
AAATATATTATTCTAATAAATACT
Found at i:59131839 original size:20 final size:21
Alignment explanation
Indices: 59131806--59131847 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
59131796 CTTTTTTCTC
59131806 GTGTGATGCACAAGTGTAATGT
1 GTGTGATG-ACAAGTGTAATGT
59131828 GTGTGATG-CAAGTGTAATGT
1 GTGTGATGACAAGTGTAATGT
59131848 ATGTATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 12 0.60
22 8 0.40
ACGTcount: A:0.26, C:0.07, G:0.33, T:0.33
Consensus pattern (21 bp):
GTGTGATGACAAGTGTAATGT
Found at i:59134270 original size:107 final size:108
Alignment explanation
Indices: 59134127--59134540 Score: 681
Period size: 108 Copynumber: 3.9 Consensus size: 108
59134117 AAATAATAAG
* *
59134127 TAAGGCAATGTTTTGCGTTT-GGAAATTCAAGAAAACGTATCCTAATGTGTTGGGTTTCGA-TTT
1 TAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACGTACCCTAATGTGTTGGGTTTCGATTTT
59134190 TTCGTTCGACCAAATAGCCAAATATCCTTATAAAATTTCAAAA
66 TTCGTTCGACCAAATAGCCAAATATCCTTATAAAATTTCAAAA
*
59134233 TAAGGCAATGTTTTGTGTTTGGGAAATTCGAGAAAACGTACCCTAATGTGTTGGGTTTCGATTTT
1 TAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACGTACCCTAATGTGTTGGGTTTCGATTTT
*
59134298 TTCATTCGACCAAATAGCCAAATATCCTTATAAAATTTCAAAA
66 TTCGTTCGACCAAATAGCCAAATATCCTTATAAAATTTCAAAA
** * *
59134341 TAAGGCAATGTTTTGTATTTGGAAAATTCGAGAAAACGTACCCTAATGTGTTGGGTTTCAATTTT
1 TAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACGTACCCTAATGTGTTGGGTTTCGATTTT
*
59134406 TTCGTTCGACCAAATAGCCAAAAATCCTTATAAAATTTCAAAA
66 TTCGTTCGACCAAATAGCCAAATATCCTTATAAAATTTCAAAA
* * *
59134449 TAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACGTGCCCTAATGTGCTGAGTTTCGA-TTT
1 TAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACGTACCCTAATGTGTTGGGTTTCGATTTT
* *
59134513 CTCGTTGGACCAAATAGCCAAATATCCT
66 TTCGTTCGACCAAATAGCCAAATATCCT
59134541 CTTGAATCTT
Statistics
Matches: 287, Mismatches: 19, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
106 19 0.07
107 66 0.23
108 202 0.70
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (108 bp):
TAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACGTACCCTAATGTGTTGGGTTTCGATTTT
TTCGTTCGACCAAATAGCCAAATATCCTTATAAAATTTCAAAA
Found at i:59139268 original size:9 final size:9
Alignment explanation
Indices: 59139230--59139393 Score: 59
Period size: 9 Copynumber: 17.7 Consensus size: 9
59139220 ACATGTGAAA
59139230 AAAAATTAT
1 AAAAATTAT
*
59139239 AAAAA-AAT
1 AAAAATTAT
*
59139247 AAAAAATCAAT
1 -AAAAAT-TAT
*
59139258 AAAAGTTAT
1 AAAAATTAT
59139267 AAAAATTAT
1 AAAAATTAT
* *
59139276 TAAACTTCAAT
1 AAAAATT--AT
*
59139287 AAAAAATAT
1 AAAAATTAT
59139296 AAAAATATATTT
1 AAAAAT-TA--T
**
59139308 AAATGTTACT
1 AAAAATTA-T
*
59139318 AAAAATTAG
1 AAAAATTAT
*
59139327 AAATA-TAT
1 AAAAATTAT
*
59139335 -ATAATGTA-
1 AAAAAT-TAT
*
59139343 AAAAAATAT
1 AAAAATTAT
*
59139352 AAAAATTGT
1 AAAAATTAT
*
59139361 AAAATTTTAT
1 AAAA-ATTAT
*
59139371 AAAAATCAT
1 AAAAATTAT
*
59139380 AAAAAAT-T
1 AAAAATTAT
59139388 AAAAAT
1 AAAAAT
59139394 GCATCAAAAA
Statistics
Matches: 111, Mismatches: 31, Indels: 27
0.66 0.18 0.16
Matches are distributed among these distances:
7 2 0.02
8 12 0.11
9 60 0.54
10 21 0.19
11 11 0.10
12 5 0.05
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.30
Consensus pattern (9 bp):
AAAAATTAT
Found at i:59139402 original size:18 final size:17
Alignment explanation
Indices: 59139370--59139403 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
59139360 TAAAATTTTA
59139370 TAAAAATCATAAAAAAT
1 TAAAAATCATAAAAAAT
*
59139387 TAAAAATGCATCAAAAA
1 TAAAAAT-CATAAAAAA
59139404 GACCATTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.68, C:0.09, G:0.03, T:0.21
Consensus pattern (17 bp):
TAAAAATCATAAAAAAT
Found at i:59142980 original size:7 final size:7
Alignment explanation
Indices: 59142960--59143014 Score: 67
Period size: 7 Copynumber: 7.7 Consensus size: 7
59142950 TATTTAAAAA
59142960 TATTATT
1 TATTATT
59142967 T-TTATT
1 TATTATT
59142973 TATTATT
1 TATTATT
59142980 TATTATT
1 TATTATT
*
59142987 TAATATT
1 TATTATT
*
59142994 TAATATT
1 TATTATT
59143001 TATATATTT
1 TAT-TA-TT
59143010 TATTA
1 TATTA
59143015 CAATTATACA
Statistics
Matches: 43, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
6 6 0.14
7 28 0.65
8 4 0.09
9 5 0.12
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (7 bp):
TATTATT
Found at i:59142995 original size:21 final size:20
Alignment explanation
Indices: 59142939--59143013 Score: 75
Period size: 20 Copynumber: 3.8 Consensus size: 20
59142929 AACATTGTCC
59142939 ATTTATT-TTTATATTTAA-
1 ATTTATTATTTATATTTAAT
** * *
59142957 AAATATTATTTTTATTTATT
1 ATTTATTATTTATATTTAAT
59142977 ATTTATTATTTAATATTTAAT
1 ATTTATTATTT-ATATTTAAT
59142998 ATTTATATATTT-TATT
1 ATTTAT-TATTTATATT
59143014 ACAATTATAC
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
18 5 0.11
19 9 0.20
20 13 0.29
21 13 0.29
22 5 0.11
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (20 bp):
ATTTATTATTTATATTTAAT
Found at i:59145909 original size:41 final size:42
Alignment explanation
Indices: 59145814--59145954 Score: 196
Period size: 41 Copynumber: 3.4 Consensus size: 42
59145804 AGCGTTTACA
* *
59145814 AAAATAAACGCCGCTGAAGGTCATGTTCTTTAGCGGCGCTTAG
1 AAAA-AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG
59145857 AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGC-CTTAG
1 AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG
* * **
59145898 AAAAAAACGCCGTTAAAGATCATGTTTTTTAGCGGCGCCCAG
1 AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG
*
59145940 -AAAAAACGCCACTAA
1 AAAAAAACGCCGCTAA
59145955 TGTTGGGATT
Statistics
Matches: 89, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
41 52 0.58
42 33 0.37
43 4 0.04
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.23
Consensus pattern (42 bp):
AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG
Found at i:59146331 original size:21 final size:21
Alignment explanation
Indices: 59146305--59146344 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
59146295 CGTTGCTTCT
*
59146305 CTCGCTGTAGCCTCTGCATCC
1 CTCGCTGCAGCCTCTGCATCC
*
59146326 CTCGCTGCCGCCTCTGCAT
1 CTCGCTGCAGCCTCTGCAT
59146345 TAAGTTGTAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.07, C:0.45, G:0.20, T:0.28
Consensus pattern (21 bp):
CTCGCTGCAGCCTCTGCATCC
Found at i:59152444 original size:9 final size:9
Alignment explanation
Indices: 59152430--59152668 Score: 103
Period size: 9 Copynumber: 27.4 Consensus size: 9
59152420 AGTATATATG
59152430 AGTTATGTA
1 AGTTATGTA
59152439 AGTTATGATA
1 AGTTATG-TA
* * *
59152449 TGATATAT-
1 AGTTATGTA
*
59152457 ATTTATGT-
1 AGTTATGTA
*
59152465 A-TTACGTA
1 AGTTATGTA
*
59152473 AATTATGTA
1 AGTTATGTA
*
59152482 AATTATGTA
1 AGTTATGTA
59152491 AGTTATGTA
1 AGTTATGTA
* *
59152500 AGTAATAT-
1 AGTTATGTA
59152508 A-TTATGTA
1 AGTTATGTA
*
59152516 AGTTGTGTATA
1 AGTTATG--TA
*
59152527 ATGTAAT-TA
1 A-GTTATGTA
59152536 AGTTATGTA
1 AGTTATGTA
*
59152545 AG-T-TGCA
1 AGTTATGTA
59152552 AGTTATGT-
1 AGTTATGTA
59152560 A-TTATGTA
1 AGTTATGTA
*
59152568 AGTTATTTA
1 AGTTATGTA
*
59152577 AGTTATATA
1 AGTTATGTA
*
59152586 AGTTGTGT-
1 AGTTATGTA
*
59152594 A-TTATGTG
1 AGTTATGTA
*
59152602 AGTTATGCA
1 AGTTATGTA
*
59152611 ATTTATGTA
1 AGTTATGTA
* * *
59152620 GGCTATAT-
1 AGTTATGTA
59152628 A-TTATGTA
1 AGTTATGTA
59152636 AGTTAT-TA
1 AGTTATGTA
*
59152644 TGTTATTATGTA
1 AG---TTATGTA
*
59152656 AGTTATGCA
1 AGTTATGTA
59152665 AGTT
1 AGTT
59152669 TAATTATATA
Statistics
Matches: 170, Mismatches: 39, Indels: 42
0.68 0.16 0.17
Matches are distributed among these distances:
7 29 0.17
8 22 0.13
9 100 0.59
10 6 0.04
11 7 0.04
12 6 0.04
ACGTcount: A:0.34, C:0.02, G:0.18, T:0.46
Consensus pattern (9 bp):
AGTTATGTA
Found at i:59152511 original size:25 final size:25
Alignment explanation
Indices: 59152483--59152547 Score: 77
Period size: 25 Copynumber: 2.8 Consensus size: 25
59152473 AATTATGTAA
59152483 ATTATGTAAGTTATGTAAGTAATAT
1 ATTATGTAAGTTATGTAAGTAATAT
* *
59152508 ATTATGTAAGTTGTGT-A-TAATGT
1 ATTATGTAAGTTATGTAAGTAATAT
59152531 A--AT-TAAGTTATGTAAGT
1 ATTATGTAAGTTATGTAAGT
59152548 TGCAAGTTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
20 9 0.26
21 3 0.09
22 1 0.03
23 6 0.17
24 1 0.03
25 15 0.43
ACGTcount: A:0.37, C:0.00, G:0.18, T:0.45
Consensus pattern (25 bp):
ATTATGTAAGTTATGTAAGTAATAT
Found at i:59152599 original size:41 final size:42
Alignment explanation
Indices: 59152464--59152600 Score: 125
Period size: 41 Copynumber: 3.2 Consensus size: 42
59152454 TATATTTATG
* * **
59152464 TATTACGTAAATTATGTAAATTATGTAAGTTATGTAAGTAATA
1 TATTATGT-AATTATGTAAATTATTTAAGTTATGTAAGTTGTA
* * *
59152507 TATTATGTAAGTTGTGTATAATGTAATTAAGTTATGTAAGTTGCA
1 TATTATGTAA-TTATGTA-AAT-TATTTAAGTTATGTAAGTTGTA
* * *
59152552 -AGTTATGT-ATTATGTAAGTTATTTAAGTTATATAAGTTGTG
1 TA-TTATGTAATTATGTAAATTATTTAAGTTATGTAAGTTGTA
59152593 TATTATGT
1 TATTATGT
59152601 GAGTTATGCA
Statistics
Matches: 76, Mismatches: 13, Indels: 12
0.75 0.13 0.12
Matches are distributed among these distances:
41 24 0.32
42 5 0.07
43 19 0.25
44 5 0.07
45 23 0.30
ACGTcount: A:0.35, C:0.01, G:0.18, T:0.46
Consensus pattern (42 bp):
TATTATGTAATTATGTAAATTATTTAAGTTATGTAAGTTGTA
Found at i:59152764 original size:16 final size:15
Alignment explanation
Indices: 59152742--59152785 Score: 58
Period size: 14 Copynumber: 3.1 Consensus size: 15
59152732 TTTTACTTAC
59152742 TTATATAATTAAG-T
1 TTATATAATTAAGTT
59152756 TTATAT-A-TAAGTT
1 TTATATAATTAAGTT
59152769 TCTATATAATTAAGTT
1 T-TATATAATTAAGTT
59152785 T
1 T
59152786 ATTTTACTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 4 0.15
13 3 0.12
14 11 0.42
15 1 0.04
16 7 0.27
ACGTcount: A:0.39, C:0.02, G:0.07, T:0.52
Consensus pattern (15 bp):
TTATATAATTAAGTT
Found at i:59152775 original size:28 final size:27
Alignment explanation
Indices: 59152687--59152826 Score: 142
Period size: 27 Copynumber: 5.1 Consensus size: 27
59152677 TATAAGTTTC
*
59152687 TATATAATTAAGTTTATTTTACTTACT
1 TATATAATTAAGTTTATTTAACTTACT
* * *
59152714 TCATTATATAGTCA-TTTATTTTACTTACT
1 T-A-TATA-ATTAAGTTTATTTAACTTACT
* *
59152743 TATATAATTAAGTTTATATATAAGTTTC-
1 TATATAATTAAGTTTAT-T-TAACTTACT
*
59152771 TATATAATTAAGTTTATTTTACTTACT
1 TATATAATTAAGTTTATTTAACTTACT
59152798 TATATAATTAAGTTTAATTT-ACTTACT
1 TATATAATTAAGTTT-ATTTAACTTACT
59152825 TA
1 TA
59152827 ATTATATAGT
Statistics
Matches: 95, Mismatches: 10, Indels: 16
0.79 0.08 0.13
Matches are distributed among these distances:
26 8 0.08
27 35 0.37
28 24 0.25
29 25 0.26
30 3 0.03
ACGTcount: A:0.34, C:0.08, G:0.04, T:0.54
Consensus pattern (27 bp):
TATATAATTAAGTTTATTTAACTTACT
Found at i:59152844 original size:84 final size:84
Alignment explanation
Indices: 59152672--59152826 Score: 244
Period size: 84 Copynumber: 1.9 Consensus size: 84
59152662 GCAAGTTTAA
* *
59152672 TTATATATAAGTTTCTATATAATTAAGTTTATTTTACTTACTTCATTATATAGTCATTTATTTTA
1 TTATATATAAGTTTCTATATAATTAAGTTTATTTTACTTACTTCATTATATAGTAATTTAATTTA
*
59152737 CTTACTTATATAATTAAGT
66 CTTACTTATATAAGTAAGT
*
59152756 TTATATATAAGTTTCTATATAATTAAGTTTATTTTACTTACTT-A-TATA-ATTAAGTTTAATTT
1 TTATATATAAGTTTCTATATAATTAAGTTTATTTTACTTACTTCATTATATAGTAA-TTTAATTT
59152818 ACTTACTTA
65 ACTTACTTA
59152827 ATTATATAGT
Statistics
Matches: 67, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
81 3 0.04
82 20 0.30
83 1 0.01
84 43 0.64
ACGTcount: A:0.34, C:0.08, G:0.05, T:0.54
Consensus pattern (84 bp):
TTATATATAAGTTTCTATATAATTAAGTTTATTTTACTTACTTCATTATATAGTAATTTAATTTA
CTTACTTATATAAGTAAGT
Found at i:59155312 original size:21 final size:22
Alignment explanation
Indices: 59155288--59155341 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 22
59155278 AAACTTAAAT
*
59155288 TAAACCCTAAACCC-TAAATTA
1 TAAACCCTAAACCCGTAAACTA
*
59155309 TAAA--CTATAACCCGTAAACTG
1 TAAACCCTA-AACCCGTAAACTA
59155330 TAAACCCTAAAC
1 TAAACCCTAAAC
59155342 TATAAACAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
19 3 0.11
20 5 0.19
21 13 0.48
22 3 0.11
23 3 0.11
ACGTcount: A:0.46, C:0.28, G:0.04, T:0.22
Consensus pattern (22 bp):
TAAACCCTAAACCCGTAAACTA
Found at i:59155326 original size:14 final size:14
Alignment explanation
Indices: 59155309--59155361 Score: 54
Period size: 14 Copynumber: 3.7 Consensus size: 14
59155299 CCCTAAATTA
59155309 TAAACTATAACCCG
1 TAAACTATAACCCG
*
59155323 TAAACTGTAAACCC-
1 TAAACTAT-AACCCG
* *
59155337 TAAACTATAAACAG
1 TAAACTATAACCCG
59155351 TAAACCTATAA
1 TAAA-CTATAA
59155362 ACCGCAAACA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
13 3 0.09
14 18 0.56
15 11 0.34
ACGTcount: A:0.49, C:0.23, G:0.06, T:0.23
Consensus pattern (14 bp):
TAAACTATAACCCG
Found at i:59155385 original size:22 final size:22
Alignment explanation
Indices: 59155360--59155404 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
59155350 GTAAACCTAT
59155360 AAACCGCAAACA-CCAACCACCA
1 AAACCGCAAA-ATCCAACCACCA
* *
59155382 AAACCTCAAAATCCAACCCCCA
1 AAACCGCAAAATCCAACCACCA
59155404 A
1 A
59155405 TATACCATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 1 0.05
22 19 0.95
ACGTcount: A:0.49, C:0.44, G:0.02, T:0.04
Consensus pattern (22 bp):
AAACCGCAAAATCCAACCACCA
Found at i:59155520 original size:15 final size:15
Alignment explanation
Indices: 59155480--59155521 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
59155470 ATTGTAAATT
*
59155480 GTAAACCCTAAA-CC
1 GTAAACCATAAACCC
59155494 GTAAA-CATTAAACCC
1 GTAAACCA-TAAACCC
59155509 GTAAACCATAAAC
1 GTAAACCATAAAC
59155522 ACCAACCAGC
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
13 1 0.04
14 9 0.38
15 12 0.50
16 2 0.08
ACGTcount: A:0.48, C:0.29, G:0.07, T:0.17
Consensus pattern (15 bp):
GTAAACCATAAACCC
Found at i:59155520 original size:22 final size:21
Alignment explanation
Indices: 59155481--59155522 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
59155471 TTGTAAATTG
*
59155481 TAAACCCTAAACCGTAAACAT
1 TAAACCCTAAACCATAAACAT
59155502 TAAACCCGTAAACCATAAACA
1 TAAACCC-TAAACCATAAACA
59155523 CCAACCAGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.50, C:0.29, G:0.05, T:0.17
Consensus pattern (21 bp):
TAAACCCTAAACCATAAACAT
Found at i:59156154 original size:72 final size:71
Alignment explanation
Indices: 59156048--59156549 Score: 459
Period size: 72 Copynumber: 6.9 Consensus size: 71
59156038 TTTTCAAGAA
* * * * *
59156048 AAACGCCGCTAATACCACTGCATCTCAAATCAAAATGATGCGTTTTAATTATTTTTTGCGGCGTT
1 AAACGCCGCTAATGCCACTACATCTCAAATCAAAACGATGCGTTTTGATT-TTTTTTGCGGCGCT
59156113 TTTACAG
65 TTTACAG
* * * * * *
59156120 AAACACCGCTAATGCCACTAAATCTGAAACCAAAACGATGCGTTTTGGTTTTTTTTGGTGGCGCT
1 AAACGCCGCTAATGCCACTACATCTCAAATCAAAACGATGCGTTTTGATTTTTTTT-GCGGCGCT
59156185 TTTACAG
65 TTTACAG
* * * *
59156192 AAGCGCCGCTAATGCCACTACATCTCATATCAAAACGATGCGTTTTGGTTTGTTTTTTGTGGCGC
1 AAACGCCGCTAATGCCACTACATCTCAAATCAAAACGATGCGTTTT-GATT-TTTTTTGCGGCGC
*
59156257 TTATACAG
64 TTTTACAG
* * * * ** *
59156265 AAGCGCCACTAATGCCACTACATCTCAAATCAAAACGATGTGTTTTGGTTATTCCTTGCTGCGCT
1 AAACGCCGCTAATGCCACTACATCTCAAATCAAAACGATGCGTTTTGATT-TTTTTTGCGGCGCT
**
59156330 TTTATGG
65 TTTACAG
* * * * * *
59156337 AAGCGCCGCTAATGCAACTACATCCCAAAT-AAAAGCGATGTGTTTTGATTATTATTTGCGGTGC
1 AAACGCCGCTAATGCCACTACATCTCAAATCAAAA-CGATGCGTTTTGATT-TTTTTTGCGGCGC
***
59156401 TTTTGTGG
64 TTTTACAG
* * * *
59156409 AATCGCCGCTAATGCCACAACATCTCAAATCAAAACGAAGCGTTTGGGTTATTTTTTGTTGCGGC
1 AAACGCCGCTAATGCCACTACATCTCAAATCAAAACGATGCGTTT---TGATTTTTT-TTGCGGC
* *
59156474 GTTTTTACGG
62 GCTTTTACAG
* * * * * * *
59156484 AATA-GTCACTAATCCCACTACAACTCAAATCAAAACGATGTGTTTGGATTTTTTTTGCGGTGCT
1 AA-ACGCCGCTAATGCCACTACATCTCAAATCAAAACGATGCGTTTTGATTTTTTTTGCGGCGCT
59156548 TT
65 TT
59156550 ATCGAAAATG
Statistics
Matches: 356, Mismatches: 64, Indels: 21
0.81 0.15 0.05
Matches are distributed among these distances:
71 20 0.06
72 210 0.59
73 64 0.18
74 9 0.03
75 53 0.15
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (71 bp):
AAACGCCGCTAATGCCACTACATCTCAAATCAAAACGATGCGTTTTGATTTTTTTTGCGGCGCTT
TTACAG
Found at i:59156701 original size:40 final size:40
Alignment explanation
Indices: 59156645--59156739 Score: 104
Period size: 40 Copynumber: 2.4 Consensus size: 40
59156635 GCTAAATTCA
* *
59156645 TATTATTAGCGGCGTTTACT-TAGAAT-CGCCGTTAATGCTC
1 TATTTTTAGCGGCGTTTACTCT-G-ATGCGCCGTTAATACTC
* *
59156685 TATTTTTAGTGGCGTTTTCTCTGATGCGCCGTTAATACTC
1 TATTTTTAGCGGCGTTTACTCTGATGCGCCGTTAATACTC
* *
59156725 GATTTTTACCGGCGT
1 TATTTTTAGCGGCGT
59156740 CTGTTATCCA
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
39 2 0.04
40 43 0.93
41 1 0.02
ACGTcount: A:0.18, C:0.20, G:0.21, T:0.41
Consensus pattern (40 bp):
TATTTTTAGCGGCGTTTACTCTGATGCGCCGTTAATACTC
Found at i:59158386 original size:48 final size:49
Alignment explanation
Indices: 59158294--59158387 Score: 127
Period size: 48 Copynumber: 1.9 Consensus size: 49
59158284 GGGAATTCTA
* *
59158294 TTGAATCCTTTATCATTGCGAGATTAAGCTAACTTAGGTGTTTTTACTG
1 TTGAATCCGTTATCATTGCGAGATTAAGCTAACTTAGGTATTTTTACTG
* * * *
59158343 TTGAGTCCGTTATCATTGTGAG-TTAGGCTGACTTAGGTATTTTTA
1 TTGAATCCGTTATCATTGCGAGATTAAGCTAACTTAGGTATTTTTA
59158388 AGCAAAGAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
48 20 0.51
49 19 0.49
ACGTcount: A:0.22, C:0.13, G:0.21, T:0.44
Consensus pattern (49 bp):
TTGAATCCGTTATCATTGCGAGATTAAGCTAACTTAGGTATTTTTACTG
Found at i:59162346 original size:40 final size:40
Alignment explanation
Indices: 59162274--59162393 Score: 116
Period size: 40 Copynumber: 3.0 Consensus size: 40
59162264 TACGTGTATA
* * * *
59162274 TATATATATTCATATATTTTAA-TTCATGTACATATATATG
1 TATATATATACATATTTTTTAACTT-GTATACATATATATG
* * * *
59162314 TATATATATACTTATTTTTTAACTTGTATACATGTCTATA
1 TATATATATACATATTTTTTAACTTGTATACATATATATG
* * * *
59162354 TATTTATGTACATATTTTTTAACTTTTATAAATATATATG
1 TATATATATACATATTTTTTAACTTGTATACATATATATG
59162394 CATACTTGAA
Statistics
Matches: 63, Mismatches: 16, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
40 61 0.97
41 2 0.03
ACGTcount: A:0.35, C:0.07, G:0.05, T:0.53
Consensus pattern (40 bp):
TATATATATACATATTTTTTAACTTGTATACATATATATG
Found at i:59162429 original size:24 final size:24
Alignment explanation
Indices: 59162365--59162436 Score: 72
Period size: 28 Copynumber: 2.8 Consensus size: 24
59162355 ATTTATGTAC
* * *
59162365 ATATTTTTTAACTTTTATAAATAT
1 ATATCTTTTAATTTTTATATATAT
*
59162389 ATATGCATACTTGAATTTTTATATATAT
1 ATAT-C-T--TTTAATTTTTATATATAT
59162417 ATATCTTTTAATTTTTATAT
1 ATATCTTTTAATTTTTATAT
59162437 GTGTGTACAT
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
24 17 0.44
26 2 0.05
27 1 0.03
28 19 0.49
ACGTcount: A:0.35, C:0.06, G:0.03, T:0.57
Consensus pattern (24 bp):
ATATCTTTTAATTTTTATATATAT
Found at i:59162569 original size:12 final size:13
Alignment explanation
Indices: 59162552--59162580 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
59162542 GTTTTAATAT
59162552 TATTTG-TTTGTA
1 TATTTGTTTTGTA
59162564 TATTTGTTTTGTA
1 TATTTGTTTTGTA
59162577 TATT
1 TATT
59162581 ATGGGTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.38
13 10 0.62
ACGTcount: A:0.17, C:0.00, G:0.14, T:0.69
Consensus pattern (13 bp):
TATTTGTTTTGTA
Found at i:59164650 original size:255 final size:255
Alignment explanation
Indices: 59164199--59165108 Score: 1766
Period size: 255 Copynumber: 3.6 Consensus size: 255
59164189 AAATAAAATT
59164199 TAAGCAATCAAATAATTAAATGTAGTAAAAATATAACCTATATTCATCATTCTCAAAATAACAAC
1 TAAGCAATCAAATAATTAAATGTAGTAAAAATATAACCTATATTCATCATTCTCAAAATAACAAC
*
59164264 CTTTAATGAACATTATCATAAGAATTAAGCAATAGACCAAACCAATCATCACCAAAACATGCAAC
66 CTTTAATGAACATTATCATAAGAATTAAGCAATAGACCAAACCAACCATCACCAAAACATGCAAC
59164329 ATAGCATATATATATTCATCATTCTCAAAATAACAACCTTTAATGAACATTATCATAAGAATTAA
131 ATAGCATATATATATTCATCATTCTCAAAATAACAACCTTTAATGAACATTATCATAAGAATTAA
59164394 GCAATAGACCAAACCAACCATCACCTATATAAGCATATAAGCAATCAGAACATTAGCATA
196 GCAATAGACCAAACCAACCATCACCTATATAAGCATATAAGCAATCAGAACATTAGCATA
*
59164454 TAAGCAATCAACTAATTAAATGTAGTAAAAATATAACCTATATTCATCATTCTCAAAATAACAAC
1 TAAGCAATCAAATAATTAAATGTAGTAAAAATATAACCTATATTCATCATTCTCAAAATAACAAC
*
59164519 CTTTAATGAACATTATCATAAGAATTAAGCAATAGACCAAACCAATCATCACCAAAACATGCAAC
66 CTTTAATGAACATTATCATAAGAATTAAGCAATAGACCAAACCAACCATCACCAAAACATGCAAC
59164584 ATAGCATATATATATTCATCATTCTCAAAATAACAACCTTTAATGAACATTATCATAAGAATTAA
131 ATAGCATATATATATTCATCATTCTCAAAATAACAACCTTTAATGAACATTATCATAAGAATTAA
59164649 GCAATAGACCAAACCAACCATCACCTATATAAGCATATAAGCAATCAGAACATTAGCATA
196 GCAATAGACCAAACCAACCATCACCTATATAAGCATATAAGCAATCAGAACATTAGCATA
*
59164709 TAAGCAATCAACTAATTAAATGTAGTAAAAATATAACCTATATTCATCATTCTCAAAATAACAAC
1 TAAGCAATCAAATAATTAAATGTAGTAAAAATATAACCTATATTCATCATTCTCAAAATAACAAC
*
59164774 CTTTAATGAACATTATCATAAGAATTAAGTAATAGACCAAACCAACCATCACCAAAACATGCAAC
66 CTTTAATGAACATTATCATAAGAATTAAGCAATAGACCAAACCAACCATCACCAAAACATGCAAC
59164839 ATAGCATATATATATTCATCATTCTCAAAATAACAACCTTTAATGAACATTATCATAAGAATTAA
131 ATAGCATATATATATTCATCATTCTCAAAATAACAACCTTTAATGAACATTATCATAAGAATTAA
59164904 GCAATAGACCAAACCAACCATCACCTATATAAGCATATAAGCAATCAGAACATTAGCATA
196 GCAATAGACCAAACCAACCATCACCTATATAAGCATATAAGCAATCAGAACATTAGCATA
59164964 TAAGCAATCAAATAATTAAATGTAGTAAAAATATAACCTATATTCATCATTCTCAAAATAACAAC
1 TAAGCAATCAAATAATTAAATGTAGTAAAAATATAACCTATATTCATCATTCTCAAAATAACAAC
*
59165029 CTTTAATGAACATTATCATAAGAATTAAGCAATAGACCAAACCAACCATCACCAAAACATGAAAC
66 CTTTAATGAACATTATCATAAGAATTAAGCAATAGACCAAACCAACCATCACCAAAACATGCAAC
59165094 ATAGCATATATATAT
131 ATAGCATATATATAT
59165109 ACTTTCACAA
Statistics
Matches: 649, Mismatches: 6, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
255 649 1.00
ACGTcount: A:0.48, C:0.20, G:0.07, T:0.26
Consensus pattern (255 bp):
TAAGCAATCAAATAATTAAATGTAGTAAAAATATAACCTATATTCATCATTCTCAAAATAACAAC
CTTTAATGAACATTATCATAAGAATTAAGCAATAGACCAAACCAACCATCACCAAAACATGCAAC
ATAGCATATATATATTCATCATTCTCAAAATAACAACCTTTAATGAACATTATCATAAGAATTAA
GCAATAGACCAAACCAACCATCACCTATATAAGCATATAAGCAATCAGAACATTAGCATA
Found at i:59164981 original size:23 final size:23
Alignment explanation
Indices: 59164935--59164981 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
59164925 CACCTATATA
*
59164935 AGCATATAAGCAATCAGAACATT
1 AGCATATAAGCAATCAGAAAATT
59164958 AGCATATAAGCAATCA-AATAATT
1 AGCATATAAGCAATCAGAA-AATT
59164981 A
1 A
59164982 AATGTAGTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 2 0.09
23 20 0.91
ACGTcount: A:0.51, C:0.15, G:0.11, T:0.23
Consensus pattern (23 bp):
AGCATATAAGCAATCAGAAAATT
Found at i:59167206 original size:3 final size:3
Alignment explanation
Indices: 59167188--59167275 Score: 77
Period size: 3 Copynumber: 28.7 Consensus size: 3
59167178 AAAAGGTATT
* * ** * *
59167188 TAA TAA TAT TAG TAA TAA TAA TGC TAA TAA TAA TAA TAA TTA TTA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* **
59167236 TAG TGT TAA TAA TAA TATA TAA TAA TAA TAA TAAA TAA TA
1 TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA T-AA TAA TA
59167276 GCACACATTA
Statistics
Matches: 69, Mismatches: 14, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
3 63 0.91
4 6 0.09
ACGTcount: A:0.56, C:0.01, G:0.05, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:59167794 original size:2 final size:2
Alignment explanation
Indices: 59167789--59167825 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
59167779 AAAAAAAAAC
59167789 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
59167826 TGCTCTCTCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:59168079 original size:16 final size:17
Alignment explanation
Indices: 59168053--59168084 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
59168043 CAAGTAAGGC
59168053 TTTTCCTTTTCTTTTTG
1 TTTTCCTTTTCTTTTTG
59168070 TTTT-CTTTTCTTTTT
1 TTTTCCTTTTCTTTTT
59168085 AGTATGAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.00, C:0.16, G:0.03, T:0.81
Consensus pattern (17 bp):
TTTTCCTTTTCTTTTTG
Found at i:59176067 original size:3 final size:3
Alignment explanation
Indices: 59176059--59176084 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
59176049 GGAAGGGGAA
59176059 AGG AGG AGG AGG AGG AGG AGG AGG AG
1 AGG AGG AGG AGG AGG AGG AGG AGG AG
59176085 TTTCAAAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.65, T:0.00
Consensus pattern (3 bp):
AGG
Found at i:59183867 original size:3 final size:3
Alignment explanation
Indices: 59183859--59183892 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
59183849 CCGTATGAAC
59183859 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
59183893 GCTCCTGCGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:59185532 original size:21 final size:21
Alignment explanation
Indices: 59185506--59185550 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
59185496 ACAAGGAAAC
*
59185506 AAAACAACAAGGAAAGAAATA
1 AAAACAACAAGGAAAGAAAGA
* *
59185527 AAAACAGCAAGGATAGAAAGA
1 AAAACAACAAGGAAAGAAAGA
59185548 AAA
1 AAA
59185551 TCAAAGATTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.69, C:0.09, G:0.18, T:0.04
Consensus pattern (21 bp):
AAAACAACAAGGAAAGAAAGA
Found at i:59185774 original size:23 final size:23
Alignment explanation
Indices: 59185730--59185775 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
59185720 TACTTGTATT
*
59185730 TCTATTTTATTTTTTCCGTTATA
1 TCTATTTTATTTTTTCAGTTATA
*
59185753 TCTA-TTTATTTTTATCATTTATA
1 TCTATTTTATTTTT-TCAGTTATA
59185776 AATAATATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.22, C:0.11, G:0.02, T:0.65
Consensus pattern (23 bp):
TCTATTTTATTTTTTCAGTTATA
Found at i:59189142 original size:23 final size:22
Alignment explanation
Indices: 59189099--59189144 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
59189089 TGTTTGTTTA
59189099 TATAAAAATGATATATATTATT
1 TATAAAAATGATATATATTATT
*
59189121 TATAAATAAT-ATAATATTTTATT
1 TATAAA-AATGAT-ATATATTATT
59189144 T
1 T
59189145 TGAGACCTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (22 bp):
TATAAAAATGATATATATTATT
Found at i:59208541 original size:17 final size:17
Alignment explanation
Indices: 59208515--59208550 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
59208505 TAATATCCAT
*
59208515 AATTTGAATTAAATTTA
1 AATTTAAATTAAATTTA
*
59208532 AATTTAAATTAAGTTTA
1 AATTTAAATTAAATTTA
59208549 AA
1 AA
59208551 ATATTTAACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
AATTTAAATTAAATTTA
Found at i:59213629 original size:52 final size:52
Alignment explanation
Indices: 59213550--59213818 Score: 388
Period size: 52 Copynumber: 5.2 Consensus size: 52
59213540 TACTTCTGAT
* **
59213550 CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGA
1 CAAGTGA-AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
* * *
59213603 CAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGA
1 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
59213655 C------AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
1 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
59213701 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
1 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
** *
59213753 CAAGTGAAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGA
1 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
*
59213805 CAAAGTGATAAGTG
1 C-AAGTGAAAAGTG
59213819 GCTACACTTA
Statistics
Matches: 197, Mismatches: 12, Indels: 14
0.88 0.05 0.06
Matches are distributed among these distances:
46 44 0.22
52 136 0.69
53 17 0.09
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (52 bp):
CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
Found at i:59213664 original size:98 final size:98
Alignment explanation
Indices: 59213544--59213818 Score: 415
Period size: 98 Copynumber: 2.7 Consensus size: 98
59213534 TTTGAGTACT
*
59213544 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
* *
59213609 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTACACTTA
**
59213642 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
59213707 AAAAGTGATAAGTGATAGCTTCGGCTACACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTACACTTA
*
59213740 TCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGA
1 TCTGATCAAGTGAC------AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGA
*
59213805 CAAAGTGATAAGTG
60 C-AAGTGAAAAGTG
59213819 GCTACACTTA
Statistics
Matches: 160, Mismatches: 10, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
98 106 0.66
104 43 0.27
105 11 0.07
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCGGCTACACTTA
Found at i:59213826 original size:37 final size:37
Alignment explanation
Indices: 59213782--59213927 Score: 251
Period size: 37 Copynumber: 4.0 Consensus size: 37
59213772 GATAGCTTTA
59213782 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
59213819 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
* *
59213856 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
59213893 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
59213928 ATCATACGTA
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 89 0.86
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
Found at i:59216272 original size:50 final size:50
Alignment explanation
Indices: 59216196--59216527 Score: 268
Period size: 50 Copynumber: 6.6 Consensus size: 50
59216186 TTTTCTGTAC
* * * * *
59216196 TGCCAATGTCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGCTCTCATATCGA
* ** * * *
59216246 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTTTCATCTC-A
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGCTCTCATATCGA
* * * * *
59216295 GTGCCAAAGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGCTCTCATATCGA
* * *
59216346 TGCCAACGTCATGTCCCAGACATGGTCTTACA-GGGGGCCTCTCATAATCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAG-CTCTCAT-A--TC---GA
* *
59216402 TGCCAATGCCATGTCCCAGACATGGTCTTACACT--G-GCTCACATACCGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACA-TGGGAGCTCTCATATCGA
* * * *
59216450 TGTCGATGCCATGTCCCAAACATGGTCTTACACT---AGCTCACATATCGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACA-TGGGAGCTCTCATATCGA
*
59216498 T-CTCGATGCCATGTCCCAGACATGGTCTTA
1 TGC-CAATGCCATGTCCCAGACATGGTCTTA
59216528 TATGAGATCG
Statistics
Matches: 234, Mismatches: 35, Indels: 28
0.79 0.12 0.09
Matches are distributed among these distances:
48 72 0.31
49 3 0.01
50 116 0.50
51 1 0.00
53 3 0.01
54 6 0.03
55 1 0.00
56 32 0.14
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGCTCTCATATCGA
Found at i:59216325 original size:100 final size:105
Alignment explanation
Indices: 59216209--59216481 Score: 312
Period size: 100 Copynumber: 2.7 Consensus size: 105
59216199 CAATGTCATA
* * *
59216209 TCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATGCCATGTCCCAGACATGGTCT
1 TCCCAGACATGGTCTTACATGGGAGCTCTCATATCGGTGCCAATGCCATGTCCCAGACATGGTCT
*
59216274 TAC-GGGGGACCT-T-TCATCTC-A-G-TGCCAAAGCCATG
66 TACAGGGGG-CCTCTATAATCTCAATGATGCCAAAGCCATG
* * * * *
59216309 TCCTAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGTCATGTCCCAGACATGGTCT
1 TCCCAGACATGGTCTTACATGGGAGCTCTCATATCGGTGCCAATGCCATGTCCCAGACATGGTCT
*
59216374 TACAGGGGGCCTCTCATAATCTCAATGATGCCAATGCCATG
66 TACAGGGGGCCTCT-ATAATCTCAATGATGCCAAAGCCATG
* * * * * *
59216415 TCCCAGACATGGTCTTACACT--G-GCTCACATACCGATGTCGATGCCATGTCCCAAACATGGTC
1 TCCCAGACATGGTCTTACA-TGGGAGCTCTCATATCGGTGCCAATGCCATGTCCCAGACATGGTC
59216477 TTACA
65 TTACA
59216482 CTAGCTCACA
Statistics
Matches: 144, Mismatches: 21, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
100 63 0.44
101 6 0.04
103 6 0.04
104 36 0.25
105 2 0.01
106 30 0.21
107 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.26
Consensus pattern (105 bp):
TCCCAGACATGGTCTTACATGGGAGCTCTCATATCGGTGCCAATGCCATGTCCCAGACATGGTCT
TACAGGGGGCCTCTATAATCTCAATGATGCCAAAGCCATG
Found at i:59216478 original size:48 final size:48
Alignment explanation
Indices: 59216407--59216527 Score: 206
Period size: 48 Copynumber: 2.5 Consensus size: 48
59216397 AATGATGCCA
* *
59216407 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATACCGATGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATACCGATCTCG
* *
59216455 ATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCGATCTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATACCGATCTCG
59216503 ATGCCATGTCCCAGACATGGTCTTA
1 ATGCCATGTCCCAGACATGGTCTTA
59216528 TATGAGATCG
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 68 1.00
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATACCGATCTCG
Found at i:59220620 original size:29 final size:29
Alignment explanation
Indices: 59220563--59220621 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
59220553 CAATGTTTAC
* *
59220563 TTTTCAAAATGAATCATTTACGTACATAA
1 TTTTCAAAATGAATCATTTACATAAATAA
* * *
59220592 TTTTCAAAGTGGATCATTTTCATAAATAA
1 TTTTCAAAATGAATCATTTACATAAATAA
59220621 T
1 T
59220622 CAAAATTTTT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.41
Consensus pattern (29 bp):
TTTTCAAAATGAATCATTTACATAAATAA
Found at i:59221520 original size:29 final size:29
Alignment explanation
Indices: 59221454--59221519 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
59221444 GTAATTTACC
**
59221454 AATATATATACATTTATTATCTGTTTTAA
1 AATATATATACATTTATTATCTGTGATAA
*
59221483 AAAATATATACATTTATTAT-TG-GATAA
1 AATATATATACATTTATTATCTGTGATAA
*
59221510 AATTTATATA
1 AATATATATA
59221520 TTTAATTATT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 11 0.34
28 2 0.06
29 19 0.59
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.47
Consensus pattern (29 bp):
AATATATATACATTTATTATCTGTGATAA
Found at i:59224682 original size:52 final size:52
Alignment explanation
Indices: 59224578--59224682 Score: 115
Period size: 52 Copynumber: 2.0 Consensus size: 52
59224568 CTGACTTGCT
* * * * *
59224578 AACATGCATTAAGTCTATCCGAATTATAACATATTTAATAAGTATGACTCAA
1 AACATGCATTAAGTCTATCCGAATTAGAACATACTTAATAAGCATAAATCAA
* *
59224630 AACATGCATTGA-TGCTATCCTAATTAGAACATACTTAAT-AGACATAAATCAA
1 AACATGCATTAAGT-CTATCCGAATTAGAACATACTTAATAAG-CATAAATCAA
59224682 A
1 A
59224683 GTAAAATACC
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
51 3 0.07
52 41 0.93
ACGTcount: A:0.44, C:0.16, G:0.10, T:0.30
Consensus pattern (52 bp):
AACATGCATTAAGTCTATCCGAATTAGAACATACTTAATAAGCATAAATCAA
Found at i:59238231 original size:5 final size:5
Alignment explanation
Indices: 59238221--59238246 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
59238211 AGTATACAGA
59238221 GGAGT GGAGT GGAGT GGAGT GGAGT G
1 GGAGT GGAGT GGAGT GGAGT GGAGT G
59238247 AATGACCGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.62, T:0.19
Consensus pattern (5 bp):
GGAGT
Found at i:59239221 original size:22 final size:23
Alignment explanation
Indices: 59239190--59239238 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 23
59239180 CTTTATGAAA
59239190 TTTTCAAAAAATTTAACTAATT-
1 TTTTCAAAAAATTTAACTAATTC
* *
59239212 TTTTCTAAAATTTTAACTAATTC
1 TTTTCAAAAAATTTAACTAATTC
59239235 TTTT
1 TTTT
59239239 TATATTTGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 20 0.83
23 4 0.17
ACGTcount: A:0.37, C:0.10, G:0.00, T:0.53
Consensus pattern (23 bp):
TTTTCAAAAAATTTAACTAATTC
Found at i:59239360 original size:21 final size:22
Alignment explanation
Indices: 59239336--59239381 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
59239326 AATATTTTTC
*
59239336 TAAGATATAT-GTT-TTATTAAA
1 TAAGATAT-TGGTTATTATAAAA
59239357 TAAGATATTGGTTATTATAAAA
1 TAAGATATTGGTTATTATAAAA
59239379 TAA
1 TAA
59239382 TTTTTTATTG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 1 0.05
21 11 0.50
22 10 0.45
ACGTcount: A:0.46, C:0.00, G:0.11, T:0.43
Consensus pattern (22 bp):
TAAGATATTGGTTATTATAAAA
Found at i:59239879 original size:22 final size:22
Alignment explanation
Indices: 59239853--59239898 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
59239843 ATTTTCACAC
59239853 CAAAATTTGGACAGCATATATA
1 CAAAATTTGGACAGCATATATA
* *
59239875 CAAAATTTGGACTGCATTTATA
1 CAAAATTTGGACAGCATATATA
59239897 CA
1 CA
59239899 TCAAAATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.41, C:0.15, G:0.13, T:0.30
Consensus pattern (22 bp):
CAAAATTTGGACAGCATATATA
Found at i:59240017 original size:95 final size:93
Alignment explanation
Indices: 59239853--59240063 Score: 332
Period size: 95 Copynumber: 2.2 Consensus size: 93
59239843 ATTTTCACAC
* * *
59239853 CAAAATTTGGACAGCATATATACAAAATTTGGACTGCATTTATACATCAAAATTTAACAGCATAT
1 CAAAATTT-GACAGCATATACATAAAAATTGGACTGCATTTATACATCAAAATTTAACAGCATAT
59239918 ACATATATAATTGGACTGCATTTATACAT
65 ACATATATAATTGGACTGCATTTATACAT
* * *
59239947 CAAAATTTGACAGCATATACATAAATAATTGGATTGCATTTTGTACATCAAAATTTGACAGCATA
1 CAAAATTTGACAGCATATACATAAA-AATTGGACTGCA-TTTATACATCAAAATTTAACAGCATA
*
59240012 TACATATATAATTGGACTGCATTTGTACAT
64 TACATATATAATTGGACTGCATTTATACAT
59240042 CAAAATTTGACAGCATATACAT
1 CAAAATTTGACAGCATATACAT
59240064 TCATTTACTC
Statistics
Matches: 108, Mismatches: 7, Indels: 3
0.92 0.06 0.03
Matches are distributed among these distances:
93 15 0.14
94 18 0.17
95 75 0.69
ACGTcount: A:0.41, C:0.15, G:0.11, T:0.33
Consensus pattern (93 bp):
CAAAATTTGACAGCATATACATAAAAATTGGACTGCATTTATACATCAAAATTTAACAGCATATA
CATATATAATTGGACTGCATTTATACAT
Found at i:59240061 original size:47 final size:47
Alignment explanation
Indices: 59239853--59240063 Score: 318
Period size: 47 Copynumber: 4.5 Consensus size: 47
59239843 ATTTTCACAC
* *
59239853 CAAAATTTGGACAGCATAT--ATACAAAATTTGGACTGCATTTATACAT
1 CAAAATTT-GACAGCATATACATATATAA-TTGGACTGCATTTATACAT
*
59239900 CAAAATTTAACAGCATATACATATATAATTGGACTGCATTTATACAT
1 CAAAATTTGACAGCATATACATATATAATTGGACTGCATTTATACAT
* * *
59239947 CAAAATTTGACAGCATATACATAAATAATTGGATTGCATTTTGTACAT
1 CAAAATTTGACAGCATATACATATATAATTGGACTGCA-TTTATACAT
*
59239995 CAAAATTTGACAGCATATACATATATAATTGGACTGCATTTGTACAT
1 CAAAATTTGACAGCATATACATATATAATTGGACTGCATTTATACAT
59240042 CAAAATTTGACAGCATATACAT
1 CAAAATTTGACAGCATATACAT
59240064 TCATTTACTC
Statistics
Matches: 152, Mismatches: 9, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
46 9 0.06
47 93 0.61
48 50 0.33
ACGTcount: A:0.41, C:0.15, G:0.11, T:0.33
Consensus pattern (47 bp):
CAAAATTTGACAGCATATACATATATAATTGGACTGCATTTATACAT
Found at i:59240349 original size:15 final size:15
Alignment explanation
Indices: 59240315--59240346 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
59240305 TATATACATT
59240315 ACCATATAAATACTA
1 ACCATATAAATACTA
59240330 ACCATA-AAATACTA
1 ACCATATAAATACTA
59240344 ACC
1 ACC
59240347 CATGATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.53, C:0.25, G:0.00, T:0.22
Consensus pattern (15 bp):
ACCATATAAATACTA
Found at i:59241079 original size:43 final size:43
Alignment explanation
Indices: 59241032--59241114 Score: 107
Period size: 43 Copynumber: 1.9 Consensus size: 43
59241022 AATCACATAC
59241032 CGATGCC-ACTATCCCAAACAG-GGTCTTACACGAAAACACAAGT
1 CGATGCCGAC-ATCCCAAAC-GTGGTCTTACACGAAAACACAAGT
* * *
59241075 CGATGCCGACGTCCCAGACGTGGTCTTACATGAAAACACA
1 CGATGCCGACATCCCAAACGTGGTCTTACACGAAAACACA
59241115 TATCAGAGTC
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
42 1 0.03
43 32 0.91
44 2 0.06
ACGTcount: A:0.34, C:0.30, G:0.19, T:0.17
Consensus pattern (43 bp):
CGATGCCGACATCCCAAACGTGGTCTTACACGAAAACACAAGT
Found at i:59242055 original size:12 final size:12
Alignment explanation
Indices: 59242038--59242068 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
59242028 TATTAACCTT
59242038 TATATAAATATA
1 TATATAAATATA
*
59242050 TATATACATATA
1 TATATAAATATA
59242062 TATATAA
1 TATATAA
59242069 GGCTATACTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (12 bp):
TATATAAATATA
Found at i:59243131 original size:15 final size:16
Alignment explanation
Indices: 59243105--59243134 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
59243095 GATTCAGTTG
59243105 ATTTTGAATTGGATCC
1 ATTTTGAATTGGATCC
59243121 ATTTT-AATTGGATC
1 ATTTTGAATTGGATC
59243135 AACATAAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.27, C:0.10, G:0.17, T:0.47
Consensus pattern (16 bp):
ATTTTGAATTGGATCC
Found at i:59244838 original size:12 final size:13
Alignment explanation
Indices: 59244821--59244852 Score: 57
Period size: 12 Copynumber: 2.5 Consensus size: 13
59244811 TTCTCTCTTA
59244821 AAATTTTTTA-CT
1 AAATTTTTTATCT
59244833 AAATTTTTTATCT
1 AAATTTTTTATCT
59244846 AAATTTT
1 AAATTTT
59244853 ATTTTTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 10 0.53
13 9 0.47
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.59
Consensus pattern (13 bp):
AAATTTTTTATCT
Found at i:59244858 original size:18 final size:18
Alignment explanation
Indices: 59244835--59244870 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
59244825 TTTTTACTAA
59244835 ATTTTTTATCTAA-ATTTT
1 ATTTTTTAT-TAATATTTT
59244853 ATTTTTTATTAATATTTT
1 ATTTTTTATTAATATTTT
59244871 CAAGAATTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.18
18 14 0.82
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (18 bp):
ATTTTTTATTAATATTTT
Found at i:59251586 original size:21 final size:21
Alignment explanation
Indices: 59251535--59251588 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
59251525 TAATTATTTA
59251535 AAATTTAA-AATTACAATATT
1 AAATTTAATAATTACAATATT
*
59251555 AAATATAAATAATTA-AATATGT
1 AAAT-TTAATAATTACAATAT-T
*
59251577 ACATTTAATAAT
1 AAATTTAATAAT
59251589 GTCGAACATT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
20 4 0.14
21 15 0.54
22 9 0.32
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.39
Consensus pattern (21 bp):
AAATTTAATAATTACAATATT
Found at i:59265984 original size:22 final size:22
Alignment explanation
Indices: 59265959--59266034 Score: 73
Period size: 22 Copynumber: 3.5 Consensus size: 22
59265949 TTGCACTACA
* * *
59265959 GTGCCTTCTAATTTGCACTTTG
1 GTGCCTACTAATTCGCACTTCG
*
59265981 GTGCCTACTGATTCGCACTTCG
1 GTGCCTACTAATTCGCACTTCG
** *
59266003 GTGCCTACT-GCTCGGCACTTCA
1 GTGCCTACTAATTC-GCACTTCG
59266025 GTGCCTACTA
1 GTGCCTACTA
59266035 TTAAAGCATT
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
21 2 0.04
22 43 0.96
ACGTcount: A:0.14, C:0.30, G:0.21, T:0.34
Consensus pattern (22 bp):
GTGCCTACTAATTCGCACTTCG
Found at i:59272912 original size:18 final size:17
Alignment explanation
Indices: 59272884--59272918 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
59272874 ATTATTAAGA
*
59272884 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
59272901 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
59272919 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:59273109 original size:39 final size:40
Alignment explanation
Indices: 59273066--59273170 Score: 113
Period size: 44 Copynumber: 2.5 Consensus size: 40
59273056 TTCCATTATG
59273066 CTATTACACCTCTATTCCATTCAACCAAACACAAGA-TTA
1 CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
* *** *
59273105 CTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATTTG
1 CTATTACACCTCTATT-C----CATTCAACCAAACACAAGATTTA
59273150 CTATTACACCTCTATTCCATT
1 CTATTACACCTCTATTCCATT
59273171 ACACCTCTAT
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
39 15 0.28
40 5 0.09
44 17 0.31
45 17 0.31
ACGTcount: A:0.31, C:0.30, G:0.05, T:0.34
Consensus pattern (40 bp):
CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
Found at i:59273164 original size:45 final size:44
Alignment explanation
Indices: 59273064--59273173 Score: 131
Period size: 45 Copynumber: 2.6 Consensus size: 44
59273054 TTTTCCATTA
59273064 TGCTATTACACCTCTATT-C----CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
* * ***
59273103 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGA-T
59273148 TGCTATTACACCTCTATTCCATTACA
1 TGCTATTACACCTCTATTCCATTACA
59273174 CCTCTATTCC
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
39 16 0.28
40 1 0.02
44 16 0.28
45 25 0.43
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (44 bp):
TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
Found at i:59273173 original size:16 final size:16
Alignment explanation
Indices: 59273152--59273221 Score: 104
Period size: 16 Copynumber: 4.4 Consensus size: 16
59273142 TTGATTTGCT
*
59273152 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
*
59273168 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
59273184 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
*
59273200 AATACACCTCTAATCC
1 ATTACACCTCTAATCC
*
59273216 AATACA
1 ATTACA
59273222 GCGAACCAAA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 52 1.00
ACGTcount: A:0.33, C:0.36, G:0.00, T:0.31
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:59276744 original size:52 final size:51
Alignment explanation
Indices: 59276683--59276788 Score: 144
Period size: 50 Copynumber: 2.1 Consensus size: 51
59276673 ATAATATGTA
* *
59276683 ATTGCAACTAACGATATAATTTTA-AATTTATTATTGAGCTTTTGATTCATGAT
1 ATTGCAACTAACGATATAATTTTATAA---ATTATTCACCTTTTGATTCATGAT
*
59276736 ATTG-AACTAACGATATAATTTTATAAATTGTTCACCTTTTGATTCATGAT
1 ATTGCAACTAACGATATAATTTTATAAATTATTCACCTTTTGATTCATGAT
59276786 ATT
1 ATT
59276789 AAAAAAAGTA
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
50 24 0.49
52 19 0.39
53 6 0.12
ACGTcount: A:0.34, C:0.10, G:0.10, T:0.45
Consensus pattern (51 bp):
ATTGCAACTAACGATATAATTTTATAAATTATTCACCTTTTGATTCATGAT
Found at i:59278184 original size:91 final size:91
Alignment explanation
Indices: 59278037--59278245 Score: 319
Period size: 91 Copynumber: 2.3 Consensus size: 91
59278027 TTGATTTTCG
* *
59278037 TAAATTCATATAAGAACATTTTATTATTAAGAAATTTATGAAATTATATATCATTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAAATTTATGAAATTATATATCATTATTAAATTAT
* * *
59278102 ATTTAATATTAATTATTTTAAATTGTA
65 ATGTAATAATAATTATTTTAAATTATA
* * *
59278129 TAAATTCATATAAGAAAATTTATTATCAATAATTTTATGAAATTATATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAAATTTATGAAATTATATATCATTATTAAATTATA
59278194 TGTAATAATAATTATTTTAAATTATA
66 TGTAATAATAATTATTTTAAATTATA
* *
59278220 CAAATTCATATAAGATAATTTATTAT
1 TAAATTCATATAAGAAAATTTATTAT
59278246 TTATAATTAT
Statistics
Matches: 107, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
91 91 0.85
92 16 0.15
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAAATTTATGAAATTATATATCATTATTAAATTATA
TGTAATAATAATTATTTTAAATTATA
Found at i:59278211 original size:47 final size:46
Alignment explanation
Indices: 59278071--59278212 Score: 118
Period size: 47 Copynumber: 3.1 Consensus size: 46
59278061 TATTAAGAAA
* *
59278071 TTTATGAAATTATATATCATTATTAAATTATATTTAATATTAATTAT
1 TTTATGAAATTATATATTATTATTAAATTATA-TTAATAATAATTAT
* * **
59278118 TTTA--AATTGTATAAATTCATATAAGAAAATT-TATT-ATCAAT-A--AT
1 TTTATGAAAT-TATATATT-AT-T-ATTAAATTATATTAAT-AATAATTAT
59278162 TTTATGAAATTATATATTATTATTAAATTATATGTAATAATAATTAT
1 TTTATGAAATTATATATTATTATTAAATTATAT-TAATAATAATTAT
59278209 TTTA
1 TTTA
59278213 AATTATACAA
Statistics
Matches: 72, Mismatches: 10, Indels: 26
0.67 0.09 0.24
Matches are distributed among these distances:
42 6 0.08
43 4 0.06
44 12 0.17
45 13 0.18
46 12 0.17
47 16 0.22
48 3 0.04
49 6 0.08
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (46 bp):
TTTATGAAATTATATATTATTATTAAATTATATTAATAATAATTAT
Found at i:59278213 original size:26 final size:28
Alignment explanation
Indices: 59278159--59278219 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
59278149 TATTATCAAT
* *
59278159 AATTTTATGAAATTATATATTATTATTA
1 AATTATATGAAATAATATATTATTATTA
*
59278187 AATTATATGTAATAATA-ATTATT-TTA
1 AATTATATGAAATAATATATTATTATTA
59278213 AATTATA
1 AATTATA
59278220 CAAATTCATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (28 bp):
AATTATATGAAATAATATATTATTATTA
Found at i:59278369 original size:66 final size:62
Alignment explanation
Indices: 59278298--59278866 Score: 359
Period size: 61 Copynumber: 9.4 Consensus size: 62
59278288 AAATATATTT
59278298 AATATTAATTATTTCAAATTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTA-TT--AA-TATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
59278363 G
62 G
* * * * * * *
59278364 AATATTAATTATTAAGA-ATTTTATTA-AATTATATATT-TTAATT-A-T-AATAT-ATTTAAT
1 AATATTAATTATTAATATATTTTA-TAGTATCATATATTATGATTTGAGTAAAT-TCATATAAG
*
59278421 AATAATT-A-TGTTAATTTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAG
1 AAT-ATTAATTATTAA--TATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAG
* * * * * * *
59278484 AATATTAATTATTAAGA-ATTTTATTA-AATTATATATT-TTAATT-A-T-AATAT-ATTTAAT
1 AATATTAATTATTAATATATTTTA-TAGTATCATATATTATGATTTGAGTAAAT-TCATATAAG
*
59278541 AATAATT-A-TGTTAATTTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAG
1 AAT-ATTAATTATTAA--TATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAG
* * * * * * *
59278604 AATATTAATTATTAAGA-ATTTTATTA-AATTATATATT-TTAATT-A-T-AATAT-ATTTAAT
1 AATATTAATTATTAATATATTTTA-TAGTATCATATATTATGATTTGAGTAAAT-TCATATAAG
*
59278661 AATAATT-ATGT-TAAATTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAG
1 AAT-ATTAAT-TATTAA-TATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAG
* * * * * *
59278724 AATATTAATTATTAAGA-ATTTTAT--TA-AAT-TA-TAT-ATTTAATTATAATAT-ATTTAAT
1 AATATTAATTATTAATATATTTTATAGTATCATATATTATGATTTGAGTA-AAT-TCATATAAG
*
59278780 AATAATT-ATGT-TAAATTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAG
1 AAT-ATTAAT-TATTAA-TATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAG
* *
59278843 AATATTGATTATTAAGA-ATTTTAT
1 AATATTAATTATTAATATATTTTAT
59278867 TAAATTATAT
Statistics
Matches: 383, Mismatches: 63, Indels: 119
0.68 0.11 0.21
Matches are distributed among these distances:
55 7 0.02
56 29 0.08
57 48 0.13
58 34 0.09
59 50 0.13
60 26 0.07
61 64 0.17
62 34 0.09
63 61 0.16
64 17 0.04
65 2 0.01
66 11 0.03
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (62 bp):
AATATTAATTATTAATATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAG
Found at i:59278384 original size:120 final size:120
Alignment explanation
Indices: 59278260--59278916 Score: 1210
Period size: 120 Copynumber: 5.5 Consensus size: 120
59278250 AATTATTTTA
* * * *
59278260 AATTTTATTAAATCATATATTTTAAATAAAATATATTTAATATTAATTAT-TTCAAATTATATTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT-AAATTATATTT
59278324 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
59278380 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTT
59278445 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
59278500 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTT
59278565 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
59278620 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTT
59278685 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
59278740 AATTTTATTAAATTATATA-TTTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTT
*
59278804 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
59278859 AATTTTATTAAATTATATATTTAAATTATAATATATTTAATAATAATTATGTTTAAAT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATG-TTAAAT
59278917 ATGATTAAAT
Statistics
Matches: 526, Mismatches: 8, Indels: 5
0.98 0.01 0.01
Matches are distributed among these distances:
119 118 0.22
120 400 0.76
121 8 0.02
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.49
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTT
ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:59278420 original size:15 final size:15
Alignment explanation
Indices: 59278385--59278436 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
59278375 TTAAGAATTT
*
59278385 TATTAAATTAT-ATA
1 TATTTAATTATAATA
59278399 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
59278413 TATTTAATAATAAT-
1 TATTTAATTATAATA
59278427 TATGTTAATT
1 TAT-TTAATT
59278437 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:59278540 original size:15 final size:15
Alignment explanation
Indices: 59278505--59278556 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
59278495 TTAAGAATTT
*
59278505 TATTAAATTAT-ATA
1 TATTTAATTATAATA
59278519 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
59278533 TATTTAATAATAAT-
1 TATTTAATTATAATA
59278547 TATGTTAATT
1 TAT-TTAATT
59278557 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:59278655 original size:16 final size:16
Alignment explanation
Indices: 59278634--59278680 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
59278624 TTATTAAATT
59278634 ATATATTTTAATTATA
1 ATATATTTTAATTATA
*
59278650 ATATA-TTTAATAATA
1 ATATATTTTAATTATA
*
59278665 AT-TATGTTAAATTATA
1 ATATAT-TTTAATTATA
59278681 TTTTATAGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 2 0.08
15 11 0.42
16 13 0.50
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
ATATATTTTAATTATA
Found at i:59278774 original size:15 final size:15
Alignment explanation
Indices: 59278754--59278799 Score: 58
Period size: 15 Copynumber: 3.0 Consensus size: 15
59278744 TTATTAAATT
59278754 ATATATTTAATTATA
1 ATATATTTAATTATA
*
59278769 ATATATTTAATAATA
1 ATATATTTAATTATA
59278784 AT-TATGTTAAATTATA
1 ATATAT-TT-AATTATA
59278800 TTTTATAGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
14 3 0.11
15 18 0.67
16 6 0.22
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (15 bp):
ATATATTTAATTATA
Found at i:59278892 original size:16 final size:16
Alignment explanation
Indices: 59278873--59278917 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
59278863 TTATTAAATT
*
59278873 ATATATTTAAATTATA
1 ATATATTTAAATAATA
59278889 ATATATTT-AATAATA
1 ATATATTTAAATAATA
*
59278904 ATTATGTTTAAATA
1 A-TATATTTAAATA
59278918 TGATTAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 7 0.28
16 14 0.56
17 4 0.16
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (16 bp):
ATATATTTAAATAATA
Found at i:59279153 original size:16 final size:16
Alignment explanation
Indices: 59279128--59279160 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
59279118 TTGATTTGCT
59279128 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
*
59279144 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
59279160 A
1 A
59279161 ATATAGCGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.36, G:0.03, T:0.36
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:59280763 original size:16 final size:16
Alignment explanation
Indices: 59280742--59280793 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
59280732 TTTGGTTCGC
59280742 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
59280758 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* *
59280774 TGTATTAGAATAGAGG
1 TGTATTGGATTAGAGG
59280790 TGTA
1 TGTA
59280794 ATAGCAAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.29, C:0.00, G:0.35, T:0.37
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:59281045 original size:16 final size:16
Alignment explanation
Indices: 59281008--59281049 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
59280998 TTAATCATAT
*
59281008 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
59281024 TT-AAATATATTATAA
1 TTAAAATATATTATAA
59281039 TTAAAATATAT
1 TTAAAATATAT
59281050 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:59281056 original size:14 final size:15
Alignment explanation
Indices: 59281017--59281058 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
59281007 TTTAAACATA
*
59281017 ATTATTATTAAATAT
1 ATTATAATTAAATAT
59281032 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
59281046 A-TATAATTTAATA
1 ATTATAATTAAATA
59281059 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:59281150 original size:120 final size:121
Alignment explanation
Indices: 59281006--59281274 Score: 456
Period size: 120 Copynumber: 2.2 Consensus size: 121
59280996 ATTTAATCAT
59281006 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
*
59281071 ATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAA-GATA
66 ATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATG-TA
59281127 ATTT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
* *
59281191 ATTAATATTCTTATATGAATTTATTAAAATCATAATATATGATACTATAAAATGTA
66 ATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATGTA
* *
59281247 ATTTGAA-ATAATTAATATTAAATA-ATTA
1 ATTTAAACATAATTATTATTAAATATATTA
59281275 ATGTTGACAA
Statistics
Matches: 142, Mismatches: 4, Indels: 6
0.93 0.03 0.04
Matches are distributed among these distances:
119 4 0.03
120 131 0.92
121 7 0.05
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.43
Consensus pattern (121 bp):
ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
ATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATGTA
Found at i:59281167 original size:16 final size:16
Alignment explanation
Indices: 59281124--59281169 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
59281114 ACTATAAAAG
*
59281124 ATAATTTAACATA-ATT
1 ATAA-TTAAAATATATT
*
59281140 ATTATT-AAATATATT
1 ATAATTAAAATATATT
59281155 ATAATTAAAATATAT
1 ATAATTAAAATATAT
59281170 AATTTAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 4 0.16
15 10 0.40
16 11 0.44
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (16 bp):
ATAATTAAAATATATT
Found at i:59281176 original size:14 final size:15
Alignment explanation
Indices: 59281124--59281178 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
59281114 ACTATAAAAG
59281124 ATAATTTAACATA-ATT
1 ATAA-TTAA-ATATATT
*
59281140 ATTATTAAATATATT
1 ATAATTAAATATATT
59281155 ATAATTAAA-ATA-T
1 ATAATTAAATATATT
*
59281168 ATAATTTAATA
1 ATAATTAAATA
59281179 AAATTCTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
13 9 0.26
14 7 0.21
15 15 0.44
16 3 0.09
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (15 bp):
ATAATTAAATATATT
Found at i:59281241 original size:61 final size:61
Alignment explanation
Indices: 59281056--59281243 Score: 181
Period size: 61 Copynumber: 3.1 Consensus size: 61
59281046 ATATAATTTA
* * *
59281056 ATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACT
1 ATAAAATTCTTAATAATTAATATTCTTATATGAATTTATTAAAATCATAATATATGATACT
** * * * * * * * *
59281117 ATAAAA--GATAAT--TTAACATAATTATTAT-TAAATATATTATAATTAAAATATATAAT-TT
1 ATAAAATTCTTAATAATT-A-AT-ATTCTTATATGAATTTATTAAAATCATAATATATGATACT
59281175 AATAAAATTCTTAATAATTAATATTCTTATATGAATTTATTAAAATCATAATATATGATACT
1 -ATAAAATTCTTAATAATTAATATTCTTATATGAATTTATTAAAATCATAATATATGATACT
59281237 ATAAAAT
1 ATAAAAT
59281244 GTAATTTGAA
Statistics
Matches: 94, Mismatches: 23, Indels: 20
0.69 0.17 0.15
Matches are distributed among these distances:
57 1 0.01
58 2 0.02
59 32 0.34
60 14 0.15
61 41 0.44
62 2 0.02
63 2 0.02
ACGTcount: A:0.49, C:0.06, G:0.03, T:0.42
Consensus pattern (61 bp):
ATAAAATTCTTAATAATTAATATTCTTATATGAATTTATTAAAATCATAATATATGATACT
Found at i:59285960 original size:10 final size:10
Alignment explanation
Indices: 59285941--59285971 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
59285931 AATAAAAGCT
*
59285941 ATAAATATTA
1 ATAAAAATTA
59285951 ATAAAAATTA
1 ATAAAAATTA
59285961 ATAAAAATTA
1 ATAAAAATTA
59285971 A
1 A
59285972 AAATTAGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (10 bp):
ATAAAAATTA
Done.