Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009569.1 Hibiscus syriacus cultivar Beakdansim tig00116928_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: 171409
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Found at i:15471 original size:24 final size:24
Alignment explanation
Indices: 15420--15471 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
15410 TAATATTTTA
* * *
15420 AAATCTTTATAAATTATGATGATC
1 AAATCTTTAAAAATTAAGAAGATC
15444 AAATCTTTAAAAATTAAAGAAGAT-
1 AAATCTTTAAAAATT-AAGAAGATC
15468 AAAT
1 AAAT
15472 TAATTTATCA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 18 0.75
25 6 0.25
ACGTcount: A:0.52, C:0.06, G:0.08, T:0.35
Consensus pattern (24 bp):
AAATCTTTAAAAATTAAGAAGATC
Found at i:16589 original size:16 final size:18
Alignment explanation
Indices: 16554--16592 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
16544 AAAAGAACAA
*
16554 TAAAAAACATTGACTAAT
1 TAAAAAAAATTGACTAAT
16572 TAAAAAAAATTGA-T-AT
1 TAAAAAAAATTGACTAAT
16588 TAAAA
1 TAAAA
16593 TTGATAAGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 7 0.35
17 1 0.05
18 12 0.60
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.28
Consensus pattern (18 bp):
TAAAAAAAATTGACTAAT
Found at i:19201 original size:27 final size:27
Alignment explanation
Indices: 19147--19201 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
19137 GAGTTTTTAA
*
19147 AAAAAAATTAAATTAATAAAATATTAC
1 AAAAAAATTAAATTAATAAAATAATAC
* *
19174 AAAATAATTAAA-TAATTAAATGAATAC
1 AAAAAAATTAAATTAATAAAAT-AATAC
19201 A
1 A
19202 TCGATGACGC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 8 0.33
27 16 0.67
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (27 bp):
AAAAAAATTAAATTAATAAAATAATAC
Found at i:22218 original size:14 final size:15
Alignment explanation
Indices: 22184--22221 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
22174 ACATTTACGT
* *
22184 TTTAATTATTATAAT
1 TTTATTTATTATAAG
22199 TTTATTTATT-TAAG
1 TTTATTTATTATAAG
22213 TTTATTTAT
1 TTTATTTAT
22222 ACGCACATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 12 0.57
15 9 0.43
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.66
Consensus pattern (15 bp):
TTTATTTATTATAAG
Found at i:22423 original size:35 final size:35
Alignment explanation
Indices: 22335--22432 Score: 92
Period size: 39 Copynumber: 2.7 Consensus size: 35
22325 CTTTAGTATA
*
22335 TATTTTTATTTTT-TTAGATTATATATATATATTGTT
1 TATTTTTATTTTTATTA-ATT-TATATATATATTGTC
*
22371 TTTTTATTATCAGTTTTATTAATTTATATATATATT-TAC
1 TATTT-TTAT---TTTTATTAATTTATATATATATTGT-C
*
22410 TATTTTTATTTTTATTTATTTAT
1 TATTTTTATTTTTATTAATTTAT
22433 TTTATTTAAT
Statistics
Matches: 52, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
35 13 0.25
36 4 0.08
37 4 0.08
38 5 0.10
39 16 0.31
40 7 0.13
41 3 0.06
ACGTcount: A:0.28, C:0.02, G:0.03, T:0.67
Consensus pattern (35 bp):
TATTTTTATTTTTATTAATTTATATATATATTGTC
Found at i:22425 original size:47 final size:43
Alignment explanation
Indices: 22354--22491 Score: 152
Period size: 47 Copynumber: 3.0 Consensus size: 43
22344 TTTTTTAGAT
* *
22354 TATATATATATATTGTT-TTTTTATTATCAGTTTTATTAATTTATA
1 TATATATATATATTTTTATTTTTATTATTA-TTTTATTAA--TATA
*
22399 TATATATTTACTATTTTTATTTTTATTTATTTATTTTATTTAATATA
1 TATATATATA-TATTTTTATTTTTA-TTA-TTATTTTA-TTAATATA
*
22446 TATATATATATTATTTTTACTTTTTATTATTATTTTATTTATATA
1 TATATATATA-TATTTTTA-TTTTTATTATTATTTTATTAATATA
22491 T
1 T
22492 TTTTTCTTCT
Statistics
Matches: 81, Mismatches: 6, Indels: 12
0.82 0.06 0.12
Matches are distributed among these distances:
45 17 0.21
46 14 0.17
47 30 0.37
48 14 0.17
49 6 0.07
ACGTcount: A:0.30, C:0.02, G:0.01, T:0.66
Consensus pattern (43 bp):
TATATATATATATTTTTATTTTTATTATTATTTTATTAATATA
Found at i:22483 original size:11 final size:13
Alignment explanation
Indices: 22393--22494 Score: 67
Period size: 13 Copynumber: 8.2 Consensus size: 13
22383 GTTTTATTAA
*
22393 TTTATATATATAT
1 TTTATTTATATAT
*
22406 TTACTATTTTTAT-T
1 TT--TATTTATATAT
*
22420 TTTATTTATTTAT
1 TTTATTTATATAT
22433 TTTATTTA-ATA-
1 TTTATTTATATAT
* *
22444 TATATATATATAT
1 TTTATTTATATAT
*
22457 TATT-TTTA-CT-T
1 T-TTATTTATATAT
22468 TTTA-TTAT-TAT
1 TTTATTTATATAT
22479 TTTATTTATATAT
1 TTTATTTATATAT
22492 TTT
1 TTT
22495 TTCTTCTTTT
Statistics
Matches: 68, Mismatches: 10, Indels: 22
0.68 0.10 0.22
Matches are distributed among these distances:
10 6 0.09
11 13 0.19
12 17 0.25
13 21 0.31
14 4 0.06
15 7 0.10
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTATTTATATAT
Found at i:22483 original size:24 final size:23
Alignment explanation
Indices: 22410--22557 Score: 72
Period size: 23 Copynumber: 6.3 Consensus size: 23
22400 ATATATTTAC
22410 TATTTTTATTTTTATTTATTTATTT
1 TATTTTTATTTTTA-TTA-TTATTT
* * * *
22435 TA-TTTAATATATA-TATATATAT
1 TATTTTTATTTTTATTAT-TATTT
22457 TATTTTTACTTTTTATTATTATTT
1 TATTTTTA-TTTTTATTATTATTT
* * *
22481 TATTTATATATTTT-TTCTTCTTT
1 TATTTTTAT-TTTTATTATTATTT
* * *
22504 T-TCTTTATTTTTTTTTATTTTTT
1 TATTTTTA-TTTTTATTATTATTT
** *
22527 TACATTTA-TTTTACTTACTATTT
1 TATTTTTATTTTTA-TTATTATTT
*
22550 TATCTTTA
1 TATTTTTA
22558 CTTTCTTTAT
Statistics
Matches: 92, Mismatches: 22, Indels: 20
0.69 0.16 0.15
Matches are distributed among these distances:
21 1 0.01
22 20 0.22
23 35 0.38
24 31 0.34
25 5 0.05
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (23 bp):
TATTTTTATTTTTATTATTATTT
Found at i:22489 original size:35 final size:34
Alignment explanation
Indices: 22450--22521 Score: 85
Period size: 35 Copynumber: 2.1 Consensus size: 34
22440 AATATATATA
22450 TATATATTATTTT-TACTTTTT-ATTATTATTTTATT
1 TATATATT-TTTTCTACTTTTTCATTATT-TTTT-TT
* *
22485 TATATATTTTTTCTTCTTTTTCTTTATTTTTTTT
1 TATATATTTTTTCTACTTTTTCATTATTTTTTTT
22519 TAT
1 TAT
22522 TTTTTTACAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
34 9 0.27
35 19 0.58
36 5 0.15
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (34 bp):
TATATATTTTTTCTACTTTTTCATTATTTTTTTT
Found at i:22496 original size:33 final size:33
Alignment explanation
Indices: 22450--22529 Score: 78
Period size: 33 Copynumber: 2.4 Consensus size: 33
22440 AATATATATA
22450 TATATATTATTTTTACTT-TTTATT-ATTATTTTATT
1 TATATA-T-TTTTTACTTCTTT-TTCATTATTTT-TT
*
22485 TATATATTTTTT-CTTCTTTTTCTTTATTTTTT
1 TATATATTTTTTACTTCTTTTTCATTATTTTTT
*
22517 TTTAT-TTTTTTAC
1 TATATATTTTTTAC
22530 ATTTATTTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
31 6 0.15
32 12 0.30
33 15 0.38
34 1 0.03
35 6 0.15
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (33 bp):
TATATATTTTTTACTTCTTTTTCATTATTTTTT
Found at i:26716 original size:32 final size:32
Alignment explanation
Indices: 26680--26799 Score: 152
Period size: 32 Copynumber: 3.8 Consensus size: 32
26670 GGAACAATAA
*
26680 GGGCATCTTTGAAGATTCAACATCAAATATTG
1 GGGCATCTTTGTAGATTCAACATCAAATATTG
* * * *
26712 GGGCATTTTTTTAGATTTAACATCAAATGTTG
1 GGGCATCTTTGTAGATTCAACATCAAATATTG
* *
26744 GGGCATTTTTTTAGATTCAACATCAAATATTG
1 GGGCATCTTTGTAGATTCAACATCAAATATTG
*
26776 GGGCATCTTTG-GGAATTCAACATC
1 GGGCATCTTTGTAG-ATTCAACATC
26800 CTGATGCAAA
Statistics
Matches: 77, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
31 1 0.01
32 76 0.99
ACGTcount: A:0.30, C:0.14, G:0.19, T:0.37
Consensus pattern (32 bp):
GGGCATCTTTGTAGATTCAACATCAAATATTG
Found at i:27504 original size:106 final size:107
Alignment explanation
Indices: 27376--27593 Score: 269
Period size: 107 Copynumber: 2.0 Consensus size: 107
27366 ATATCGTGTC
* * *
27376 ACTCGAGACAACACAAGTTCAACTCCACAACG-AAGGGACAGA-TGGTTGTCAACAAACAATTTC
1 ACTCGAGACAACACAAGCTCAACTCCACAACGAAAGGGAC-GACTGGCTATCAACAAACAATTTC
* *
27439 CTAATTTCGGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
65 CTAATTCCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * * * *
27482 ACTCGAGATAGCACAAGCTCAACTTCACAGCGAAAGGGGCGACTGGCTATCAACAAATAATTTCT
1 ACTCGAGACAACACAAGCTCAACTCCACAACGAAAGGGACGACTGGCTATCAACAAACAATTTCC
* * * *
27547 TAGTTCCAGAGCCAATTTTAACTTCACGGCGGAGGATATTGG
66 TAATTCCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
27589 ACTCG
1 ACTCG
27594 GAACAATACA
Statistics
Matches: 94, Mismatches: 16, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
106 29 0.31
107 65 0.69
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.22
Consensus pattern (107 bp):
ACTCGAGACAACACAAGCTCAACTCCACAACGAAAGGGACGACTGGCTATCAACAAACAATTTCC
TAATTCCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
Found at i:28044 original size:87 final size:87
Alignment explanation
Indices: 27850--28008 Score: 266
Period size: 87 Copynumber: 1.8 Consensus size: 87
27840 GACAGTTTCT
*
27850 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTTATCTCGATTGAGATAGTTTCC
1 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGATTGAGATAGTTTCC
27915 CTTGAAACGAAATTTTGTCTCC
66 CTTGAAACGAAATTTTGTCTCC
* * *
27937 CTTGAAACATAAACATTGAAAATATTTCCCTTGAAATAAATTTTATCTC-ACTTGGGGTAGTTTC
1 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGA-TTGAGATAGTTTC
28001 CCTTGAAA
65 CCTTGAAA
28009 TTTTTTTTGT
Statistics
Matches: 67, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
86 1 0.01
87 66 0.99
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.36
Consensus pattern (87 bp):
CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGATTGAGATAGTTTCC
CTTGAAACGAAATTTTGTCTCC
Found at i:28053 original size:101 final size:102
Alignment explanation
Indices: 27937--28175 Score: 345
Period size: 101 Copynumber: 2.4 Consensus size: 102
27927 TTTTGTCTCC
* * *
27937 CTTGAAACATAAACATTGAAAATATTTCCCTTGAAATAAATTTTATCTCACTTGGGGTAGTTTCC
1 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCACTTGAGATAGTTTCC
****
28002 CTTGAAA-TTTTTTTTGTCTCCCTTGAGACAGTTTCT
66 CTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCT
* * * *
28038 CTTGAAACATAAACATTGAAAACATTTCCTTTGAAATTAATTTTGTCTCTCTTGAGATAGTTTCC
1 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCACTTGAGATAGTTTCC
*
28103 CTTGAAACAAAATTTTGTCTCCCTTGAGATAGTTTCT
66 CTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCT
* *
28140 CTTGAAACATAAACCTTGAAAACGTTTCCCTTGAAA
1 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAA
28176 CACAAAATAT
Statistics
Matches: 122, Mismatches: 15, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
101 65 0.53
102 57 0.47
ACGTcount: A:0.31, C:0.18, G:0.12, T:0.39
Consensus pattern (102 bp):
CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCACTTGAGATAGTTTCC
CTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCT
Found at i:28123 original size:37 final size:37
Alignment explanation
Indices: 28076--28148 Score: 128
Period size: 37 Copynumber: 2.0 Consensus size: 37
28066 CTTTGAAATT
*
28076 AATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAA
1 AATTTTGTCTCCCTTGAGATAGTTTCCCTTGAAACAA
*
28113 AATTTTGTCTCCCTTGAGATAGTTTCTCTTGAAACA
1 AATTTTGTCTCCCTTGAGATAGTTTCCCTTGAAACA
28149 TAAACCTTGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.41
Consensus pattern (37 bp):
AATTTTGTCTCCCTTGAGATAGTTTCCCTTGAAACAA
Found at i:28268 original size:37 final size:37
Alignment explanation
Indices: 28213--28315 Score: 163
Period size: 36 Copynumber: 2.8 Consensus size: 37
28203 AAAACGAGTT
28213 TTGAGACAGTTTCCCTTGAAACAAAATCTTGTCTCTC
1 TTGAGACAGTTTCCCTTGAAACAAAATCTTGTCTCTC
* * * *
28250 TTGAGACGGTTTCGCTTGAAAC-AAATTTTGTCTCTT
1 TTGAGACAGTTTCCCTTGAAACAAAATCTTGTCTCTC
28286 TTGAGACAGTTTCCCTTGAAACAAAATCTT
1 TTGAGACAGTTTCCCTTGAAACAAAATCTT
28316 TGAATATCTT
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
36 32 0.55
37 26 0.45
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.37
Consensus pattern (37 bp):
TTGAGACAGTTTCCCTTGAAACAAAATCTTGTCTCTC
Found at i:28383 original size:102 final size:102
Alignment explanation
Indices: 28227--28412 Score: 259
Period size: 102 Copynumber: 1.8 Consensus size: 102
28217 GACAGTTTCC
* * * *
28227 CTTGAAACAAAATCTTGTCTCTCTTGAGACGGTTTCGCTTGAAACAAATTTTGTCTCTTTTGAGA
1 CTTGAAACAAAATCTTGTCTCCCTTGAGACAGTTTCGCTTAAAACAAATTTTGTCTCTCTTGAGA
28292 CAGTTTCCCTTGAAACAAAATCTTTGAATATCTTTTT
66 CAGTTTCCCTTGAAACAAAATCTTTGAATATCTTTTT
** *
28329 CTTGAAAC-AAAT-TTCGTCTCCCTTGAGACAGTTTCTTTTAAAACTAAGTTTTGTCTCTCTTGA
1 CTTGAAACAAAATCTT-GTCTCCCTTGAGACAGTTTCGCTTAAAAC-AAATTTTGTCTCTCTTGA
**
28392 GACAGTTTCTTTTGAAACAAA
64 GACAGTTTCCCTTGAAACAAA
28413 TTTTGTCCCT
Statistics
Matches: 73, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
100 2 0.03
101 28 0.38
102 43 0.59
ACGTcount: A:0.28, C:0.19, G:0.13, T:0.40
Consensus pattern (102 bp):
CTTGAAACAAAATCTTGTCTCCCTTGAGACAGTTTCGCTTAAAACAAATTTTGTCTCTCTTGAGA
CAGTTTCCCTTGAAACAAAATCTTTGAATATCTTTTT
Found at i:28425 original size:36 final size:36
Alignment explanation
Indices: 28330--28446 Score: 164
Period size: 36 Copynumber: 3.2 Consensus size: 36
28320 TATCTTTTTC
*
28330 TTGAAACAAATTTCGTCTCC-CTTGAGACAGTTTCTT
1 TTGAAACAAATTTTGTC-CCTCTTGAGACAGTTTCTT
* * *
28366 TTAAAACTAAGTTTTGTCTCTCTTGAGACAGTTTCTT
1 TTGAAAC-AAATTTTGTCCCTCTTGAGACAGTTTCTT
*
28403 TTGAAACAAATTTTGTCCCTCTTGAGACAGTTTCTC
1 TTGAAACAAATTTTGTCCCTCTTGAGACAGTTTCTT
28439 TTGAAACA
1 TTGAAACA
28447 CAAAAAAAAT
Statistics
Matches: 71, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
36 41 0.58
37 30 0.42
ACGTcount: A:0.26, C:0.20, G:0.14, T:0.40
Consensus pattern (36 bp):
TTGAAACAAATTTTGTCCCTCTTGAGACAGTTTCTT
Found at i:29634 original size:22 final size:20
Alignment explanation
Indices: 29609--29664 Score: 51
Period size: 23 Copynumber: 2.6 Consensus size: 20
29599 CTTTTTTGTC
29609 ATGTAATATTTTTTTACATTTT
1 ATGTAATATTTTTTTAC--TTT
* *
29631 ATGTATTTTCTTTTTTACTTT
1 ATGTAATAT-TTTTTTACTTT
29652 A-GTATATATTTTT
1 ATGTA-ATATTTTT
29665 AATTTTTTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
20 7 0.25
21 6 0.21
22 7 0.25
23 8 0.29
ACGTcount: A:0.23, C:0.05, G:0.05, T:0.66
Consensus pattern (20 bp):
ATGTAATATTTTTTTACTTT
Found at i:29661 original size:24 final size:23
Alignment explanation
Indices: 29618--29663 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
29608 CATGTAATAT
*
29618 TTTTTTACATTTTATGTATTTTC
1 TTTTTTACATTTTATATATTTTC
29641 TTTTTTAC-TTTAGTATATATTTT
1 TTTTTTACATTT--TATATATTTT
29664 TAATTTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 3 0.15
23 8 0.40
24 9 0.45
ACGTcount: A:0.20, C:0.07, G:0.04, T:0.70
Consensus pattern (23 bp):
TTTTTTACATTTTATATATTTTC
Found at i:29683 original size:2 final size:2
Alignment explanation
Indices: 29678--29714 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
29668 TTTTTTAGAT
*
29678 TA TA TA TA TT TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
29715 TATTTTTACT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:29690 original size:10 final size:10
Alignment explanation
Indices: 29677--29719 Score: 59
Period size: 10 Copynumber: 4.2 Consensus size: 10
29667 TTTTTTTAGA
29677 TTATATATAT
1 TTATATATAT
29687 TTATATATAT
1 TTATATATAT
*
29697 ATATATATAT
1 TTATATATAT
*
29707 ATATATATTAT
1 TTATATA-TAT
29718 TT
1 TT
29720 TTACTTTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
10 26 0.87
11 4 0.13
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (10 bp):
TTATATATAT
Found at i:29739 original size:9 final size:9
Alignment explanation
Indices: 29712--29802 Score: 59
Period size: 8 Copynumber: 10.1 Consensus size: 9
29702 TATATATATA
29712 TATTATTTT
1 TATTATTTT
*
29721 TACTTTTTTT
1 TA-TTATTTT
29731 TATTA-TTT
1 TATTATTTT
29739 TATTTATTTGT
1 TA-TTATTT-T
29750 T-TTATTTAT
1 TATTATTT-T
29759 ATATT-TTTT
1 -TATTATTTT
* *
29768 TCTTTTTCTT
1 TATTATT-TT
29778 TATT-TTTT
1 TATTATTTT
29786 TATT-TTTT
1 TATTATTTT
29794 TA-TATTTT
1 TATTATTTT
29802 T
1 T
29803 TACTTACTAT
Statistics
Matches: 68, Mismatches: 5, Indels: 19
0.74 0.05 0.21
Matches are distributed among these distances:
7 1 0.01
8 25 0.37
9 19 0.28
10 19 0.28
11 4 0.06
ACGTcount: A:0.16, C:0.03, G:0.01, T:0.79
Consensus pattern (9 bp):
TATTATTTT
Found at i:29779 original size:26 final size:24
Alignment explanation
Indices: 29724--29815 Score: 78
Period size: 26 Copynumber: 3.7 Consensus size: 24
29714 TTATTTTTAC
*
29724 TTTTTTTTATTATTTTATTTATTTG
1 TTTTATTTATTATTTT-TTTATTTG
* *
29749 TTTTATTTATATATTTTTTTCTTTT
1 TTTTATTTAT-TATTTTTTTATTTG
*
29774 TCTTTATTTTTTTATTTTTTTATATT-
1 T-TTTA-TTTATTATTTTTTTAT-TTG
* *
29800 TTTTACTTACTATTTT
1 TTTTATTTATTATTTT
29816 ATCTTTACTT
Statistics
Matches: 55, Mismatches: 8, Indels: 9
0.76 0.11 0.12
Matches are distributed among these distances:
24 8 0.15
25 20 0.36
26 21 0.38
27 6 0.11
ACGTcount: A:0.16, C:0.04, G:0.01, T:0.78
Consensus pattern (24 bp):
TTTTATTTATTATTTTTTTATTTG
Found at i:29799 original size:18 final size:18
Alignment explanation
Indices: 29712--29803 Score: 75
Period size: 18 Copynumber: 5.0 Consensus size: 18
29702 TATATATATA
29712 TATTATTTTTACT-TTTTTT
1 TATT-TTTTTA-TATTTTTT
*
29731 TATTATTTTAT-TTATTTGT
1 TATTTTTTTATATT-TTT-T
*
29750 T-TTATTTATATATTTTTT
1 TATT-TTTTTATATTTTTT
*
29768 TCTTTTTCTT-TATTTTTT
1 TATTTTT-TTATATTTTTT
29786 TATTTTTTTATATTTTTT
1 TATTTTTTTATATTTTTT
29804 ACTTACTATT
Statistics
Matches: 61, Mismatches: 5, Indels: 15
0.75 0.06 0.19
Matches are distributed among these distances:
17 5 0.08
18 37 0.61
19 17 0.28
20 2 0.03
ACGTcount: A:0.16, C:0.03, G:0.01, T:0.79
Consensus pattern (18 bp):
TATTTTTTTATATTTTTT
Found at i:29803 original size:9 final size:8
Alignment explanation
Indices: 29727--29804 Score: 75
Period size: 9 Copynumber: 9.0 Consensus size: 8
29717 TTTTTACTTT
29727 TTTTTATTA
1 TTTTT-TTA
29736 TTTTATTTA
1 TTTT-TTTA
29745 TTTGTTTTA
1 TTT-TTTTA
* *
29754 TTTATATA
1 TTTTTTTA
*
29762 TTTTTTTCT
1 TTTTTTT-A
29771 TTTTCTTTA
1 TTTT-TTTA
29780 TTTTTTTA
1 TTTTTTTA
29788 TTTTTTTA
1 TTTTTTTA
29796 TATTTTTTA
1 T-TTTTTTA
29805 CTTACTATTT
Statistics
Matches: 58, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
8 21 0.36
9 32 0.55
10 5 0.09
ACGTcount: A:0.17, C:0.03, G:0.01, T:0.79
Consensus pattern (8 bp):
TTTTTTTA
Found at i:39666 original size:32 final size:32
Alignment explanation
Indices: 39630--39690 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
39620 AATGAACTTC
39630 TTCTCTCTGAAATC-TCTC-ATATTCTCTTCTAT
1 TTCTCTC-GAAATCTTCTCTAT-TTCTCTTCTAT
*
39662 TTCTCTCGAATTCTTCTCTATTTCTCTTC
1 TTCTCTCGAAATCTTCTCTATTTCTCTTC
39691 AATCTATAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
31 5 0.19
32 19 0.73
33 2 0.08
ACGTcount: A:0.15, C:0.30, G:0.03, T:0.52
Consensus pattern (32 bp):
TTCTCTCGAAATCTTCTCTATTTCTCTTCTAT
Found at i:46649 original size:14 final size:15
Alignment explanation
Indices: 46615--46656 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
46605 TGATAAAAAA
* *
46615 TATTTAAAATATTAT
1 TATTTAATATTTTAT
46630 TATTT-ATATTTTAT
1 TATTTAATATTTTAT
*
46644 TTTTTAATATTTT
1 TATTTAATATTTT
46657 TTAATATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
14 11 0.48
15 12 0.52
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
TATTTAATATTTTAT
Found at i:46668 original size:9 final size:10
Alignment explanation
Indices: 46641--46667 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
46631 ATTTATATTT
46641 TATTTTTTAA
1 TATTTTTTAA
46651 TATTTTTTAA
1 TATTTTTTAA
46661 TATTTTT
1 TATTTTT
46668 AGTAAAGTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (10 bp):
TATTTTTTAA
Found at i:46817 original size:79 final size:79
Alignment explanation
Indices: 46679--46824 Score: 199
Period size: 79 Copynumber: 1.8 Consensus size: 79
46669 GTAAAGTGTC
*
46679 TAATAATAATAAAATCGATAGAAAAATAATGTTTTAAGTAATATTTTACCGGATATATTAACAAA
1 TAATAATAATAAAATCGATAGAAAAATAATGTTTTAAGTAATATTTTACCGGATATATTAAAAAA
46744 ATTAATAAAACACT
66 ATTAATAAAACACT
* * * *
46758 TAATAATAATAAAATCGATATAAATAATAATATTTTTAA-TAAT-TTTTATC-GATTTTATTAAA
1 TAATAATAATAAAATCGATAGAAA-AATAAT-GTTTTAAGTAATATTTTACCGGA-TATATTAAA
46820 AAAAT
63 AAAAT
46825 CGAAAACAGT
Statistics
Matches: 59, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
78 2 0.03
79 41 0.69
80 10 0.17
81 6 0.10
ACGTcount: A:0.51, C:0.05, G:0.05, T:0.38
Consensus pattern (79 bp):
TAATAATAATAAAATCGATAGAAAAATAATGTTTTAAGTAATATTTTACCGGATATATTAAAAAA
ATTAATAAAACACT
Found at i:53926 original size:16 final size:16
Alignment explanation
Indices: 53907--53998 Score: 66
Period size: 19 Copynumber: 5.6 Consensus size: 16
53897 TTTTATAAAA
*
53907 TATATATTTTAATTAC
1 TATATATTTTAATTAT
*
53923 TATAT-TTAT-A-TAT
1 TATATATTTTAATTAT
53936 TATTATATTTTAATTAT
1 TA-TATATTTTAATTAT
*
53953 T-TATTATATTTAATAAT
1 TATA-TAT-TTTAATTAT
53970 TAATATTATTATTAATTAT
1 T-ATA-TATT-TTAATTAT
53989 TATTATATTT
1 TA-TATATTT
53999 ATTTATTAGT
Statistics
Matches: 61, Mismatches: 5, Indels: 19
0.72 0.06 0.22
Matches are distributed among these distances:
13 4 0.07
14 4 0.07
15 8 0.13
16 9 0.15
17 14 0.23
18 6 0.10
19 16 0.26
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (16 bp):
TATATATTTTAATTAT
Found at i:53961 original size:48 final size:47
Alignment explanation
Indices: 53909--54006 Score: 112
Period size: 48 Copynumber: 2.0 Consensus size: 47
53899 TTATAAAATA
*
53909 TATATTT-TAATTACTATATTTATATATT-ATTA-TATTTTAATTATTTAT
1 TATATTTATAATTA--ATA-TTAT-TATTAATTATTATTATAATTATTTAT
*
53957 TATATTTAATAATTAATATTATTATTAATTATTATTATATTTATTTAT
1 TATATTT-ATAATTAATATTATTATTAATTATTATTATAATTATTTAT
54005 TA
1 TA
54007 GTTTAATTTA
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
46 4 0.09
47 8 0.18
48 26 0.59
50 6 0.14
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (47 bp):
TATATTTATAATTAATATTATTATTAATTATTATTATAATTATTTAT
Found at i:53989 original size:32 final size:32
Alignment explanation
Indices: 53905--53991 Score: 90
Period size: 34 Copynumber: 2.7 Consensus size: 32
53895 TTTTTTATAA
*
53905 AATATATATT-TTAATTACTATATTTATATATT
1 AATAT-TATTATTAATTATTATATTTATATATT
*
53937 ATTATATT-TTAATTATTTATTATATTTA-ATAATT
1 A--ATATTATT-ATTAATTATTATATTTATAT-ATT
53971 AATATTATTATTAATTATTAT
1 AATATTATTATTAATTATTAT
53992 TATATTTATT
Statistics
Matches: 46, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
32 19 0.41
33 5 0.11
34 22 0.48
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (32 bp):
AATATTATTATTAATTATTATATTTATATATT
Found at i:54004 original size:16 final size:16
Alignment explanation
Indices: 53918--54006 Score: 72
Period size: 16 Copynumber: 5.2 Consensus size: 16
53908 ATATATTTTA
* *
53918 ATTACTATATTTATAT
1 ATTATTATATTTATTT
*
53934 ATTATTATATTTTAATT
1 ATTATTATA-TTTATTT
53951 ATTTATTATATTTAATAATT
1 A-TTATTATATTT-AT--TT
* *
53971 AATATTAT-TATTAATT
1 ATTATTATAT-TTATTT
53987 ATTATTATATTTATTT
1 ATTATTATATTTATTT
54003 ATTA
1 ATTA
54007 GTTTAATTTA
Statistics
Matches: 58, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
16 26 0.45
17 10 0.17
18 11 0.19
19 8 0.14
20 3 0.05
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (16 bp):
ATTATTATATTTATTT
Found at i:58144 original size:31 final size:31
Alignment explanation
Indices: 58072--58144 Score: 110
Period size: 31 Copynumber: 2.4 Consensus size: 31
58062 TCAAAGAACA
* *
58072 TAAGATATTATCACTTTCTTTTTTATTTAAT
1 TAAGATATGATCACTTTCGTTTTTATTTAAT
*
58103 TAAAATATGATCACTTTCGTTTTTATTTAAT
1 TAAGATATGATCACTTTCGTTTTTATTTAAT
*
58134 TAAGACATGAT
1 TAAGATATGAT
58145 AGTTAAATTA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.33, C:0.10, G:0.07, T:0.51
Consensus pattern (31 bp):
TAAGATATGATCACTTTCGTTTTTATTTAAT
Found at i:58243 original size:31 final size:31
Alignment explanation
Indices: 58205--58264 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
58195 TTGGTCATAC
** * *
58205 TTTTAAATGAATTTTAACATAAAATATTTAT
1 TTTTAAATGAAAATAAAAATAAAATATTTAT
58236 TTTTAAATGAAAATAAAAATAAAATATTT
1 TTTTAAATGAAAATAAAAATAAAATATTT
58265 TTAAATTAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.43
Consensus pattern (31 bp):
TTTTAAATGAAAATAAAAATAAAATATTTAT
Found at i:58312 original size:26 final size:25
Alignment explanation
Indices: 58281--58340 Score: 77
Period size: 24 Copynumber: 2.4 Consensus size: 25
58271 TAAGTTTAAT
58281 AAAATATATTTAATAAGTTAATATAG
1 AAAATATATTT-ATAAGTTAATATAG
* *
58307 AAAATAT-TTTTTAAGTTAATATAT
1 AAAATATATTTATAAGTTAATATAG
*
58331 AAAAAATATT
1 AAAATATATT
58341 ATGAATTTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
24 18 0.60
25 5 0.17
26 7 0.23
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (25 bp):
AAAATATATTTATAAGTTAATATAG
Found at i:59935 original size:3 final size:3
Alignment explanation
Indices: 59929--59963 Score: 61
Period size: 3 Copynumber: 11.3 Consensus size: 3
59919 ATATTACGTT
59929 TTA TTA TATA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA T
59964 ATGTATATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:60028 original size:9 final size:9
Alignment explanation
Indices: 60016--60084 Score: 50
Period size: 9 Copynumber: 7.7 Consensus size: 9
60006 TTTACCATTT
60016 TTATTTTTA
1 TTATTTTTA
*
60025 TTATTATTA
1 TTATTTTTA
* *
60034 TTCTTTATA
1 TTATTTTTA
**
60043 TTATCCTTA
1 TTATTTTTA
*
60052 TTATTTCTA
1 TTATTTTTA
**
60061 TTATTACTA
1 TTATTTTTA
60070 TT-TTTTTA
1 TTATTTTTA
60078 CTTATTT
1 -TTATTT
60085 ATGTATGTAT
Statistics
Matches: 44, Mismatches: 14, Indels: 3
0.72 0.23 0.05
Matches are distributed among these distances:
8 4 0.09
9 37 0.84
10 3 0.07
ACGTcount: A:0.23, C:0.09, G:0.00, T:0.68
Consensus pattern (9 bp):
TTATTTTTA
Found at i:60046 original size:18 final size:18
Alignment explanation
Indices: 59929--60071 Score: 62
Period size: 18 Copynumber: 7.6 Consensus size: 18
59919 ATATTACGTT
59929 TTATTATATATTA-TTATTA
1 TTATTAT-TATTATTTA-TA
59948 TTATTATTATTA-TTATA
1 TTATTATTATTATTTATA
*
59965 TGTA-TA-TATATATATATA
1 T-TATTATTAT-TATTTATA
*
59983 TTACTTATT-TCTTTTTATA
1 TTA-TTATTAT-TATTTATA
* * *
60002 CTCTTTTACCATTTTTATTTTTA
1 -T-TATT---ATTATTATTTATA
*
60025 TTATTATTATTCTTTATA
1 TTATTATTATTATTTATA
** *
60043 TTATCCTTATTATTTCTA
1 TTATTATTATTATTTATA
*
60061 TTATTACTATT
1 TTATTATTATT
60072 TTTTTACTTA
Statistics
Matches: 94, Mismatches: 18, Indels: 25
0.69 0.13 0.18
Matches are distributed among these distances:
16 3 0.03
17 9 0.10
18 47 0.50
19 16 0.17
20 4 0.04
21 4 0.04
22 1 0.01
23 9 0.10
24 1 0.01
ACGTcount: A:0.29, C:0.08, G:0.01, T:0.63
Consensus pattern (18 bp):
TTATTATTATTATTTATA
Found at i:60228 original size:2 final size:2
Alignment explanation
Indices: 60221--60261 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
60211 TAACTAATAG
60221 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
60262 TTACATGTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:60571 original size:5 final size:5
Alignment explanation
Indices: 60561--60639 Score: 52
Period size: 5 Copynumber: 14.8 Consensus size: 5
60551 TTCTAATTTG
* * *
60561 TTTAT TTTAT TTTAT TTTTT TATTAT CTTAT TTTATTT TTTAT TTTTT
1 TTTAT TTTAT TTTAT TTTAT T-TTAT TTTAT TTTA--T TTTAT TTTAT
* *
60609 GTTTGT TTTAT CTTTTT TTTAAT TTT-T TTTA
1 -TTTAT TTTAT -TTTAT TTT-AT TTTAT TTTA
60640 AGTCATTTAT
Statistics
Matches: 58, Mismatches: 9, Indels: 14
0.72 0.11 0.17
Matches are distributed among these distances:
4 4 0.07
5 34 0.59
6 15 0.26
7 5 0.09
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.80
Consensus pattern (5 bp):
TTTAT
Found at i:60586 original size:21 final size:20
Alignment explanation
Indices: 60562--60608 Score: 69
Period size: 21 Copynumber: 2.4 Consensus size: 20
60552 TCTAATTTGT
60562 TTATTTTATTTTATTTTTTTA
1 TTATTTTATTTTA-TTTTTTA
*
60583 TTATCTTATTTTATTTTTTA
1 TTATTTTATTTTATTTTTTA
60603 TT-TTTT
1 TTATTTT
60609 GTTTGTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 3 0.12
20 9 0.38
21 12 0.50
ACGTcount: A:0.17, C:0.02, G:0.00, T:0.81
Consensus pattern (20 bp):
TTATTTTATTTTATTTTTTA
Found at i:60602 original size:33 final size:35
Alignment explanation
Indices: 60565--60636 Score: 89
Period size: 33 Copynumber: 2.1 Consensus size: 35
60555 AATTTGTTTA
60565 TTTTATTTTATT-TTT-TTATTATC-TTATTTT-ATT
1 TTTTATTTT-TTGTTTGTT-TTATCTTTATTTTAATT
*
60598 TTTTATTTTTTGTTTGTTTTATCTTTTTTTTAATT
1 TTTTATTTTTTGTTTGTTTTATCTTTATTTTAATT
60633 TTTT
1 TTTT
60637 TTAAGTCATT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
32 2 0.06
33 17 0.50
34 8 0.24
35 7 0.21
ACGTcount: A:0.14, C:0.03, G:0.03, T:0.81
Consensus pattern (35 bp):
TTTTATTTTTTGTTTGTTTTATCTTTATTTTAATT
Found at i:60619 original size:28 final size:27
Alignment explanation
Indices: 60557--60638 Score: 82
Period size: 28 Copynumber: 3.1 Consensus size: 27
60547 GTTTTTCTAA
60557 TTTG-TTTATTTTA--TTTTATTTTTT
1 TTTGTTTTATTTTATTTTTTATTTTTT
* *
60581 TATTATCTTATTTTATTTTTTATTTTTT
1 T-TTGTTTTATTTTATTTTTTATTTTTT
* *
60609 GTTTGTTTTATCTT-TTTTTTAATTTTT
1 -TTTGTTTTATTTTATTTTTTATTTTTT
60636 TTT
1 TTT
60639 AAGTCATTTA
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
24 1 0.02
25 2 0.04
26 11 0.23
27 12 0.26
28 20 0.43
29 1 0.02
ACGTcount: A:0.13, C:0.02, G:0.04, T:0.80
Consensus pattern (27 bp):
TTTGTTTTATTTTATTTTTTATTTTTT
Found at i:71199 original size:21 final size:21
Alignment explanation
Indices: 71161--71204 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
71151 CTAAATTGAG
71161 AAAAGAAAAAGAAAAAGAGGAA
1 AAAAGAAAAAGAAAAAGA-GAA
* *
71183 AAAAGAACAA-AAGAAGAGAA
1 AAAAGAAAAAGAAAAAGAGAA
71203 AA
1 AA
71205 TAAGGTTGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 5 0.25
21 6 0.30
22 9 0.45
ACGTcount: A:0.77, C:0.02, G:0.20, T:0.00
Consensus pattern (21 bp):
AAAAGAAAAAGAAAAAGAGAA
Found at i:72139 original size:105 final size:105
Alignment explanation
Indices: 71953--72725 Score: 1357
Period size: 105 Copynumber: 7.3 Consensus size: 105
71943 AGGTTTTACC
71953 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
72018 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
72058 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* *
72123 ACGAAGGGACCACTGGTTGTCAAAAAACATTTCTCAAATT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
72163 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* *
72228 ACGAAGGGACCGTTGGTTGTCAACAAACATTTCTCAAACT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
*
72268 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
72333 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
*
72373 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
72438 ACGAAGGGACCGCTAGTTGTCAACAAACATTTCTCAAATT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
72478 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* * *
72543 ATGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAAC-ATTTCTCAAATT
** *
72584 CAGAGCCAATTTCAACTTCACGGCGAAGGATATTGGACTCCAAACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* *
72649 ACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAAC-ATTTCTCAAATT
* * * *
72690 CGGAGCCAATTTCAACTTCATAGCGAAAGATATTGG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
72726 CCTCGAAACG
Statistics
Matches: 642, Mismatches: 25, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
105 500 0.78
106 142 0.22
ACGTcount: A:0.35, C:0.25, G:0.18, T:0.22
Consensus pattern (105 bp):
CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
Found at i:74344 original size:2 final size:2
Alignment explanation
Indices: 74339--74392 Score: 55
Period size: 2 Copynumber: 29.5 Consensus size: 2
74329 TACGTTTTAT
*
74339 TA TA TA TA TA TA TA TA T- TA T- TA T- TA T- TA TT TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
74376 TG TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA T
74393 TTACTTATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
1 5 0.12
2 38 0.88
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (2 bp):
TA
Found at i:74401 original size:33 final size:33
Alignment explanation
Indices: 74322--74402 Score: 98
Period size: 33 Copynumber: 2.5 Consensus size: 33
74312 ATTGTTTTTT
*
74322 TATATA-TTACGT-TTTATTATATATATATATA
1 TATATATTTACTTATTTATTATATATATATATA
*
74353 TAT-TATTATTA-TTATTTATTATATGTATATATA
1 TATATA-T-TTACTTATTTATTATATATATATATA
74386 TATATATTTACTTATTT
1 TATATATTTACTTATTT
74403 CTTTTTATAC
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
30 2 0.05
31 3 0.07
32 4 0.10
33 31 0.74
34 2 0.05
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.59
Consensus pattern (33 bp):
TATATATTTACTTATTTATTATATATATATATA
Found at i:74984 original size:21 final size:20
Alignment explanation
Indices: 74960--75006 Score: 69
Period size: 21 Copynumber: 2.4 Consensus size: 20
74950 TCTAATTTGT
74960 TTATTTTATTTTATTTATTTA
1 TTATTTTATTTTATTT-TTTA
*
74981 TTATCTTATTTTATTTTTTA
1 TTATTTTATTTTATTTTTTA
75001 TT-TTTT
1 TTATTTT
75007 GTTTGTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 3 0.12
20 6 0.25
21 15 0.62
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (20 bp):
TTATTTTATTTTATTTTTTA
Found at i:76857 original size:3 final size:3
Alignment explanation
Indices: 76851--76884 Score: 52
Period size: 3 Copynumber: 11.3 Consensus size: 3
76841 TATTGAACAT
76851 TTA TTA TTA TTA TTCA -TA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA T
76885 GTTCTAGGCC
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 1 0.03
3 27 0.93
4 1 0.03
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:78134 original size:24 final size:24
Alignment explanation
Indices: 78105--78150 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
78095 TTTTATGTGT
* *
78105 TTTTTTTATGAATTTTA-TTTTTG
1 TTTTTTTGTAAATTTTACTTTTTG
78128 TTTTTTTGTAAATTTTACTTTTT
1 TTTTTTTGTAAATTTTACTTTTT
78151 TATGTATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.17, C:0.02, G:0.07, T:0.74
Consensus pattern (24 bp):
TTTTTTTGTAAATTTTACTTTTTG
Found at i:78513 original size:16 final size:16
Alignment explanation
Indices: 78485--78518 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
78475 AAATTTCTTT
78485 TTTATGTATCTATTTG
1 TTTATGTATCTATTTG
78501 TTTATCGTA-CTATTTG
1 TTTAT-GTATCTATTTG
78517 TT
1 TT
78519 GCGTTCATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 14 0.82
17 3 0.18
ACGTcount: A:0.18, C:0.09, G:0.12, T:0.62
Consensus pattern (16 bp):
TTTATGTATCTATTTG
Found at i:81725 original size:84 final size:84
Alignment explanation
Indices: 81626--81782 Score: 271
Period size: 84 Copynumber: 1.9 Consensus size: 84
81616 AAAAAGGCTT
81626 TTGTGTTCTTGTAGTTTCTGATGGATGTTTCTTCTGTGATCAGAATTATAATGTCGAGAAATTCT
1 TTGTGTTCTTGTAGTTTCTGATGGATGTTTCTTCTGTGATCAGAATTATAATGTCGAGAAATTCT
81691 ATCTTAAACCAAGGAAGGC
66 ATCTTAAACCAAGGAAGGC
* * *
81710 TTGTGTTCTCT-TAGTTTCTGGTGGATGTTTCTTCTGTGATCGGAATTATAATGTTGAGAAATTC
1 TTGTGTTCT-TGTAGTTTCTGATGGATGTTTCTTCTGTGATCAGAATTATAATGTCGAGAAATTC
81774 TATCTTAAA
65 TATCTTAAA
81783 AAATTGATCA
Statistics
Matches: 69, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
84 68 0.99
85 1 0.01
ACGTcount: A:0.24, C:0.12, G:0.21, T:0.43
Consensus pattern (84 bp):
TTGTGTTCTTGTAGTTTCTGATGGATGTTTCTTCTGTGATCAGAATTATAATGTCGAGAAATTCT
ATCTTAAACCAAGGAAGGC
Found at i:99120 original size:24 final size:24
Alignment explanation
Indices: 99093--99166 Score: 121
Period size: 24 Copynumber: 3.1 Consensus size: 24
99083 AAACATAATT
* * *
99093 CAGGTCAAGTAGCAGATCAGAATC
1 CAGGTCAAGTATCATATCAAAATC
99117 CAGGTCAAGTATCATATCAAAATC
1 CAGGTCAAGTATCATATCAAAATC
99141 CAGGTCAAGTATCATATCAAAATC
1 CAGGTCAAGTATCATATCAAAATC
99165 CA
1 CA
99167 AATCGAAAAT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 47 1.00
ACGTcount: A:0.41, C:0.22, G:0.16, T:0.22
Consensus pattern (24 bp):
CAGGTCAAGTATCATATCAAAATC
Found at i:99178 original size:24 final size:24
Alignment explanation
Indices: 99121--99178 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
99111 AGAATCCAGG
* **
99121 TCAAGTATCATATCAAAATCCAGG
1 TCAAGAATCATATCAAAATCCAAA
*
99145 TCAAGTATCATATCAAAATCCAAA
1 TCAAGAATCATATCAAAATCCAAA
99169 TCGAA-AATCA
1 TC-AAGAATCA
99179 GATAAATTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
24 28 0.93
25 2 0.07
ACGTcount: A:0.47, C:0.21, G:0.09, T:0.24
Consensus pattern (24 bp):
TCAAGAATCATATCAAAATCCAAA
Found at i:103207 original size:51 final size:50
Alignment explanation
Indices: 103152--103384 Score: 297
Period size: 51 Copynumber: 4.6 Consensus size: 50
103142 TTACATCGGG
* *
103152 GTAAGTATGTGTTAAGTGCTATACTTTTTTATTTTATTTACTTACACCGTT
1 GTAAGTATGTGTTAAGTGCTACACTTTTTTATTTTATTCACTTACACCG-T
* *
103203 GTAAGTATGTGTTAAGTGCTATACTTTTTTATCTTATTCACTTACACCGAT
1 GTAAGTATGTGTTAAGTGCTACACTTTTTTATTTTATTCACTTACACCG-T
* ** * * *
103254 GTAA-TATGTGTTAGGTTTTACACTTTTGTCTTTTATTCAGTTACACCAGT
1 GTAAGTATGTGTTAAGTGCTACACTTTTTTATTTTATTCACTTACACC-GT
*
103304 GTAAGTATGTGTTAAGTGCTACACTTGTTTATTTTATTCACTTACACCGGT
1 GTAAGTATGTGTTAAGTGCTACACTTTTTTATTTTATTCACTTACACC-GT
* * *
103355 ATAAGTATGTGTTAAGTACTACATTTTTTT
1 GTAAGTATGTGTTAAGTGCTACACTTTTTT
103385 TTGTAGTATG
Statistics
Matches: 157, Mismatches: 23, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
50 40 0.25
51 117 0.75
ACGTcount: A:0.24, C:0.13, G:0.15, T:0.47
Consensus pattern (50 bp):
GTAAGTATGTGTTAAGTGCTACACTTTTTTATTTTATTCACTTACACCGT
Found at i:103335 original size:101 final size:102
Alignment explanation
Indices: 103153--103368 Score: 292
Period size: 101 Copynumber: 2.1 Consensus size: 102
103143 TACATCGGGG
* ** * * *
103153 TAAGTATGTGTTAAGTGCTATACTTTTTTATTTTATTTACTTACACCGTTGTAAGTATGTGTTAA
1 TAAGTATGTGTTAGGTTTTACACTTTTGTATTTTATTCACTTACACCGTTGTAAGTATGTGTTAA
* * *
103218 GTGCTATACTTTTTTATCTTATTCACTTACACCGATG
66 GTGCTACACTTGTTTATCTTATTCACTTACACCGATA
* *
103255 TAA-TATGTGTTAGGTTTTACACTTTTGTCTTTTATTCAGTTACACCAG-TGTAAGTATGTGTTA
1 TAAGTATGTGTTAGGTTTTACACTTTTGTATTTTATTCACTTACACC-GTTGTAAGTATGTGTTA
* *
103318 AGTGCTACACTTGTTTATTTTATTCACTTACACCGGTA
65 AGTGCTACACTTGTTTATCTTATTCACTTACACCGATA
103356 TAAGTATGTGTTA
1 TAAGTATGTGTTA
103369 AGTACTACAT
Statistics
Matches: 99, Mismatches: 13, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
101 86 0.87
102 13 0.13
ACGTcount: A:0.25, C:0.13, G:0.15, T:0.47
Consensus pattern (102 bp):
TAAGTATGTGTTAGGTTTTACACTTTTGTATTTTATTCACTTACACCGTTGTAAGTATGTGTTAA
GTGCTACACTTGTTTATCTTATTCACTTACACCGATA
Found at i:106272 original size:3 final size:3
Alignment explanation
Indices: 106257--106298 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
106247 AGATTAAATG
*
106257 AAT AAT CAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
106299 TATTATTATA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:108638 original size:18 final size:19
Alignment explanation
Indices: 108591--108638 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
108581 TTTTAAAAGG
*
108591 GTGCATCGATGCACTCCTT
1 GTGCATCGATGCACTCATT
108610 GTGCATCGATGCACT-ATT
1 GTGCATCGATGCACTCATT
108628 G-GCATTCGATG
1 GTGCA-TCGATG
108639 TTCAATATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 3 0.11
18 9 0.33
19 15 0.56
ACGTcount: A:0.19, C:0.25, G:0.25, T:0.31
Consensus pattern (19 bp):
GTGCATCGATGCACTCATT
Found at i:123315 original size:13 final size:13
Alignment explanation
Indices: 123297--123335 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
123287 AATAATATGT
123297 ATAATATAATTAA
1 ATAATATAATTAA
*
123310 ATAATATAAAGTAA
1 ATAATAT-AATTAA
*
123324 ATAATTTAATTA
1 ATAATATAATTA
123336 TATTTATTCG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (13 bp):
ATAATATAATTAA
Found at i:130363 original size:36 final size:36
Alignment explanation
Indices: 130321--130396 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 36
130311 TTATAGCTAA
*
130321 AAAAATCGTCTTTATTCGAATTTTGCCAAAAATAGC
1 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
130357 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
1 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
130393 AAAA
1 AAAA
130397 TCCCGAAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (36 bp):
AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
Found at i:134891 original size:14 final size:14
Alignment explanation
Indices: 134872--134900 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
134862 CCACGGTGCT
134872 CCCGGAATCCTGCG
1 CCCGGAATCCTGCG
134886 CCCGGAATCCTGCG
1 CCCGGAATCCTGCG
134900 C
1 C
134901 GATTGTGATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.45, G:0.28, T:0.14
Consensus pattern (14 bp):
CCCGGAATCCTGCG
Found at i:135364 original size:36 final size:36
Alignment explanation
Indices: 135322--135397 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 36
135312 TTATAGCTAA
*
135322 AAAAATCGTCTTTATTCGAATTTTGCCAAAAATAGC
1 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
135358 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
1 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
135394 AAAA
1 AAAA
135398 TCCCGAAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (36 bp):
AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
Found at i:142310 original size:19 final size:19
Alignment explanation
Indices: 142286--142325 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
142276 AGAAATCCCA
142286 ATACATAAGTAAGGGTCCT
1 ATACATAAGTAAGGGTCCT
142305 ATACATAAGTAAGGGTCCT
1 ATACATAAGTAAGGGTCCT
142324 AT
1 AT
142326 GAATACGCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.28
Consensus pattern (19 bp):
ATACATAAGTAAGGGTCCT
Found at i:152103 original size:228 final size:229
Alignment explanation
Indices: 151737--152844 Score: 1401
Period size: 228 Copynumber: 4.9 Consensus size: 229
151727 TAGGTGGAGA
* * * * * * * * *
151737 GTGGATTCC-TTCTGGATGTTGTAGTCCG-CAAGAGTCCTGCCATCCTCCAGCTGCTTCCCTGCA
1 GTGGACTCCTTTCTGGATGTTGTAGTCAGCCAAG-GTGCGGCCATCCTCGAGTTGTTTACCGGCA
* * * * * *
151800 AAGATCAGCCTCTGCTGGTCCGGAGGGATACCTTCCTTATCCTGGATCTTAGCCTTGACATTATC
65 AAGATCAACCTCTGCTGGTCTGGGGGGATACCCTCCTTATCTTGAATCTTAGCCTTGACATTATC
* * *
151865 AATGGTGTCCGAGCTCTCAACCTCCAAGGTGATGGTCTTCCCAGTCAGTGTCTTCACAAAAATCT
130 AATGGTGTCCGAGCTCTCAACCTCCAAGGTGATGGTCTTCCCAGTAAGTGTCTTCACAAAGATTT
151930 GCATACCACCACGGAGACGAAGCACCAAGTGAAGG
195 GCATACCACCACGGAGACGAAGCACCAAGTGAAGG
*
151965 GTCGACT-CTTTCTGGATGTTGTAGTCAGCCAAGGTGCGGCCATCCTCGAGTTGTTTACCGGCAA
1 GTGGACTCCTTTCTGGATGTTGTAGTCAGCCAAGGTGCGGCCATCCTCGAGTTGTTTACCGGCAA
* * *
152029 ATATCAACCTCTGCTGGTCTGGGGGGATACCCTCCTTATCTTGAATTTTAGCCTTGACATTGTCA
66 AGATCAACCTCTGCTGGTCTGGGGGGATACCCTCCTTATCTTGAATCTTAGCCTTGACATTATCA
* *
152094 ATAGTGTCCGAGCTCTCAACCTCCAAGGTGATGGTCTTCCCAGTGAGTGTCTTCACAAAGATTTG
131 ATGGTGTCCGAGCTCTCAACCTCCAAGGTGATGGTCTTCCCAGTAAGTGTCTTCACAAAGATTTG
*
152159 CATACCACCACGGAGACGGAGCACCAAGTGAAGG
196 CATACCACCACGGAGACGAAGCACCAAGTGAAGG
*
152193 GTGGATTCCTTT-TGGATGTTGTAGTCAGCCAAGGTGCGGCCATCCTCGAGTTGTTTACCGGCAA
1 GTGGACTCCTTTCTGGATGTTGTAGTCAGCCAAGGTGCGGCCATCCTCGAGTTGTTTACCGGCAA
* * * *
152257 ATATCAATCTCTGCTGGTCTGGGGGGATACCCTCCTTATCTTGAATTTTAGCCTTGACATTGTCA
66 AGATCAACCTCTGCTGGTCTGGGGGGATACCCTCCTTATCTTGAATCTTAGCCTTGACATTATCA
* *
152322 ATAGTGTCCGAGCTCTCAACCTCCAAGGTGATGGTCTTCCCAGTGAGTGTCTTCACAAAGATTTG
131 ATGGTGTCCGAGCTCTCAACCTCCAAGGTGATGGTCTTCCCAGTAAGTGTCTTCACAAAGATTTG
* *
152387 CATACCACCGCGGAGACGGAGCACCAAGTGAAGG
196 CATACCACCACGGAGACGAAGCACCAAGTGAAGG
*
152421 GTGGATTCCTTT-TGGATGTTGTAGTCAGCCAAGGTGCGGCCATCCTCGAGTTGTTTACCGGCAA
1 GTGGACTCCTTTCTGGATGTTGTAGTCAGCCAAGGTGCGGCCATCCTCGAGTTGTTTACCGGCAA
* * * * *
152485 AGATCAATCTCTGCTGGTCTGGGGGGAT-CCCTTCCTTGTCTTGAATCTTGGCCTTAACGTTATC
66 AGATCAACCTCTGCTGGTCTGGGGGGATACCC-TCCTTATCTTGAATCTTAGCCTTGACATTATC
* * * * * * *
152549 AATGGTGTCGGAGCTTTCCACCT-CGAGGTGATGGTCTTGCCAGTAAGGGTCTTAACAAAGATTT
130 AATGGTGTCCGAGCTCTCAACCTCCAAGGTGATGGTCTTCCCAGTAAGTGTCTTCACAAAGATTT
* ** * * *
152613 GCATACCACCCCTCAAACGAAGGACCAAGTGGAGG
195 GCATACCACCACGGAGACGAAGCACCAAGTGAAGG
* * * * * * * *
152648 GTGGACTCC-TTCTGAATGTTGTAGTCTG-CAAGGGTACGGCCATCCTCCAGCTGTTTTCCAGCG
1 GTGGACTCCTTTCTGGATGTTGTAGTCAGCCAA-GGTGCGGCCATCCTCGAGTTGTTTACCGGCA
* * * * * * * * *
152711 AAGAT-AAGCCTCTGTTGGTCTGGTGGGATTCCTTCCTTGTCCTGGATCTTGGCCTTGACGTTAT
65 AAGATCAA-CCTCTGCTGGTCTGGGGGGATACCCTCCTTATCTTGAATCTTAGCCTTGACATTAT
* * * * * * *
152775 CAATGGTGTCGGAGCTTTCCACCT-CAAGGGTGATGGTCTTGCCAGTAAGGGTCTTGACGAAGAT
129 CAATGGTGTCCGAGCTCTCAACCTCCAA-GGTGATGGTCTTCCCAGTAAGTGTCTTCACAAAGAT
152839 TTGCAT
193 TTGCAT
152845 CTATTTTCAA
Statistics
Matches: 801, Mismatches: 70, Indels: 18
0.90 0.08 0.02
Matches are distributed among these distances:
226 7 0.01
227 192 0.24
228 594 0.74
229 8 0.01
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.28
Consensus pattern (229 bp):
GTGGACTCCTTTCTGGATGTTGTAGTCAGCCAAGGTGCGGCCATCCTCGAGTTGTTTACCGGCAA
AGATCAACCTCTGCTGGTCTGGGGGGATACCCTCCTTATCTTGAATCTTAGCCTTGACATTATCA
ATGGTGTCCGAGCTCTCAACCTCCAAGGTGATGGTCTTCCCAGTAAGTGTCTTCACAAAGATTTG
CATACCACCACGGAGACGAAGCACCAAGTGAAGG
Found at i:153929 original size:17 final size:17
Alignment explanation
Indices: 153904--153942 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
153894 GTCAGTGACG
*
153904 TCACTAACGTGGTTACC
1 TCACCAACGTGGTTACC
153921 TCACCAACGTGGTTACC
1 TCACCAACGTGGTTACC
153938 TCACC
1 TCACC
153943 CAAATAACTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.23, C:0.36, G:0.15, T:0.26
Consensus pattern (17 bp):
TCACCAACGTGGTTACC
Found at i:156723 original size:20 final size:20
Alignment explanation
Indices: 156694--156731 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
156684 ATTTAGGCAC
*
156694 ATATTCAAAATTTAAATAAA
1 ATATTCAAAATTAAAATAAA
*
156714 ATATTTAAAATTAAAATA
1 ATATTCAAAATTAAAATA
156732 TTATAATAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.37
Consensus pattern (20 bp):
ATATTCAAAATTAAAATAAA
Found at i:158295 original size:4 final size:4
Alignment explanation
Indices: 158288--158350 Score: 99
Period size: 4 Copynumber: 15.8 Consensus size: 4
158278 TACCTACACA
* * *
158288 CACG CACG CACA CACA CACG CACG CACG CATG CACG CACG CACG CACG
1 CACG CACG CACG CACG CACG CACG CACG CACG CACG CACG CACG CACG
158336 CACG CACG CACG CAC
1 CACG CACG CACG CAC
158351 ACACTACATG
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 55 1.00
ACGTcount: A:0.29, C:0.49, G:0.21, T:0.02
Consensus pattern (4 bp):
CACG
Found at i:158372 original size:21 final size:21
Alignment explanation
Indices: 158339--158383 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
158329 ACGCACGCAC
* *
158339 GCACGCACGCACACACTACAT
1 GCACACACACACACACTACAT
158360 GCACACACACACACACTACAT
1 GCACACACACACACACTACAT
158381 GCA
1 GCA
158384 TACATGCCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.38, C:0.42, G:0.11, T:0.09
Consensus pattern (21 bp):
GCACACACACACACACTACAT
Found at i:158416 original size:4 final size:4
Alignment explanation
Indices: 158376--160380 Score: 3173
Period size: 4 Copynumber: 512.0 Consensus size: 4
158366 ACACACACAC
* * * *
158376 TACA TGCA TACA TGCCA TACA TGCA TACA TGCA TACA TACA TACA TACA
1 TACA TACA TACA T-ACA TACA TACA TACA TACA TACA TACA TACA TACA
* * *
158425 TACA TACA TACA TACA TACA TACA TATA TATA TATA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
*
158473 TACA TAAA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* * * * *
158521 TACA TACA TACA TACA TACA GACA TACA TACA CACA CACA GACA CACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* * * * *
158569 CACA TGCA TGCA TGCA TGCA TACA TACA TACA TA-A TACA TACA T-CA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
158615 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA T--A
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* * *
158661 TACA TACA TACA TACA TACA TACA TACA TGCA TACA TGCA TATA TTACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA -TACA
158710 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
158758 TACA TACA TAC- TACA TAC- TACA TACA TACA TACA TACA TAC- -ACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
158802 TACA TACA TACA TACA TACA -ACA TACA TACA TACA TACA T-CA TACAA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TAC-A
** * *
158849 TACA TGTA TACA TACA TGCA TACA TACCA TACA TACA TGCA TACA TACA
1 TACA TACA TACA TACA TACA TACA TA-CA TACA TACA TACA TACA TACA
* *
158898 TGCA TAAA TACA T-CA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* *
158945 TGCA TAC- TACA TACA TGCA TACA TACA TAC- TA-A TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
158990 TACA TACA TACA TAC- -ACA TACA TAC- -ACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
159034 TACA TACA TACA TACA TACA TACA TACA TACA TA-A TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
159081 TACA TACCA TACA TACA TAC- TACA TACA TACA TACA TACA TACA TAC-
1 TACA TA-CA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
*
159128 TACA TAC- -ACA TACA TACA TACA TACA TCCA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
159174 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
159222 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
*
159270 TACA TACC TACA TACA TACA TACA TACA TAC- -ACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
159316 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
*
159364 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACC TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
159412 TAC- TACA TACA -ACA TACA TACA TACA TACCA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TA-CA TACA TACA TACA TACA
159459 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
159507 TACA TACA TACA TACA TACA TACA TACA T-CA TACA TACA TACA CTACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA -TACA
159555 TACA TACA TACA TACA TACA TACA TACA TACA TACA TAC- TACCA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TA-CA TACA
159603 TACA TACA TACA TACA TAC- -ACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* *
159649 TACA TACA TACA TACA TACA TACTA CACA TACA TACA TACA TACA TATA
1 TACA TACA TACA TACA TACA TAC-A TACA TACA TACA TACA TACA TACA
159698 TACA TACA TACA TACA TACA TACA TACA TACA TACA T-CA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
159745 TACA T--A TACA TACA TACA TACA TACA TACA TACA TACA TACA TA-A
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
159790 -ACA TACA TACA -ACA TACA TACA TACA TACA TACA TAC- TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
159835 TACA TAC- TACA TACA TACA TACA TACA TACA TACA TACA TAC- TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
159881 TACA TACA TACA TACA TACA TACA TACA TAC- -ACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
*
159927 TACA TACA TACA TACA TACA TACA TACA TAC- -ACA TACC TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* *
159973 GACA TACA TACA TACA TACA TCCA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
*
160021 TACA TACA TACA TACA TACA TACA TACA GACA TACA T--A TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
160067 TACA TACA TAC- TACA TAC- -ACA TACA TACA TACA TACA -ACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
**
160111 TACA TACA TACA TACA TACA TACA T--A TACA TACA CGCA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
160157 TACA TACA -ACA TACA TACA TACCCA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TA--CA TACA TACA TACA TACA TACA TACA
160206 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
160254 TACA TACA TACA T-CA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
160301 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
160349 TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA
160381 CGCATATCAC
Statistics
Matches: 1872, Mismatches: 64, Indels: 130
0.91 0.03 0.06
Matches are distributed among these distances:
2 27 0.01
3 77 0.04
4 1733 0.93
5 31 0.02
6 4 0.00
ACGTcount: A:0.49, C:0.26, G:0.01, T:0.25
Consensus pattern (4 bp):
TACA
Found at i:161094 original size:12 final size:12
Alignment explanation
Indices: 161077--161102 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
161067 GCAATTTCAA
161077 AAGCTTTTCATG
1 AAGCTTTTCATG
161089 AAGCTTTTCATG
1 AAGCTTTTCATG
161101 AA
1 AA
161103 CACTTCTACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (12 bp):
AAGCTTTTCATG
Found at i:161661 original size:2 final size:2
Alignment explanation
Indices: 161656--161727 Score: 137
Period size: 2 Copynumber: 36.5 Consensus size: 2
161646 TCTCTCTCTC
161656 TA TA TA TA TA TA TA TA TA TA TA TA -A 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
161697 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
161728 TTTATTAATT
Statistics
Matches: 69, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.01
2 68 0.99
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:163683 original size:40 final size:41
Alignment explanation
Indices: 163468--163917 Score: 382
Period size: 41 Copynumber: 11.1 Consensus size: 41
163458 TAACGGCATT
* * ** * * *
163468 TTTAGCGGCGTTTTTAGAACAAACGTTGCTAAATACTTGTAC
1 TTTAGTGGCGTTTTTA-TACAAACGCCGCTATAGACTCGTAC
163510 TTTAGTGGCGTTTTT-TACAAACGCCGCTA-AGACT-GT-C
1 TTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGTAC
* * * * * *
163547 TTTAGTGGCATATTTAGAACAAACGCCGCTAAATACTCATAC
1 TTTAGTGGCGTTTTTA-TACAAACGCCGCTATAGACTCGTAC
* * *
163589 TTTAATGGCGTTTTTAATACAAACGCCGATAAAGACT-GTAC
1 TTTAGTGGCGTTTTT-ATACAAACGCCGCTATAGACTCGTAC
* * * *
163630 TTTAGCGACGTTTTTATACAAACACCGTTATAGACTCGTAC
1 TTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGTAC
* * *
163671 -TTAGTGGTG-TTTT-TACAAACGCCGCTAAAGACTCATAC
1 TTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGTAC
* * * * * *
163709 TTTAGTGGCGTTTTTATA-TAATGTCGCTAAAGACTCATAT
1 TTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGTAC
* * * *
163749 TTTAGTGGCGTTTTAATACAAACGTCGCTATAGACTAGTCC
1 TTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGTAC
* *
163790 TTTAGTGGAGTTTTTATATAAACGCCGCTATAGACTC-TAAC
1 TTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGT-AC
* * * * * * *
163831 TTTAGTGGCATTTTTTTACAAACACCGCTGTACACTCATGC
1 TTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGTAC
* * *
163872 TTTAGTGGC-ATTTTATACAAACGCCGTTATAGACTCGTGC
1 TTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGTAC
163912 TTTAGT
1 TTTAGT
163918 TGGAGCCCCT
Statistics
Matches: 331, Mismatches: 64, Indels: 28
0.78 0.15 0.07
Matches are distributed among these distances:
37 14 0.04
38 23 0.07
39 29 0.09
40 109 0.33
41 110 0.33
42 45 0.14
43 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (41 bp):
TTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGTAC
Found at i:163760 original size:160 final size:161
Alignment explanation
Indices: 163506--163907 Score: 417
Period size: 160 Copynumber: 2.5 Consensus size: 161
163496 CTAAATACTT
* * *
163506 GTACTTTAGTGGCGTTTTTTACAAACGCCGCTAAGACT-GTCTTTAGTGGCATATTTAGAACAAA
1 GTACTTTAGTGGTG-TTTTTACAAACGCCGCTAAGACTCATCTTTAGTGGCATTTTTAGAACAAA
*
163570 CGCCGCTAAATACTCATACTTTAATGGCGTTTTTAATACAAACGCCGATAAAGACT-GTACTTTA
65 CGCCGCTAAAGACTCATACTTTAATGGCG-TTTTAATACAAACGCCGATAAAGACTAGTACTTTA
*
163634 G-CGACGTTTTTATACAAACACCGTTATAGACTC
129 GTCGA-GTTTTTATACAAACACCGCTATAGACTC
* * *
163667 GTAC-TTAGTGGTGTTTTTACAAACGCCGCTAAAGACTCATACTTTAGTGGCGTTTTTA-TA-TA
1 GTACTTTAGTGGTGTTTTTACAAACGCCGCT-AAGACTCAT-CTTTAGTGGCATTTTTAGAACAA
* * * * * * * *
163729 ATGTCGCTAAAGACTCATATTTTAGTGGCGTTTTAATACAAACGTCGCTATAGACTAGTCCTTTA
64 ACGCCGCTAAAGACTCATACTTTAATGGCGTTTTAATACAAACGCCGATAAAGACTAGTACTTTA
* * *
163794 GTGGAGTTTTTATATAAACGCCGCTATAGACTC
129 GTCGAGTTTTTATACAAACACCGCTATAGACTC
* * * * *
163827 -TAACTTTAGTGGCATTTTTTTACAAACACCGCTGTACACTCATGCTTTAGTGGCA-TTTTA-TA
1 GT-ACTTTAGTGG--TGTTTTTACAAACGCCGCT-AAGACTCAT-CTTTAGTGGCATTTTTAGAA
* *
163889 CAAACGCCGTTATAGACTC
61 CAAACGCCGCTAAAGACTC
163908 GTGCTTTAGT
Statistics
Matches: 200, Mismatches: 31, Indels: 18
0.80 0.12 0.07
Matches are distributed among these distances:
159 41 0.20
160 75 0.38
161 15 0.08
162 22 0.11
163 47 0.23
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.35
Consensus pattern (161 bp):
GTACTTTAGTGGTGTTTTTACAAACGCCGCTAAGACTCATCTTTAGTGGCATTTTTAGAACAAAC
GCCGCTAAAGACTCATACTTTAATGGCGTTTTAATACAAACGCCGATAAAGACTAGTACTTTAGT
CGAGTTTTTATACAAACACCGCTATAGACTC
Found at i:163793 original size:81 final size:79
Alignment explanation
Indices: 163468--163907 Score: 325
Period size: 81 Copynumber: 5.5 Consensus size: 79
163458 TAACGGCATT
* * ** * ** *
163468 TTTAGCGGCGTTTTTAGAACAAACGTTGCTAAATACTTGTACTTTAGTGGCGTTTTTTACAAACG
1 TTTAGTGGCGTTTTTA-TACAAACGCCGCTAAAGACTCATA-TTTAGTGGCGTTTTATACAAACG
163533 CCGCT-AAGACTGT-C
64 CCGCTAAAGACTGTAC
* * * * *
163547 TTTAGTGGCATATTTAGAACAAACGCCGCTAAATACTCATACTTTAATGGCGTTTTTAATACAAA
1 TTTAGTGGCGTTTTTA-TACAAACGCCGCTAAAGACTCATA-TTTAGTGGCG-TTTT-ATACAAA
*
163612 CGCCGATAAAGACTGTAC
62 CGCCGCTAAAGACTGTAC
* * * * * * * *
163630 TTTAGCGACGTTTTTATACAAACACCGTTATAGACTCGTACTTAGTGGTGTTTT-TACAAACGCC
1 TTTAGTGGCGTTTTTATACAAACGCCGCTAAAGACTCATATTTAGTGGCGTTTTATACAAACGCC
*
163694 GCTAAAGACTCATAC
66 GCTAAAGACT-GTAC
* * *
163709 TTTAGTGGCGTTTTTATA-TAATGTCGCTAAAGACTCATATTTTAGTGGCGTTTTAATACAAACG
1 TTTAGTGGCGTTTTTATACAAACGCCGCTAAAGACTCATA-TTTAGTGGCGTTTT-ATACAAACG
* * *
163773 TCGCTATAGACTAGTCC
64 CCGCTAAAGACT-GTAC
* * * * *
163790 TTTAGTGGAGTTTTTATATAAACGCCGCTATAGACTC-TAACTTTAGTGGCATTTTTTTACAAAC
1 TTTAGTGGCGTTTTTATACAAACGCCGCTAAAGACTCAT-A-TTTAGTGGC-GTTTTATACAAAC
* ** * * *
163854 ACCGCTGTACACTCATGC
63 GCCGCTAAAGACT-GTAC
* * *
163872 TTTAGTGGC-ATTTTATACAAACGCCGTTATAGACTC
1 TTTAGTGGCGTTTTTATACAAACGCCGCTAAAGACTC
163908 GTGCTTTAGT
Statistics
Matches: 290, Mismatches: 60, Indels: 20
0.78 0.16 0.05
Matches are distributed among these distances:
78 33 0.11
79 75 0.26
80 8 0.03
81 81 0.28
82 76 0.26
83 17 0.06
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (79 bp):
TTTAGTGGCGTTTTTATACAAACGCCGCTAAAGACTCATATTTAGTGGCGTTTTATACAAACGCC
GCTAAAGACTGTAC
Found at i:166309 original size:2 final size:2
Alignment explanation
Indices: 166292--166339 Score: 62
Period size: 2 Copynumber: 24.5 Consensus size: 2
166282 TATTACGATA
* * *
166292 AT AT AT AA AT AA AT AT AT AT AT AT AT AT A- AT AT AT AT AT AG
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
166333 AT AT AT A
1 AT AT AT A
166340 ATGTAGAGAA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (2 bp):
AT
Found at i:167821 original size:43 final size:42
Alignment explanation
Indices: 167645--167948 Score: 275
Period size: 42 Copynumber: 7.2 Consensus size: 42
167635 AAGGTAATTA
* *
167645 GCGGCGTTT-TT-CAATAACGCCGCTATAGATAT-ACTCTTTT
1 GCGGCGTTTGTTCCAAAAACGCCGCTATAGATCTGAC-CTTTT
* * * *
167685 GCGGCGTTTGATTCCAAAAAACGCCACAATAAATCTGTCCTTTT
1 GCGGCGTTTG-TTCC-AAAAACGCCGCTATAGATCTGACCTTTT
* * *
167729 GCGGCGTTTATATCCAAAAACACCAC--TAGATCTGACCTTTT
1 GCGGCGTTTGT-TCCAAAAACGCCGCTATAGATCTGACCTTTT
*
167770 GCGACGTTTGTATCCAAAAACGCCGCTATAGATCTCGACCTTTT
1 GCGGCGTTTGT-TCCAAAAACGCCGCTATAGATCT-GACCTTTT
* *
167814 G-TGCGTTTTGTTCC-AAAACGCCGCTATAGATATCGACCTTTT
1 GCGGCG-TTTGTTCCAAAAACGCCGCTATAGATCT-GACCTTTT
* * * *
167856 GCAGCGTTTGTTCC-AAGACGCCGCGATAGATATTGACCTTTT
1 GCGGCGTTTGTTCCAAAAACGCCGCTATAGAT-CTGACCTTTT
* * * *
167898 GCGGCGTTTGTTCCTAAAACGTCGCGATAGATCTTGACC-TAT
1 GCGGCGTTTGTTCCAAAAACGCCGCTATAGATC-TGACCTTTT
167940 GCGGCGTTT
1 GCGGCGTTT
167949 TTTGTTCTCA
Statistics
Matches: 224, Mismatches: 26, Indels: 26
0.81 0.09 0.09
Matches are distributed among these distances:
40 9 0.04
41 35 0.16
42 85 0.38
43 48 0.21
44 46 0.21
45 1 0.00
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.32
Consensus pattern (42 bp):
GCGGCGTTTGTTCCAAAAACGCCGCTATAGATCTGACCTTTT
Found at i:167877 original size:84 final size:87
Alignment explanation
Indices: 167645--167929 Score: 233
Period size: 85 Copynumber: 3.4 Consensus size: 87
167635 AAGGTAATTA
* *
167645 GCGGCGTTT-TT-C-AATAACGCCGCTATAGATAT--ACTCTTTTGCGGCGTTTG-ATTCCAAAA
1 GCGGCGTTTGTTCCTAA-AACGCCGCGATAGATATCGAC-CTTTTGCGACGTTTGTA-TCC-AAA
* * *
167704 AACGCCACAATA-A-ATCTGTCCTTTT
62 AACGCCGCGATAGATATC-GACCTTTT
* * * * *
167729 GCGGCGTTTATATCCAAAAACACCAC--TAGATCT-GACCTTTTGCGACGTTTGTATCCAAAAAC
1 GCGGCGTTTGT-TCCTAAAACGCCGCGATAGATATCGACCTTTTGCGACGTTTGTATCCAAAAAC
* *
167791 GCCGCTATAGATCTCGACCTTTT
65 GCCGCGATAGATATCGACCTTTT
* * *
167814 G-TGCGTTTTGTTCC-AAAACGCCGCTATAGATATCGACCTTTTGC-AGCGTTTGT-TCC-AAGA
1 GCGGCG-TTTGTTCCTAAAACGCCGCGATAGATATCGACCTTTTGCGA-CGTTTGTATCCAAAAA
*
167874 CGCCGCGATAGATATTGACCTTTT
64 CGCCGCGATAGATATCGACCTTTT
*
167898 GCGGCGTTTGTTCCTAAAACGTCGCGATAGAT
1 GCGGCGTTTGTTCCTAAAACGCCGCGATAGAT
167930 CTTGACCTAT
Statistics
Matches: 166, Mismatches: 20, Indels: 29
0.77 0.09 0.13
Matches are distributed among these distances:
83 8 0.05
84 61 0.37
85 65 0.39
86 23 0.14
87 7 0.04
88 2 0.01
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.32
Consensus pattern (87 bp):
GCGGCGTTTGTTCCTAAAACGCCGCGATAGATATCGACCTTTTGCGACGTTTGTATCCAAAAACG
CCGCGATAGATATCGACCTTTT
Done.