Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000848.1 Hibiscus syriacus cultivar Beakdansim tig00001635_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: 114727
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Found at i:8394 original size:181 final size:183
Alignment explanation
Indices: 8076--8460 Score: 625
Period size: 181 Copynumber: 2.1 Consensus size: 183
8066 TTTTCTAATT
* * *
8076 TATATAA-AAATTAAATATTTTTTAATTCAAAAAAAGTTTATAATTAATTTAAATAATATATAAT
1 TATATAATATATTTAATATTTTTTAATTCAAAAAAAGTTTACAATTAATTTAAATAATATATAAT
*
8140 TATAAAATAAAAATTTTAGATAAATTTTTTAATTAATTAATATTGATTTAAGATTAAAAGTTATT
66 TATAAAATAAAAAATTTAGATAAATTTTTTAATTAATTAATATTGATTTAAGATTAAAAGTTATT
* *
8205 AGATCTTAAATTATTAATTGGGTTTTAAATG-GTGGGTTTAGCCCATATTTTA
131 AGATCTTAAATTATTAATTGGGTTTTAAATGAGTGGGTTAAGCCCATATGTTA
*
8257 TATTTAATATATTTAATATTTTTTAATT-AAAAAATAGTTTACAATTAATTTAAATAATATATAA
1 TATATAATATATTTAATATTTTTTAATTCAAAAAA-AGTTTACAATTAATTTAAATAATATATAA
* *
8321 TTATAAAATAAAAAATTTATAT-AATTTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTAT
65 TTATAAAATAAAAAATTTAGATAAATTTTTTAATTAATTAATATTGATTTAAGATTAAAAGTTAT
* *
8385 TGGATCTTAAATTATTAATTGGGTTTTAAATGATTTGGGTTAAGCCCATATGTTA
130 TAGATCTTAAATTATTAATTGGGTTTTAAATGA-GTGGGTTAAGCCCATATGTTA
8440 TATATAATATATTTAATATTT
1 TATATAATATATTTAATATTT
8461 AAAATTTAAT
Statistics
Matches: 188, Mismatches: 12, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
181 84 0.45
182 66 0.35
183 38 0.20
ACGTcount: A:0.43, C:0.03, G:0.08, T:0.46
Consensus pattern (183 bp):
TATATAATATATTTAATATTTTTTAATTCAAAAAAAGTTTACAATTAATTTAAATAATATATAAT
TATAAAATAAAAAATTTAGATAAATTTTTTAATTAATTAATATTGATTTAAGATTAAAAGTTATT
AGATCTTAAATTATTAATTGGGTTTTAAATGAGTGGGTTAAGCCCATATGTTA
Found at i:10057 original size:134 final size:133
Alignment explanation
Indices: 9917--10361 Score: 529
Period size: 134 Copynumber: 3.3 Consensus size: 133
9907 AGATCGAGAA
* * * * *
9917 ATGTTGATTCATTCCATTATTCTTCAAGAAAGTTTGAATCGAGGTAGACTTGTTCCACTGTCACT
1 ATGTTGATTCATTCCACTATTCTTCAGGGAAGATTGAATCGAGGTAGACTTGTTCCACTGTTACT
* * * *
9982 TTGATAATATCAAATCTTGAAAGAGAGGGATTTGTTTCACTTCTTCTTGAGGGAAAATCAGATCT
66 TAGAGAATATCAAATCTTGAAAGAAAGGGATATG-TTCACTTCTTCTTGAGGGAAAATCAGATCT
10047 GGGG
130 GGGG
* * * * *
10051 ATGTTGATTCATTCCCACTGTTCTTTAGGGAAGATTGAATCGCGGCAGACTTGTT-CACTGTTTC
1 ATGTTGATTCATT-CCACTATTCTTCAGGGAAGATTGAATCGAGGTAGACTTGTTCCACTGTTAC
* * * * *
10115 TCAGGGAACATAAAATCTTGAAAGAAAGGGATATGTTCATCTTCTTCTTGAGGGAAAATCGGATC
65 TTAGAGAATATCAAATCTTGAAAGAAAGGGATATGTTCA-CTTCTTCTTGAGGGAAAATCAGATC
10180 TGGGG
129 TGGGG
* * *
10185 ACT-TTGATTCATTCCACTATTCTTCAGGGAAGATTGAATCGAGTTTGATTTGTTCCACTGTTAC
1 A-TGTTGATTCATTCCACTATTCTTCAGGGAAGATTGAATCGAGGTAGACTTGTTCCACTGTTAC
* * * *
10249 TCA-AGGAATATCAAATCTTAAAAGAAAGGGATATGTTCTGCTTCTTCTTGAGAGAAAATCAGAT
65 TTAGA-GAATATCAAATCTTGAAAGAAAGGGATATGTTC-ACTTCTTCTTGAGGGAAAATCAGAT
10313 CTGGGG
128 CTGGGG
* * * *
10319 ACGTTGATTCATTCCGCTGTTACTT-AGGGAAGATTAAATCGAG
1 ATGTTGATTCATTCCACTATT-CTTCAGGGAAGATTGAATCGAG
10362 TTCGGTTTGT
Statistics
Matches: 265, Mismatches: 38, Indels: 16
0.83 0.12 0.05
Matches are distributed among these distances:
133 38 0.14
134 190 0.72
135 37 0.14
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.34
Consensus pattern (133 bp):
ATGTTGATTCATTCCACTATTCTTCAGGGAAGATTGAATCGAGGTAGACTTGTTCCACTGTTACT
TAGAGAATATCAAATCTTGAAAGAAAGGGATATGTTCACTTCTTCTTGAGGGAAAATCAGATCTG
GGG
Found at i:11601 original size:14 final size:13
Alignment explanation
Indices: 11582--11693 Score: 64
Period size: 13 Copynumber: 7.9 Consensus size: 13
11572 TTGTTTTCTA
11582 TTTTTCTTTCTTTT
1 TTTTTCTTT-TTTT
11596 TTTTTCTTTTTTT
1 TTTTTCTTTTTTT
* * *
11609 TCTTT-ATTTTTA
1 TTTTTCTTTTTTT
**
11621 TTTTTCTTTTTCA
1 TTTTTCTTTTTTT
11634 TTTTTCATTTTTCATT
1 TTTTTC-TTTTT--TT
*
11650 AATTTTTAATTTTTAATTT
1 --TTTTT--CTTTT--TTT
*
11669 TTTTTCTTTATTT
1 TTTTTCTTTTTTT
11682 TTTTTCTTTTTT
1 TTTTTCTTTTTT
11694 CATTTTTTAT
Statistics
Matches: 76, Mismatches: 12, Indels: 21
0.70 0.11 0.19
Matches are distributed among these distances:
12 9 0.12
13 33 0.43
14 14 0.18
15 3 0.04
17 5 0.07
18 5 0.07
19 6 0.08
21 1 0.01
ACGTcount: A:0.11, C:0.09, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTTCTTTTTTT
Found at i:11605 original size:19 final size:20
Alignment explanation
Indices: 11575--11683 Score: 98
Period size: 19 Copynumber: 5.2 Consensus size: 20
11565 CCCCATTTTG
*
11575 TTTTCTATTTTTCTTTCTTTT
1 TTTT-TATTTTTCTTTCTTTA
*
11596 TTTTTCTTTTT-TTTCTTTA
1 TTTTTATTTTTCTTTCTTTA
*
11615 TTTTTATTTTTCTTT-TTCA
1 TTTTTATTTTTCTTTCTTTA
*
11634 TTTTTCATTTTTCATTAATTTTTAA
1 TTTTT-ATTTTTC-TT--TCTTT-A
11659 TTTTTAATTTTT-TTTCTTTA
1 TTTTT-ATTTTTCTTTCTTTA
11679 TTTTT
1 TTTTT
11684 TTTCTTTTTT
Statistics
Matches: 74, Mismatches: 7, Indels: 15
0.77 0.07 0.16
Matches are distributed among these distances:
19 25 0.34
20 22 0.30
21 10 0.14
23 3 0.04
24 2 0.03
25 12 0.16
ACGTcount: A:0.12, C:0.09, G:0.00, T:0.79
Consensus pattern (20 bp):
TTTTTATTTTTCTTTCTTTA
Found at i:11607 original size:7 final size:7
Alignment explanation
Indices: 11575--11701 Score: 53
Period size: 7 Copynumber: 16.6 Consensus size: 7
11565 CCCCATTTTG
11575 TTTTCTAT
1 TTTTCT-T
11583 TTTTCTT
1 TTTTCTT
11590 TCTTT-TT
1 T-TTTCTT
11597 TTTTCTTTT
1 TTTTC--TT
11606 TTTTCTT
1 TTTTCTT
*
11613 TATTTTTAT
1 T-TTTCT-T
11622 TTTTC-T
1 TTTTCTT
*
11628 TTTTCAT
1 TTTTCTT
*
11635 TTTTCAT
1 TTTTCTT
11642 TTTTCATTAAT
1 TTTTC--T--T
*
11653 TTTTAATT
1 TTTT-CTT
*
11661 TTTAATTTT
1 TTT--TCTT
11670 TTTTCTT
1 TTTTCTT
*
11677 TATT-TT
1 TTTTCTT
11683 TTTTCTT
1 TTTTCTT
11690 TTTTCATT
1 TTTTC-TT
11698 TTTT
1 TTTT
11702 ATTCTTCAGG
Statistics
Matches: 95, Mismatches: 8, Indels: 32
0.70 0.06 0.24
Matches are distributed among these distances:
6 14 0.15
7 34 0.36
8 26 0.27
9 14 0.15
10 2 0.02
11 5 0.05
ACGTcount: A:0.11, C:0.09, G:0.00, T:0.80
Consensus pattern (7 bp):
TTTTCTT
Found at i:11608 original size:23 final size:25
Alignment explanation
Indices: 11582--11631 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
11572 TTGTTTTCTA
11582 TTTTTCTTT-CTTTT-TTTTTCTTT
1 TTTTTCTTTACTTTTATTTTTCTTT
*
11605 TTTTTCTTTATTTTTATTTTTCTTT
1 TTTTTCTTTACTTTTATTTTTCTTT
11630 TT
1 TT
11632 CATTTTTCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 9 0.38
24 4 0.17
25 11 0.46
ACGTcount: A:0.04, C:0.10, G:0.00, T:0.86
Consensus pattern (25 bp):
TTTTTCTTTACTTTTATTTTTCTTT
Found at i:11624 original size:5 final size:6
Alignment explanation
Indices: 11592--11700 Score: 57
Period size: 6 Copynumber: 17.7 Consensus size: 6
11582 TTTTTCTTTC
* * *
11592 TTTT-T TTTTCT TTTTTT TCTTTAT TTTTAT TTTTCT TTTTCAT TTTTCAT
1 TTTTAT TTTTAT TTTTAT T-TTTAT TTTTAT TTTTAT TTTT-AT TTTT-AT
* *
11642 TTTTCA- -TTAAT TTTTAAT TTTTAAT TTTTTT TCTTTAT TTTT-T TTCTT-T
1 TTTT-AT TTTTAT TTTT-AT TTTT-AT TTTTAT T-TTTAT TTTTAT TT-TTAT
*
11691 TTTCAT TTTT
1 TTTTAT TTTT
11701 TATTCTTCAG
Statistics
Matches: 85, Mismatches: 10, Indels: 17
0.76 0.09 0.15
Matches are distributed among these distances:
4 1 0.01
5 10 0.12
6 37 0.44
7 37 0.44
ACGTcount: A:0.12, C:0.08, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTTAT
Found at i:11631 original size:31 final size:30
Alignment explanation
Indices: 11592--11707 Score: 87
Period size: 31 Copynumber: 3.7 Consensus size: 30
11582 TTTTTCTTTC
11592 TTTTTTTTTCTTTTTTTTCTTTATTTTTAT
1 TTTTTTTTTCTTTTTTTTCTTTATTTTTAT
* *
11622 TTTTCTTTTTC--ATTTTTCATTT-TTCATTAAT
1 TTTT-TTTTTCTTTTTTTTC-TTTATT--TTTAT
*
11653 TTTTAATTTTTAATTTTTTTTCTTTATTTTT-T
1 TTTT--TTTTT-CTTTTTTTTCTTTATTTTTAT
*
11685 TTCTTTTTTCATTTTTTATTCTT
1 TTTTTTTTTC-TTTTTT-TTCTT
11708 CAGGTGAAGT
Statistics
Matches: 67, Mismatches: 8, Indels: 21
0.70 0.08 0.22
Matches are distributed among these distances:
29 8 0.12
30 18 0.27
31 19 0.28
32 9 0.13
33 2 0.03
34 3 0.04
35 8 0.12
ACGTcount: A:0.12, C:0.09, G:0.00, T:0.79
Consensus pattern (30 bp):
TTTTTTTTTCTTTTTTTTCTTTATTTTTAT
Found at i:14266 original size:21 final size:21
Alignment explanation
Indices: 14225--14267 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
14215 ACTAATAATG
**
14225 ATATTTTATATTTATTTTTTA
1 ATATTTTATATTTATAATTTA
14246 ATATTTTATATTT-TAAATTTA
1 ATATTTTATATTTAT-AATTTA
14267 A
1 A
14268 AAATATTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 1 0.05
21 18 0.95
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (21 bp):
ATATTTTATATTTATAATTTA
Found at i:14696 original size:22 final size:23
Alignment explanation
Indices: 14653--14698 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
14643 CATATAATTA
* *
14653 TAAATTAGTTGAAAATTTAAAGG
1 TAAATTAGTTGAAAAATAAAAGG
*
14676 TAAATTA-TTTAAAAATAAAAGG
1 TAAATTAGTTGAAAAATAAAAGG
14698 T
1 T
14699 TAACTATACA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.52, C:0.00, G:0.13, T:0.35
Consensus pattern (23 bp):
TAAATTAGTTGAAAAATAAAAGG
Found at i:16051 original size:52 final size:52
Alignment explanation
Indices: 15973--16087 Score: 212
Period size: 52 Copynumber: 2.2 Consensus size: 52
15963 ATTGGCTTAG
* *
15973 GAAATTAATTCACCAGAGAGAAGAGAAAGTTATAAGGGTTGGTATCCGAAGT
1 GAAATTAATTTACCAGAGAGAAGAGAAAGTTACAAGGGTTGGTATCCGAAGT
16025 GAAATTAATTTACCAGAGAGAAGAGAAAGTTACAAGGGTTGGTATCCGAAGT
1 GAAATTAATTTACCAGAGAGAAGAGAAAGTTACAAGGGTTGGTATCCGAAGT
16077 GAAATTAATTT
1 GAAATTAATTT
16088 CAGTGATCGA
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 61 1.00
ACGTcount: A:0.41, C:0.09, G:0.25, T:0.25
Consensus pattern (52 bp):
GAAATTAATTTACCAGAGAGAAGAGAAAGTTACAAGGGTTGGTATCCGAAGT
Found at i:16204 original size:20 final size:19
Alignment explanation
Indices: 16171--16208 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
16161 CTTTTCTTAT
16171 TTTTATTGTTTTTACTTTAC
1 TTTTATTGTTTTTA-TTTAC
16191 TTTTATT-TTGTTTATTTA
1 TTTTATTGTT-TTTATTTA
16209 GTTACTTGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.16, C:0.05, G:0.05, T:0.74
Consensus pattern (19 bp):
TTTTATTGTTTTTATTTAC
Found at i:28731 original size:24 final size:24
Alignment explanation
Indices: 28699--28777 Score: 99
Period size: 24 Copynumber: 3.3 Consensus size: 24
28689 GATAATTTGC
*
28699 TCATTTATGTTAATTTATGTTCGT
1 TCATTTATGTTAATTTATGTTCAT
*
28723 TCATTTATG-TACA-TTATGCTCAT
1 TCATTTATGTTA-ATTTATGTTCAT
*
28746 TCATTTATGTTTATTTATGTTCAT
1 TCATTTATGTTAATTTATGTTCAT
*
28770 TCGTTTAT
1 TCATTTAT
28778 ATTCAGTCTA
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
23 20 0.43
24 27 0.57
ACGTcount: A:0.22, C:0.11, G:0.10, T:0.57
Consensus pattern (24 bp):
TCATTTATGTTAATTTATGTTCAT
Found at i:38353 original size:2 final size:2
Alignment explanation
Indices: 38346--38372 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
38336 AGGAAAAATG
38346 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
38373 GGAAGATGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:38899 original size:23 final size:23
Alignment explanation
Indices: 38841--38901 Score: 77
Period size: 23 Copynumber: 2.7 Consensus size: 23
38831 CAATCTTATA
*
38841 TGGCACTTCGGTGCATTTCTACG
1 TGGCACTTCGGTGCAATTCTACG
* * *
38864 CGGAACTACGGTGCAATTCTACG
1 TGGCACTTCGGTGCAATTCTACG
*
38887 TGGCACTTTGGTGCA
1 TGGCACTTCGGTGCA
38902 TTTATATGAG
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.18, C:0.25, G:0.28, T:0.30
Consensus pattern (23 bp):
TGGCACTTCGGTGCAATTCTACG
Found at i:46360 original size:27 final size:27
Alignment explanation
Indices: 46329--46384 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
46319 AATAGTAATC
46329 AACTCCATTCGATCACTCTCGTACTTT
1 AACTCCATTCGATCACTCTCGTACTTT
* * *
46356 AACTCCATTCGATCATTCTTGTAGTTT
1 AACTCCATTCGATCACTCTCGTACTTT
46383 AA
1 AA
46385 TTTCATGTCT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.25, C:0.27, G:0.09, T:0.39
Consensus pattern (27 bp):
AACTCCATTCGATCACTCTCGTACTTT
Found at i:47777 original size:24 final size:24
Alignment explanation
Indices: 47750--47803 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
47740 ACTCAATTAA
* *
47750 TTTTATGTTCGTTCGTTTATGTTC
1 TTTTATATTCGTTCATTTATGTTC
* *
47774 TTTTACATTCGTTCATTTGTGTTC
1 TTTTATATTCGTTCATTTATGTTC
*
47798 GTTTAT
1 TTTTAT
47804 CATTTTAACA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.11, C:0.13, G:0.15, T:0.61
Consensus pattern (24 bp):
TTTTATATTCGTTCATTTATGTTC
Found at i:48270 original size:19 final size:19
Alignment explanation
Indices: 48246--48284 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
48236 CTAAAATTCG
48246 ATAATTTTTAATTTAATTA
1 ATAATTTTTAATTTAATTA
* *
48265 ATAATTTTTATTTTTATTA
1 ATAATTTTTAATTTAATTA
48284 A
1 A
48285 AAAATAAAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
ATAATTTTTAATTTAATTA
Found at i:48569 original size:7 final size:7
Alignment explanation
Indices: 48557--48594 Score: 76
Period size: 7 Copynumber: 5.4 Consensus size: 7
48547 AATAAAATAA
48557 ATTTTAT
1 ATTTTAT
48564 ATTTTAT
1 ATTTTAT
48571 ATTTTAT
1 ATTTTAT
48578 ATTTTAT
1 ATTTTAT
48585 ATTTTAT
1 ATTTTAT
48592 ATT
1 ATT
48595 AAATATAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (7 bp):
ATTTTAT
Found at i:48600 original size:21 final size:21
Alignment explanation
Indices: 48557--48600 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
48547 AATAAAATAA
**
48557 ATTTTATATTTTATATTTTAT
1 ATTTTATATTTTATATTAAAT
48578 ATTTTATATTTTATATTAAAT
1 ATTTTATATTTTATATTAAAT
48599 AT
1 AT
48601 AATATTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (21 bp):
ATTTTATATTTTATATTAAAT
Found at i:49350 original size:6 final size:6
Alignment explanation
Indices: 49339--49363 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
49329 TAAAGTTCAG
49339 GTTTGA GTTTGA GTTTGA GTTTGA G
1 GTTTGA GTTTGA GTTTGA GTTTGA G
49364 GCTTCAATCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.36, T:0.48
Consensus pattern (6 bp):
GTTTGA
Found at i:51468 original size:25 final size:26
Alignment explanation
Indices: 51405--51473 Score: 72
Period size: 25 Copynumber: 2.7 Consensus size: 26
51395 ATTATATAAT
* *
51405 ATTACAAATTATATTATATAATTCTGC
1 ATTATAAA-TATATTATATAATTCTAC
*
51432 ATT-TATATATATTATAT-ATT-TAC
1 ATTATAAATATATTATATAATTCTAC
51455 ATTATAAATCATATTATAT
1 ATTATAAAT-ATATTATAT
51474 TTATTATGGT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
23 5 0.14
24 7 0.19
25 19 0.53
26 2 0.06
27 3 0.08
ACGTcount: A:0.42, C:0.07, G:0.01, T:0.49
Consensus pattern (26 bp):
ATTATAAATATATTATATAATTCTAC
Found at i:52388 original size:2 final size:2
Alignment explanation
Indices: 52374--52425 Score: 88
Period size: 2 Copynumber: 26.0 Consensus size: 2
52364 TTTTTTTATT
52374 TA TA TGA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
52416 TA TA TA TA TA
1 TA TA TA TA TA
52426 ATTTTATTTT
Statistics
Matches: 48, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
1 1 0.02
2 45 0.94
3 2 0.04
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
TA
Found at i:52511 original size:3 final size:3
Alignment explanation
Indices: 52503--52574 Score: 51
Period size: 3 Copynumber: 24.0 Consensus size: 3
52493 ATAATATAAC
* * * *
52503 TAT TAT TAT TAT TAT TAT CAT TAT TTT TAT TTT TGT TAT TAAT GTAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT -TAT
*
52550 ATAT T-T TAT T-T TAT T-T TTT TAT TAT
1 -TAT TAT TAT TAT TAT TAT TAT TAT TAT
52575 CATATATATT
Statistics
Matches: 55, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
2 6 0.11
3 41 0.75
4 7 0.13
5 1 0.02
ACGTcount: A:0.26, C:0.01, G:0.03, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:52541 original size:27 final size:25
Alignment explanation
Indices: 52511--52685 Score: 79
Period size: 26 Copynumber: 6.4 Consensus size: 25
52501 ACTATTATTA
52511 TTATTATTATCATTATTTTTATTTTT
1 TTATTATTAT-ATTATTTTTATTTTT
*
52537 GTTATTAATGTATATATTTTATTTTATTTTT
1 -TTATT-A--T-TATATTAT-TTTTATTTTT
*
52568 TTATTATCATATATATTCTTTATTTATATAT
1 TTATTATTATAT-TATT-TTTA-TT-T-T-T
52599 TTATTTATT-TATT-TTATTTATTTTAT
1 TTA-TTATTATATTATT-TTTATTTT-T
*
52625 TTATTTATTATA-TATTTTAATTTTT
1 TTA-TTATTATATTATTTTTATTTTT
** * * *
52650 TCCCTTGTT-TATTTTTCTTTATATTT
1 T-TATTATTATATTATT-TTTATTTTT
52676 TTATTATTAT
1 TTATTATTAT
52686 TTTTTCTTTA
Statistics
Matches: 115, Mismatches: 15, Indels: 37
0.69 0.09 0.22
Matches are distributed among these distances:
24 2 0.02
25 13 0.11
26 34 0.30
27 17 0.15
28 5 0.04
29 8 0.07
30 12 0.10
31 20 0.17
32 4 0.03
ACGTcount: A:0.25, C:0.04, G:0.02, T:0.70
Consensus pattern (25 bp):
TTATTATTATATTATTTTTATTTTT
Found at i:52574 original size:57 final size:55
Alignment explanation
Indices: 52503--52649 Score: 147
Period size: 57 Copynumber: 2.6 Consensus size: 55
52493 ATAATATAAC
*
52503 TATTATTA-TTATTATTATCATTATTTTTATTTTTGTTATTAATGTATATATTTTATTT
1 TATT-TTATTTATTATTAT-ATTATTTTTATTTTT-ATATTAATGTATATATTTTA-TT
* * * * *
52561 TATTTT-TTTATTATCATATATATTCTTTATTTATATATTTATTTATTTATTTTATT
1 TATTTTATTTATTATTATAT-TATT-TTTATTTTTATATTAATGTATATATTTTATT
*
52617 TATTTTATTTATTTATTATA-TATTTTAATTTTT
1 TATTTTATTTA-TTATTATATTATTTTTATTTTT
52650 TCCCTTGTTT
Statistics
Matches: 75, Mismatches: 9, Indels: 13
0.77 0.09 0.13
Matches are distributed among these distances:
55 7 0.09
56 14 0.19
57 35 0.47
58 19 0.25
ACGTcount: A:0.27, C:0.02, G:0.01, T:0.69
Consensus pattern (55 bp):
TATTTTATTTATTATTATATTATTTTTATTTTTATATTAATGTATATATTTTATT
Found at i:52591 original size:19 final size:16
Alignment explanation
Indices: 52554--52641 Score: 70
Period size: 13 Copynumber: 5.9 Consensus size: 16
52544 ATGTATATAT
52554 TTTATTT-TAT-TTT-
1 TTTATTTATATATTTA
*
52567 TTTATTATCATATATATTC
1 TTTATT-T-ATATAT-TTA
52586 TTTATTTATATATTTA
1 TTTATTTATATATTTA
52602 TTTA-TT-TAT-TTTA
1 TTTATTTATATATTTA
52615 TTTA-TT-T-TATTTA
1 TTTATTTATATATTTA
52628 TTTA-TTATATATTT
1 TTTATTTATATATTT
52642 TAATTTTTTC
Statistics
Matches: 65, Mismatches: 1, Indels: 16
0.79 0.01 0.20
Matches are distributed among these distances:
12 1 0.02
13 27 0.42
14 5 0.08
15 7 0.11
16 9 0.14
17 7 0.11
18 3 0.05
19 6 0.09
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (16 bp):
TTTATTTATATATTTA
Found at i:52593 original size:4 final size:4
Alignment explanation
Indices: 52554--52792 Score: 72
Period size: 4 Copynumber: 57.8 Consensus size: 4
52544 ATGTATATAT
* * * *
52554 TTTA TTTTA TTTT TTTA TTATCA TATA TATTC TTTA TTTA TATA TTTA
1 TTTA -TTTA TTTA TTTA TT-T-A TTTA T-TTA TTTA TTTA TTTA TTTA
*
52602 TTTA TTTA TTTTA TTTA TTTTA TTTA TTTA TTATA TATT- TTAA TTT-
1 TTTA TTTA -TTTA TTTA -TTTA TTTA TTTA TT-TA T-TTA TTTA TTTA
* * * * *
52648 TTTCC CTTG TTTA -TT- TTTC TTTA TATT- TTTA -TTA -TTA TTT- TTTC
1 TTT-A TTTA TTTA TTTA TTTA TTTA T-TTA TTTA TTTA TTTA TTTA TTTA
* *
52692 TTTA TTATA TTTA TCCTA TTTA TCTTCA TTT- TATT- TTTA TTTTC TTTA
1 TTTA TT-TA TTTA T-TTA TTTA T-TT-A TTTA T-TTA TTTA -TTTA TTTA
* *
52740 TCTTA TCTTA TTT- TTCTCA TTTG TTTT TTTA -TTA TTT- TTTA TCTTA
1 T-TTA T-TTA TTTA TT-T-A TTTA TTTA TTTA TTTA TTTA TTTA T-TTA
52786 TTTA TTT
1 TTTA TTT
52793 TCATTACTAT
Statistics
Matches: 181, Mismatches: 23, Indels: 61
0.68 0.09 0.23
Matches are distributed among these distances:
3 30 0.17
4 92 0.51
5 52 0.29
6 7 0.04
ACGTcount: A:0.21, C:0.07, G:0.01, T:0.72
Consensus pattern (4 bp):
TTTA
Found at i:52616 original size:9 final size:9
Alignment explanation
Indices: 52554--52793 Score: 86
Period size: 9 Copynumber: 25.9 Consensus size: 9
52544 ATGTATATAT
52554 TTTATTTTA
1 TTTATTTTA
52563 TTT-TTTTA
1 TTTATTTTA
**
52571 -TTATCATA
1 TTTATTTTA
*
52579 TATATTCTTTA
1 TTTA-T-TTTA
*
52590 TTTA-TATA
1 TTTATTTTA
52598 TTTA-TTTA
1 TTTATTTTA
52606 TTTATTTTA
1 TTTATTTTA
52615 TTTATTTTA
1 TTTATTTTA
52624 TTTATTTATTA
1 TTTA-TT-TTA
*
52635 TATATTTTAA
1 TTTATTTT-A
* *
52645 TTTTTTCCCTTG
1 TTTATT---TTA
*
52657 TTTATTTTTC
1 TTTA-TTTTA
*
52667 TTTATATT-
1 TTTATTTTA
52675 TTTATTATTA
1 TTTATT-TTA
*
52685 -TT-TTTTC
1 TTTATTTTA
*
52692 TTTATTATA
1 TTTATTTTA
**
52701 TTTATCCTA
1 TTTATTTTA
*
52710 TTTATCTTCA
1 TTTAT-TTTA
52720 TTTTATTTTTA
1 -TTTA-TTTTA
52731 TTT-TCTTTA
1 TTTAT-TTTA
*
52740 TCTTATCTTA
1 T-TTATTTTA
*
52750 TTT-TTCTCA
1 TTTATT-TTA
*
52759 TTTGTTTT-
1 TTTATTTTA
*
52767 TTTATTATTT
1 TTTATT-TTA
*
52777 TTTATCTTA
1 TTTATTTTA
52786 TTTATTTT
1 TTTATTTT
52794 CATTACTATT
Statistics
Matches: 172, Mismatches: 33, Indels: 52
0.67 0.13 0.20
Matches are distributed among these distances:
7 4 0.02
8 38 0.22
9 70 0.41
10 33 0.19
11 19 0.11
12 4 0.02
13 4 0.02
ACGTcount: A:0.20, C:0.07, G:0.01, T:0.72
Consensus pattern (9 bp):
TTTATTTTA
Found at i:52726 original size:40 final size:38
Alignment explanation
Indices: 52682--52807 Score: 123
Period size: 40 Copynumber: 3.2 Consensus size: 38
52672 ATTTTTATTA
*
52682 TTATTTTTTCTTTATTATATTTATCCTATTTATCTTCATT
1 TTATTTTTT-TTTATT-TATTTATCTTATTTATCTTCATT
* *
52722 TTATTTTTATTTTCTTTATCTTATCTTATTTTTC-TCATT
1 TTATTTTT-TTTTATTTAT-TTATCTTATTTATCTTCATT
* *
52761 TGT-TTTTTTATTATTT-TTTATCTTATTTATTTTCATT
1 T-TATTTTTTTTTATTTATTTATCTTATTTATCTTCATT
*
52798 ACTATTTTTT
1 -TTATTTTTT
52808 CCCTTCTAAC
Statistics
Matches: 72, Mismatches: 8, Indels: 14
0.77 0.09 0.15
Matches are distributed among these distances:
36 12 0.17
37 7 0.10
38 12 0.17
39 14 0.19
40 26 0.36
41 1 0.01
ACGTcount: A:0.17, C:0.10, G:0.01, T:0.71
Consensus pattern (38 bp):
TTATTTTTTTTTATTTATTTATCTTATTTATCTTCATT
Found at i:59055 original size:13 final size:13
Alignment explanation
Indices: 59037--59067 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
59027 AGCACTCAGA
*
59037 AAAAGAAGGAAAG
1 AAAAGAAAGAAAG
59050 AAAAGAAAGAAAG
1 AAAAGAAAGAAAG
59063 AAAAG
1 AAAAG
59068 TTGAAAGCAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (13 bp):
AAAAGAAAGAAAG
Found at i:64645 original size:84 final size:84
Alignment explanation
Indices: 64496--65458 Score: 1150
Period size: 84 Copynumber: 11.5 Consensus size: 84
64486 GAAACTATCG
* * * * * *
64496 GCAGCTTAACTCAAGGCGAGAAGGGTTATCTGTCAGC-AAAGACATTCGAGTTCGACTACGCTCA
1 GCAGCATAACTCAAGGCTAGAAGGGTTATTTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCA
64560 GCTCCAAGGCATATCATTT
66 GCTCCAAGGCATATCATTT
** * * *
64579 GCAATATAGCTCAAGG-TAAGAAGGGTTATTTTCCAACAAAAGACCTTCGAGTTTGACTACGCTC
1 GCAGCATAACTCAAGGCT-AGAAGGGTTATTTGCCAACAAAAGACCTTCGAGTTCGACTACGCTC
*
64643 AGCTCAAAGGCATATCATTT
65 AGCTCCAAGGCATATCATTT
* * * *
64663 GCAGCATAACTCAAGGCTAGAAGGGTTATCTACGAACCAAAGACCTTCGAGTTCGACTACGCTCA
1 GCAGCATAACTCAAGGCTAGAAGGGTTATTTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCA
64728 GCTCCAAGGCATATCATTT
66 GCTCCAAGGCATATCATTT
* * * * * *
64747 GCAACATAGCTCAAGG-TAATAAGGGTTATTTGCCAATAAAAGACCTTCGAGTTTGACTACGCTT
1 GCAGCATAACTCAAGGCT-AGAAGGGTTATTTGCCAACAAAAGACCTTCGAGTTCGACTACGCTC
*
64811 AGCTCAAAGGCATATCATTT
65 AGCTCCAAGGCATATCATTT
* * * * *
64831 GTAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTACACTCA
1 GCAGCATAACTCAAGGCTAGAAGGGTTATTTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCA
* ** *
64896 ACTTTAAGGCACATCATTT
66 GCTCCAAGGCATATCATTT
* * ** * * * *
64915 GCAACATAGCTCAAGGAAATAAGGGCTATTTGCCAA-AAACA-ACCTTCAAGTTTGACTACGCTC
1 GCAGCATAACTCAAGGCTAGAAGGGTTATTTGCCAACAAA-AGACCTTCGAGTTCGACTACGCTC
*
64978 AGCTCCAAGGCACATCATTT
65 AGCTCCAAGGCATATCATTT
* * * **
64998 GCAGCATAACTCAAGGCTAGAAGGGTTATATGTCAACCAAAGACCTTCGAGTTTAACTACGCTCA
1 GCAGCATAACTCAAGGCTAGAAGGGTTATTTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCA
* *
65063 GATCCAAGGCACATCATTT
66 GCTCCAAGGCATATCATTT
* * * * * *
65082 GCAGCATAGCTTAAGGCTAGAAGGGCTATCTGTCACCAAAAGACCTTCGAGTTCGACTACGCTCA
1 GCAGCATAACTCAAGGCTAGAAGGGTTATTTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCA
65147 GCTCCAAGGCATATCATTT
66 GCTCCAAGGCATATCATTT
* * *
65166 GCAGCATAACTCAAGGCTAGAAAGCTTATTTACCAACCAAAA-ACCTTCGAGTTCGACTACGCTC
1 GCAGCATAACTCAAGGCTAGAAGGGTTATTTGCCAA-CAAAAGACCTTCGAGTTCGACTACGCTC
*
65230 AGCTCCAAGGCACATCATTT
65 AGCTCCAAGGCATATCATTT
* * *
65250 GCAACATAGA-TCAAGGCTAGAAGGGTTATCTT-CCACCAAAAGACCTTTGAGTTCGACTACGCT
1 GCAGCATA-ACTCAAGGCTAGAAGGGTTAT-TTGCCAACAAAAGACCTTCGAGTTCGACTACGCT
*
65313 CAACTCCAAGGCATATCATTT
64 CAGCTCCAAGGCATATCATTT
* * * * * *
65334 GTAGTATAACCCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCG
1 GCAGCATAACTCAAGGCTAGAAGGGTTATTTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCA
65399 GCTCCAAGGCATATCATTT
66 GCTCCAAGGCATATCATTT
* * * * * *
65418 GTAGCATATCTCAAAGCAAGAAGGGTTATTTGTCAATAAAA
1 GCAGCATAACTCAAGGCTAGAAGGGTTATTTGCCAACAAAA
65459 TTGTCGAGTT
Statistics
Matches: 745, Mismatches: 121, Indels: 27
0.83 0.14 0.03
Matches are distributed among these distances:
83 101 0.14
84 634 0.85
85 10 0.01
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (84 bp):
GCAGCATAACTCAAGGCTAGAAGGGTTATTTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCA
GCTCCAAGGCATATCATTT
Found at i:64717 original size:168 final size:168
Alignment explanation
Indices: 64496--65448 Score: 1270
Period size: 168 Copynumber: 5.7 Consensus size: 168
64486 GAAACTATCG
* * ** * *
64496 GCAGCTTAACTCAAGGCGAGAAGGGTTATCTGTC-AGCAAAGACATTCGAGTTCGACTACGCTCA
1 GCAGCATAACTCAAGGCTAGAAGGGTTATCTACCAACCAAAGACCTTCGAGTTCGACTACGCTCA
* *
64560 GCTCCAAGGCATATCATTTGCAATATAGCTCAAGGTAAGAAGGGTTATTTTCCAACAAAAGACCT
66 GCTCCAAGGCACATCATTTGCAACATAGCTCAAGGTAAGAAGGGTTATTTTCCAACAAAAGACCT
*
64625 TCGAGTTTGACTACGCTCAGCTCAAAGGCATATCATTT
131 TCGAGTTTGACTACGCTCAGCTCCAAGGCATATCATTT
*
64663 GCAGCATAACTCAAGGCTAGAAGGGTTATCTACGAACCAAAGACCTTCGAGTTCGACTACGCTCA
1 GCAGCATAACTCAAGGCTAGAAGGGTTATCTACCAACCAAAGACCTTCGAGTTCGACTACGCTCA
* * * *
64728 GCTCCAAGGCATATCATTTGCAACATAGCTCAAGGTAATAAGGGTTATTTGCCAATAAAAGACCT
66 GCTCCAAGGCACATCATTTGCAACATAGCTCAAGGTAAGAAGGGTTATTTTCCAACAAAAGACCT
* *
64793 TCGAGTTTGACTACGCTTAGCTCAAAGGCATATCATTT
131 TCGAGTTTGACTACGCTCAGCTCCAAGGCATATCATTT
* * * *
64831 GTAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTACACTCA
1 GCAGCATAACTCAAGGCTAGAAGGGTTATCTACCAACCAAAGACCTTCGAGTTCGACTACGCTCA
* ** * * * *
64896 ACTTTAAGGCACATCATTTGCAACATAGCTCAAGGAAATAAGGGCTATTTGCCAA-AAACA-ACC
66 GCTCCAAGGCACATCATTTGCAACATAGCTCAAGGTAAGAAGGGTTATTTTCCAACAAA-AGACC
* *
64959 TTCAAGTTTGACTACGCTCAGCTCCAAGGCACATCATTT
130 TTCGAGTTTGACTACGCTCAGCTCCAAGGCATATCATTT
* ** **
64998 GCAGCATAACTCAAGGCTAGAAGGGTTATATGTCAACCAAAGACCTTCGAGTTTAACTACGCTCA
1 GCAGCATAACTCAAGGCTAGAAGGGTTATCTACCAACCAAAGACCTTCGAGTTCGACTACGCTCA
* * * * * *
65063 GATCCAAGGCACATCATTTGCAGCATAGCTTAAGGCT-AGAAGGGCTATCTGT-CACCAAAAGAC
66 GCTCCAAGGCACATCATTTGCAACATAGCTCAAGG-TAAGAAGGGTTAT-TTTCCAACAAAAGAC
*
65126 CTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTT
129 CTTCGAGTTTGACTACGCTCAGCTCCAAGGCATATCATTT
* * * *
65166 GCAGCATAACTCAAGGCTAGAAAGCTTATTTACCAACCAAAAACCTTCGAGTTCGACTACGCTCA
1 GCAGCATAACTCAAGGCTAGAAGGGTTATCTACCAACCAAAGACCTTCGAGTTCGACTACGCTCA
* * *
65231 GCTCCAAGGCACATCATTTGCAACATAGATCAAGGCT-AGAAGGGTTATCTTCCACCAAAAGACC
66 GCTCCAAGGCACATCATTTGCAACATAGCTCAAGG-TAAGAAGGGTTATTTTCCAACAAAAGACC
* * *
65295 TTTGAGTTCGACTACGCTCAACTCCAAGGCATATCATTT
130 TTCGAGTTTGACTACGCTCAGCTCCAAGGCATATCATTT
* * * * *
65334 GTAGTATAACCCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCG
1 GCAGCATAACTCAAGGCTAGAAGGGTTATCTACCAACCAAAGACCTTCGAGTTCGACTACGCTCA
* * * * * *
65399 GCTCCAAGGCATATCATTTGTAGCATATCTCAAAGCAAGAAGGGTTATTT
66 GCTCCAAGGCACATCATTTGCAACATAGCTCAAGGTAAGAAGGGTTATTT
65449 GTCAATAAAA
Statistics
Matches: 696, Mismatches: 82, Indels: 15
0.88 0.10 0.02
Matches are distributed among these distances:
167 171 0.25
168 525 0.75
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (168 bp):
GCAGCATAACTCAAGGCTAGAAGGGTTATCTACCAACCAAAGACCTTCGAGTTCGACTACGCTCA
GCTCCAAGGCACATCATTTGCAACATAGCTCAAGGTAAGAAGGGTTATTTTCCAACAAAAGACCT
TCGAGTTTGACTACGCTCAGCTCCAAGGCATATCATTT
Found at i:66046 original size:23 final size:24
Alignment explanation
Indices: 66014--66073 Score: 70
Period size: 23 Copynumber: 2.5 Consensus size: 24
66004 TATTACAAAT
*
66014 TATATTTTATA-ATTCTATATT-TA
1 TATATATTATATATT-TATATTATA
66037 TATATATTATATATTTATATTATA
1 TATATATTATATATTTATATTATA
*
66061 AATCATATTATAT
1 TAT-ATATTATAT
66074 TTATTATGGT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
23 16 0.50
24 7 0.22
25 9 0.28
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (24 bp):
TATATATTATATATTTATATTATA
Found at i:66049 original size:25 final size:24
Alignment explanation
Indices: 66003--66073 Score: 72
Period size: 25 Copynumber: 2.8 Consensus size: 24
65993 GTATTATATA
* *
66003 ATATTACAAATTATATTTTATAATTCT
1 ATATTATAAA-TATATTATAT-ATT-T
*
66030 ATATT-TATATATATTATATATTT
1 ATATTATAAATATATTATATATTT
66053 ATATTATAAATCATATTATAT
1 ATATTATAAAT-ATATTATAT
66074 TTATTATGGT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
23 6 0.16
24 7 0.18
25 18 0.47
26 2 0.05
27 5 0.13
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (24 bp):
ATATTATAAATATATTATATATTT
Found at i:66051 original size:17 final size:16
Alignment explanation
Indices: 66014--66056 Score: 61
Period size: 17 Copynumber: 2.7 Consensus size: 16
66004 TATTACAAAT
*
66014 TATATTT-TATAATTC
1 TATATTTATATAATTA
66029 TATATTTATATATATTA
1 TATATTTATATA-ATTA
66046 TATATTTATAT
1 TATATTTATAT
66057 TATAAATCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 7 0.28
16 4 0.16
17 14 0.56
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (16 bp):
TATATTTATATAATTA
Found at i:66978 original size:7 final size:7
Alignment explanation
Indices: 66951--67001 Score: 52
Period size: 7 Copynumber: 7.3 Consensus size: 7
66941 AATTTAATCC
66951 TTTTATCT
1 TTTTAT-T
66959 TTCTTATT
1 TT-TTATT
66967 TTTT-TT
1 TTTTATT
*
66973 TATT-TT
1 TTTTATT
66979 TTTTATT
1 TTTTATT
*
66986 TCTTATT
1 TTTTATT
66993 TTTTATT
1 TTTTATT
67000 TT
1 TT
67002 ATACAATATT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
6 10 0.27
7 18 0.49
8 5 0.14
9 4 0.11
ACGTcount: A:0.12, C:0.06, G:0.00, T:0.82
Consensus pattern (7 bp):
TTTTATT
Found at i:67049 original size:22 final size:24
Alignment explanation
Indices: 67023--67082 Score: 72
Period size: 24 Copynumber: 2.5 Consensus size: 24
67013 TATATATATA
67023 TATTATTTTATTT-TA-ATCCTT-T
1 TATTATTTTATTTGTATAT-CTTAT
*
67045 TATTATTTTTATTTGTATATTTTAT
1 TATTA-TTTTATTTGTATATCTTAT
67070 TATTATTTTATTT
1 TATTATTTTATTT
67083 CTTTTTTTAC
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
22 5 0.15
23 8 0.24
24 12 0.36
25 8 0.24
ACGTcount: A:0.23, C:0.03, G:0.02, T:0.72
Consensus pattern (24 bp):
TATTATTTTATTTGTATATCTTAT
Found at i:67136 original size:3 final size:3
Alignment explanation
Indices: 67128--67177 Score: 64
Period size: 3 Copynumber: 16.7 Consensus size: 3
67118 TATATATATA
* * * *
67128 TAT TAT TAT AAC TAT TAT TAT TAT TAT CAT TAT TTT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
67176 TA
1 TA
67178 ACGTATATAT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:67137 original size:18 final size:18
Alignment explanation
Indices: 67102--67172 Score: 53
Period size: 18 Copynumber: 4.1 Consensus size: 18
67092 CTACTTTGTT
*
67102 TATATGTATATA-TA-TA
1 TATATATATATATTATTA
67118 TATATATATATATTATTA
1 TATATATATATATTATTA
67136 TA-ACTAT-TATTATTATTA
1 TATA-TATATA-TATTATTA
* *
67154 TCAT-TATTTTTATTATTA
1 T-ATATATATATATTATTA
67172 T
1 T
67173 TATTAACGTA
Statistics
Matches: 46, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
16 11 0.24
17 5 0.11
18 28 0.61
19 2 0.04
ACGTcount: A:0.38, C:0.03, G:0.01, T:0.58
Consensus pattern (18 bp):
TATATATATATATTATTA
Found at i:67173 original size:12 final size:12
Alignment explanation
Indices: 67044--67173 Score: 54
Period size: 12 Copynumber: 10.7 Consensus size: 12
67034 TTTAATCCTT
67044 TTATTATTTTTA
1 TTATTATTTTTA
67056 TT-TGTATATTTTA
1 TTAT-TAT-TTTTA
67069 TTATTA-TTTTA
1 TTATTATTTTTA
*
67080 TT-TCTTTTTTTA
1 TTAT-TATTTTTA
* *
67092 CTACTT-TGTTTA
1 TTA-TTATTTTTA
* *
67104 -TATGTATATATA
1 TTAT-TATTTTTA
* *
67116 TATATATATATATA
1 T-TAT-TATTTTTA
***
67130 TTATTATAACTA
1 TTATTATTTTTA
*
67142 TTATTATTATTA
1 TTATTATTTTTA
*
67154 TCATTATTTTTA
1 TTATTATTTTTA
67166 TTATTATT
1 TTATTATT
67174 ATTAACGTAT
Statistics
Matches: 94, Mismatches: 13, Indels: 22
0.73 0.10 0.17
Matches are distributed among these distances:
10 2 0.02
11 12 0.13
12 53 0.56
13 13 0.14
14 14 0.15
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (12 bp):
TTATTATTTTTA
Found at i:67238 original size:4 final size:4
Alignment explanation
Indices: 67231--67475 Score: 65
Period size: 4 Copynumber: 60.8 Consensus size: 4
67221 TATACTCTTT
*
67231 TTTA TTTA TTTTA TTTA TTTTA TTTTA TTTA TTTA TTATC TTTA TTGTA
1 TTTA TTTA -TTTA TTTA -TTTA -TTTA TTTA TTTA TT-TA TTTA TT-TA
* * *
67280 TTTA TTTG TTT- TTCCT- TTCTA GTT- TTTA TTTA TTTA TTTA -TTA TATA
1 TTTA TTTA TTTA TT--TA TT-TA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
* * * *
67327 TTT- TATTA TTTCC CTTG TTTC TTT- TTCT- TTATA TTT- TTTA -TTA
1 TTTA T-TTA TTT-A TTTA TTTA TTTA TT-TA TT-TA TTTA TTTA TTTA
* * **
67370 TTT- TTTC TTTA -TTA TTT- TTAA CCTA TTTA TCTTA TTT- TATT- TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA T-TTA TTTA T-TTA TTTA
* * *
67415 TTTTC TTTA TCTTA TCTTA TTTA TTTCA TTTG TTT- TTTA -TTG TTT-
1 -TTTA TTTA T-TTA T-TTA TTTA TTT-A TTTA TTTA TTTA TTTA TTTA
67460 TTTA TCTTA TTTA TTT
1 TTTA T-TTA TTTA TTT
67476 TCATTACTAT
Statistics
Matches: 188, Mismatches: 24, Indels: 58
0.70 0.09 0.21
Matches are distributed among these distances:
3 35 0.19
4 100 0.53
5 53 0.28
ACGTcount: A:0.18, C:0.07, G:0.02, T:0.72
Consensus pattern (4 bp):
TTTA
Found at i:67244 original size:9 final size:9
Alignment explanation
Indices: 67230--67476 Score: 72
Period size: 9 Copynumber: 27.4 Consensus size: 9
67220 ATATACTCTT
67230 TTTTATTTA
1 TTTTATTTA
67239 TTTTATTTA
1 TTTTATTTA
67248 TTTTATTT-
1 TTTTATTTA
67256 TATTTATTTA
1 T-TTTATTTA
* *
67266 TTATCTTTA
1 TTTTATTTA
*
67275 TTGTATTTA
1 TTTTATTTA
* *
67284 TTTGTTTTTCC
1 TTT-TATTT-A
*
67295 TTTCTA-GT-
1 TTT-TATTTA
67303 TTTTATTTA
1 TTTTATTTA
67312 -TTTATTTA
1 TTTTATTTA
*
67320 --TTATATA
1 TTTTATTTA
67327 TTTTA-TTA
1 TTTTATTTA
*** *
67335 TTTCCCTTG
1 TTTTATTTA
67344 TTTCT-TTT-
1 TTT-TATTTA
67352 TCTTTATATT-
1 T-TTTAT-TTA
*
67362 TTTTATTATT
1 TTTTATT-TA
*
67372 TTTTCTTTA
1 TTTTATTTA
67381 TTATT-TTTA
1 TT-TTATTTA
***
67390 ACCTATTTA
1 TTTTATTTA
*
67399 TCTTATTTTA
1 TTTTA-TTTA
67409 TTTTTATTT-
1 -TTTTATTTA
67418 TCTTTATCTTA
1 T-TTTAT-TTA
*
67429 TCTTATTTA
1 TTTTATTTA
*
67438 TTTCATTT-
1 TTTTATTTA
*
67446 GTTT-TTTA
1 TTTTATTTA
*
67454 TTGTTTTTTA
1 TT-TTATTTA
*
67464 TCTTATTTA
1 TTTTATTTA
67473 TTTT
1 TTTT
67477 CATTACTATT
Statistics
Matches: 178, Mismatches: 35, Indels: 50
0.68 0.13 0.19
Matches are distributed among these distances:
7 11 0.06
8 26 0.15
9 97 0.54
10 35 0.20
11 9 0.05
ACGTcount: A:0.18, C:0.07, G:0.02, T:0.72
Consensus pattern (9 bp):
TTTTATTTA
Found at i:67436 original size:39 final size:39
Alignment explanation
Indices: 67393--67475 Score: 109
Period size: 39 Copynumber: 2.1 Consensus size: 39
67383 ATTTTTAACC
67393 TATTTATCTT-ATTT-TATTTTTATT-TTCTTTATCTTATCT
1 TATTTAT-TTCATTTGT-TTTTTATTGTTCTTTATCTTAT-T
*
67432 TATTTATTTCATTTGTTTTTTATTGTTTTTTATCTTATT
1 TATTTATTTCATTTGTTTTTTATTGTTCTTTATCTTATT
67471 TATTT
1 TATTT
67476 TCATTACTAT
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
38 2 0.05
39 25 0.62
40 13 0.32
ACGTcount: A:0.17, C:0.07, G:0.02, T:0.73
Consensus pattern (39 bp):
TATTTATTTCATTTGTTTTTTATTGTTCTTTATCTTATT
Found at i:67580 original size:6 final size:6
Alignment explanation
Indices: 67564--67598 Score: 61
Period size: 6 Copynumber: 5.7 Consensus size: 6
67554 CGAATTGAAT
67564 TTTTAAA TTTTAA TTTTAA TTTTAA TTTTAA TTTT
1 TTTT-AA TTTTAA TTTTAA TTTTAA TTTTAA TTTT
67599 CGTAAATAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 24 0.86
7 4 0.14
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (6 bp):
TTTTAA
Found at i:70474 original size:3 final size:3
Alignment explanation
Indices: 70466--70559 Score: 120
Period size: 3 Copynumber: 31.0 Consensus size: 3
70456 CAGTTTGCTT
*
70466 TTA TTA TTA TTA TTA TT- TTA TTTA TTA TTA TTA TTA TACA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA T-TA TTA TTA
* *
70512 TTA TTA TTA TTTA TTA TTA TTA TTA TAA ATA TTA TTA -TA TTA TTA
1 TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
70557 TTA
1 TTA
70560 ATAAATAATT
Statistics
Matches: 80, Mismatches: 6, Indels: 10
0.83 0.06 0.10
Matches are distributed among these distances:
2 4 0.05
3 68 0.85
4 8 0.10
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:70508 original size:16 final size:16
Alignment explanation
Indices: 70466--70559 Score: 106
Period size: 16 Copynumber: 6.0 Consensus size: 16
70456 CAGTTTGCTT
70466 TTATTAT-TATTATTA
1 TTATTATATATTATTA
*
70481 TT-TTATTTATTATTA
1 TTATTATATATTATTA
*
70496 TTATTATACATTATTA
1 TTATTATATATTATTA
70512 TTATTAT-TATTTATTA
1 TTATTATATA-TTATTA
* *
70528 TTATTAT-TATAAATA
1 TTATTATATATTATTA
70543 TTATTATATTATTATTA
1 TTATTATA-TATTATTA
70560 ATAAATAATT
Statistics
Matches: 67, Mismatches: 7, Indels: 8
0.82 0.09 0.10
Matches are distributed among these distances:
14 4 0.06
15 24 0.36
16 33 0.49
17 6 0.09
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (16 bp):
TTATTATATATTATTA
Found at i:70570 original size:14 final size:12
Alignment explanation
Indices: 70491--70566 Score: 55
Period size: 13 Copynumber: 6.2 Consensus size: 12
70481 TTTTATTTAT
*
70491 TATTATTATTATA
1 TATTATTA-TAAA
* * *
70504 CATTATTATTAT
1 TATTATTATAAA
* *
70516 TATTATTTATTAT
1 TATTA-TTATAAA
70529 TATTATTATAAA
1 TATTATTATAAA
*
70541 TATTATTAT-AT
1 TATTATTATAAA
70552 TATTATTAATAAA
1 TATTATT-ATAAA
70565 TA
1 TA
70567 ATTACAAATA
Statistics
Matches: 51, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
11 8 0.16
12 21 0.41
13 22 0.43
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (12 bp):
TATTATTATAAA
Found at i:70576 original size:34 final size:37
Alignment explanation
Indices: 70470--70576 Score: 91
Period size: 34 Copynumber: 3.1 Consensus size: 37
70460 TTGCTTTTAT
* * * *
70470 TATTATTATTATT-TTATTTATTATTATTATT--ATA
1 TATTATTATTATTATTATTTAATATAATAATTACAAA
* * * * *
70504 CATTATTATTATTATTATTTATTATTATTATTATAAA
1 TATTATTATTATTATTATTTAATATAATAATTACAAA
70541 TATTATTA-TATTATTA-TTAATA-AATAATTACAAA
1 TATTATTATTATTATTATTTAATATAATAATTACAAA
70575 TA
1 TA
70577 CATCGAAGGC
Statistics
Matches: 63, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
34 23 0.37
35 23 0.37
36 8 0.13
37 9 0.14
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (37 bp):
TATTATTATTATTATTATTTAATATAATAATTACAAA
Found at i:71976 original size:12 final size:12
Alignment explanation
Indices: 71956--72005 Score: 52
Period size: 12 Copynumber: 4.3 Consensus size: 12
71946 TTATTTGCAA
71956 TATTATTTT-AT
1 TATTATTTTAAT
*
71967 TATTACTTTTGA-
1 TATTA-TTTTAAT
71979 TA-TATTTTAAT
1 TATTATTTTAAT
*
71990 TATTACTTTAAT
1 TATTATTTTAAT
72002 TATT
1 TATT
72006 TTATTATCTT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
10 5 0.15
11 9 0.27
12 18 0.55
13 1 0.03
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (12 bp):
TATTATTTTAAT
Found at i:72027 original size:2 final size:2
Alignment explanation
Indices: 72020--72049 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
72010 TATCTTAGTC
72020 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
72050 GTTTAAATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:72287 original size:130 final size:131
Alignment explanation
Indices: 72063--72305 Score: 355
Period size: 130 Copynumber: 1.9 Consensus size: 131
72053 TAAATAAAAA
* * *
72063 TATTTATTTATTTTTCGATATTAAGAAATTGACTGTCTTAAAGCAACTAGAAGTCATTTTCTGAT
1 TATTTATTCATTTTTCAATATTAAGAAATGGACTGTCTTAAAGCAACTAGAAGTCATTTTCTGAT
* **
72128 ATTTTTAAATAAATAAATATTTTACTTTTATAAAATATATATTAATTTTATTAGGAAAATGTTTT
66 ATTCTTAAATAAATAAATATCCTACTTTTATAAAATATATATTAATTTTATTAGGAAAATGTTTT
72193 T
131 T
** * *
72194 TATTTATTCATTTATT-AATATTAAGAAATGGGTTGTCTTAAAGCACCTAGAAGT-TTTTTCTGA
1 TATTTATTCATTT-TTCAATATTAAGAAATGGACTGTCTTAAAGCAACTAGAAGTCATTTTCTGA
* *
72257 TATTCTTAAATAAATAAATATCCTATTTTTATAAATTATATATTAATTT
65 TATTCTTAAATAAATAAATATCCTACTTTTATAAAATATATATTAATTT
72306 ATTTTAATTA
Statistics
Matches: 99, Mismatches: 12, Indels: 3
0.87 0.11 0.03
Matches are distributed among these distances:
130 52 0.53
131 45 0.45
132 2 0.02
ACGTcount: A:0.37, C:0.07, G:0.08, T:0.48
Consensus pattern (131 bp):
TATTTATTCATTTTTCAATATTAAGAAATGGACTGTCTTAAAGCAACTAGAAGTCATTTTCTGAT
ATTCTTAAATAAATAAATATCCTACTTTTATAAAATATATATTAATTTTATTAGGAAAATGTTTT
T
Found at i:74631 original size:12 final size:12
Alignment explanation
Indices: 74578--74640 Score: 51
Period size: 12 Copynumber: 5.3 Consensus size: 12
74568 ACATTCACAT
*
74578 ATTTACATTTGC
1 ATTTACATTTTC
*
74590 ATTTTCATTTTC
1 ATTTACATTTTC
*
74602 ATTTTTGCA-TTT-
1 A--TTTACATTTTC
*
74614 -TTTACATTTTT
1 ATTTACATTTTC
74625 ATTTACATTTTC
1 ATTTACATTTTC
74637 ATTT
1 ATTT
74641 TTGCATTTGC
Statistics
Matches: 41, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
9 5 0.12
10 3 0.07
12 25 0.61
13 3 0.07
14 5 0.12
ACGTcount: A:0.21, C:0.13, G:0.03, T:0.63
Consensus pattern (12 bp):
ATTTACATTTTC
Found at i:74634 original size:35 final size:35
Alignment explanation
Indices: 74579--74648 Score: 113
Period size: 35 Copynumber: 2.0 Consensus size: 35
74569 CATTCACATA
*
74579 TTTACATTTGCATTTTCATTTTCATTTTTGCATTT
1 TTTACATTTGCATTTACATTTTCATTTTTGCATTT
**
74614 TTTACATTTTTATTTACATTTTCATTTTTGCATTT
1 TTTACATTTGCATTTACATTTTCATTTTTGCATTT
74649 GCATCTTTGC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.19, C:0.13, G:0.04, T:0.64
Consensus pattern (35 bp):
TTTACATTTGCATTTACATTTTCATTTTTGCATTT
Found at i:80081 original size:17 final size:17
Alignment explanation
Indices: 80059--80092 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
80049 TGATATTCAA
*
80059 GTTAAACAGACGTTGAG
1 GTTAAACAAACGTTGAG
80076 GTTAAACAAACGTTGAG
1 GTTAAACAAACGTTGAG
80093 AGTGAACCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.12, G:0.26, T:0.24
Consensus pattern (17 bp):
GTTAAACAAACGTTGAG
Found at i:80348 original size:75 final size:74
Alignment explanation
Indices: 80225--80421 Score: 195
Period size: 75 Copynumber: 2.6 Consensus size: 74
80215 AACAAGAAGT
* * * * * *
80225 AAATGTTGGGGTATGCTGAAAGCCTATTTCAATC-ATAGTCATA-AATATTGACGCATTTTAAAT
1 AAATGATGGGGCATGCTGAAAGCCCATTTCAATCAAAAAT--TAGAATATTGACGCATTTTAAAC
80288 GTTCACGCCA-A-C
64 G-TC-CG-CATAGC
* * *
80300 AAATGATGGGGCATGCTGAAAGCCCATTTTAATCAAAAATTAGAATATTGGCGCATTTTGAACGT
1 AAATGATGGGGCATGCTGAAAGCCCATTTCAATCAAAAATTAGAATATTGACGCATTTTAAACGT
* *
80365 CTGTATTAGC
66 CCGCA-TAGC
* *
80375 AAATGATGGGGCATGCTGAAAGCCCATTTCAATCACAAATTGGAATA
1 AAATGATGGGGCATGCTGAAAGCCCATTTCAATCAAAAATTAGAATA
80422 ACATTTTGAA
Statistics
Matches: 103, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
72 1 0.01
73 1 0.01
74 5 0.05
75 93 0.90
76 3 0.03
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.29
Consensus pattern (74 bp):
AAATGATGGGGCATGCTGAAAGCCCATTTCAATCAAAAATTAGAATATTGACGCATTTTAAACGT
CCGCATAGC
Found at i:81407 original size:53 final size:53
Alignment explanation
Indices: 81342--81551 Score: 257
Period size: 53 Copynumber: 4.0 Consensus size: 53
81332 CTGACCAGAA
81342 ATCTGTGCAGAAAACACAGGAAATGATGAATGTTTTTCAAAAGCTTTACGAAC
1 ATCTGTGCAGAAAACACAGGAAATGATGAATGTTTTTCAAAAGCTTTACGAAC
* *
81395 ATCTGTGAAGAAAACACAGGAAATTATGAATGTTTTTCAAAAGCTTTACGAAC
1 ATCTGTGCAGAAAACACAGGAAATGATGAATGTTTTTCAAAAGCTTTACGAAC
* * * *
81448 ATCTGGGCA-TATACTACAGGAAATGATGAATGTTTTTCAAAAGCTTTACAAAC
1 ATCTGTGCAGAAAAC-ACAGGAAATGATGAATGTTTTTCAAAAGCTTTACGAAC
*** * * *
81501 ATCTAG-GC-G-TGCCACAAGAAAGGATGAATGTGTTATCAAAAGCTTTACGAA
1 ATCT-GTGCAGAAAACACAGGAAATGATGAATGT-TTTTCAAAAGCTTTACGAA
81552 AATCCGGGCA
Statistics
Matches: 138, Mismatches: 15, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
51 16 0.12
52 21 0.15
53 100 0.72
54 1 0.01
ACGTcount: A:0.39, C:0.15, G:0.19, T:0.27
Consensus pattern (53 bp):
ATCTGTGCAGAAAACACAGGAAATGATGAATGTTTTTCAAAAGCTTTACGAAC
Found at i:81583 original size:54 final size:52
Alignment explanation
Indices: 81361--81583 Score: 188
Period size: 53 Copynumber: 4.2 Consensus size: 52
81351 GAAAACACAG
* * * * *
81361 GAAATGATGAATGTTTTTCAAAAGCTTTACGAACATCTGTGAAGAAAACACAG-
1 GAAAGGATGAATGTTTTTCAAAAGCTTTACGAAAATCTGGGCAG-AAGC-CAGA
** * *
81414 GAAATTATGAATGTTTTTCAAAAGCTTTACGAACATCTGGGCATATA-CTACAG-
1 GAAAGGATGAATGTTTTTCAAAAGCTTTACGAAAATCTGGGCAGA-AGC--CAGA
* * * *
81467 GAAATGATGAATGTTTTTCAAAAGCTTTAC-AAACATCTAGGC-G-TGCCACAA
1 GAAAGGATGAATGTTTTTCAAAAGCTTTACGAAA-ATCTGGGCAGAAGCCA-GA
* *
81518 GAAAGGATGAATGTGTTATCAAAAGCTTTACGAAAATCCGGGCAGAAGCCATGA
1 GAAAGGATGAATGT-TTTTCAAAAGCTTTACGAAAATCTGGGCAGAAGCCA-GA
81572 GAAAGGATGAAT
1 GAAAGGATGAAT
81584 ATATTGTCAC
Statistics
Matches: 143, Mismatches: 17, Indels: 19
0.80 0.09 0.11
Matches are distributed among these distances:
49 2 0.01
51 14 0.10
52 25 0.17
53 85 0.59
54 17 0.12
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.26
Consensus pattern (52 bp):
GAAAGGATGAATGTTTTTCAAAAGCTTTACGAAAATCTGGGCAGAAGCCAGA
Found at i:83578 original size:21 final size:21
Alignment explanation
Indices: 83548--83608 Score: 97
Period size: 21 Copynumber: 3.0 Consensus size: 21
83538 GATATTGGGT
83548 CGGG-TCTAGATCTGGGCCTC
1 CGGGTTCTAGATCTGGGCCTC
*
83568 TGGGTTCTAGATCTGGGCCTC
1 CGGGTTCTAGATCTGGGCCTC
*
83589 CGGGTTCTAGATATGGGCCT
1 CGGGTTCTAGATCTGGGCCT
83609 ATAAAATTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
20 3 0.08
21 34 0.92
ACGTcount: A:0.11, C:0.25, G:0.34, T:0.30
Consensus pattern (21 bp):
CGGGTTCTAGATCTGGGCCTC
Found at i:83646 original size:3 final size:3
Alignment explanation
Indices: 83640--83664 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
83630 ATTATTTTTT
83640 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
83665 ATTGGACAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:84828 original size:45 final size:45
Alignment explanation
Indices: 84764--85114 Score: 648
Period size: 45 Copynumber: 7.8 Consensus size: 45
84754 CTATTTCCTA
84764 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
*
84809 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGAGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
*
84854 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCAGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
84899 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
84944 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
*
84989 CATCTGTAAGCCCTTCAGTGCATAATGTTTTCAAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTC-AAAACCTTCGGGT
85035 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTC-AAAACCTTCGGGT
*
85081 CATCTGTAAGCCCTTCACTGCATGATGTTTTCAA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAA
85115 CATTTCCATC
Statistics
Matches: 298, Mismatches: 7, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
45 209 0.70
46 89 0.30
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.33
Consensus pattern (45 bp):
CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
Found at i:85248 original size:3 final size:3
Alignment explanation
Indices: 85240--85349 Score: 109
Period size: 3 Copynumber: 36.0 Consensus size: 3
85230 CAGTTTGCTT
* *
85240 TTA TTA TTA CTA TTA TT- TT- TTA TTTA TTTA TTA TTA TTA TTA TACA
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA -TTA TTA TTA TTA TTA T-TA
* *
85286 TTA TTA TTA TTA TTA TTA TTA TTTA TTA TTTA TTA TTA TTA TAA ATA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA -TTA TTA TTA TTA TTA TTA
*
85333 TTA TTA -TG TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA
85350 ATAAATAATT
Statistics
Matches: 91, Mismatches: 10, Indels: 12
0.81 0.09 0.11
Matches are distributed among these distances:
2 5 0.05
3 71 0.78
4 15 0.16
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:85268 original size:11 final size:11
Alignment explanation
Indices: 85239--85348 Score: 67
Period size: 11 Copynumber: 10.2 Consensus size: 11
85229 TCAGTTTGCT
85239 TTTA-TTATTA
1 TTTATTTATTA
*
85249 CTATTATTTTTTA
1 -T-TTATTTATTA
85262 TTTATTTATTA
1 TTTATTTATTA
85273 -TTA-TTATTA
1 TTTATTTATTA
85282 TACATTA-TTATTA
1 T---TTATTTATTA
85295 -TTA-TTATTA
1 TTTATTTATTA
85304 -TTATTTATTA
1 TTTATTTATTA
85314 TTTA-TTATTA
1 TTTATTTATTA
**
85324 TTATAAATATTA
1 TT-TATTTATTA
85336 -TTATGTTATTA
1 TTTAT-TTATTA
85347 TT
1 TT
85349 AATAAATAAT
Statistics
Matches: 82, Mismatches: 5, Indels: 23
0.75 0.05 0.21
Matches are distributed among these distances:
9 18 0.22
10 19 0.23
11 21 0.26
12 10 0.12
13 14 0.17
ACGTcount: A:0.32, C:0.02, G:0.01, T:0.65
Consensus pattern (11 bp):
TTTATTTATTA
Found at i:85349 original size:52 final size:49
Alignment explanation
Indices: 85240--85339 Score: 150
Period size: 49 Copynumber: 2.1 Consensus size: 49
85230 CAGTTTGCTT
* *
85240 TTATTATTACTATTATTTTTTATTTATTTATTATTATTATTATACATTA
1 TTATTATTACTATTATTATTTATTTATTTATTATTATTATAATACATTA
* *
85289 TTATTATTATTATTATTATTTA-TTATTTATTATTATTATAA-ATATTA
1 TTATTATTACTATTATTATTTATTTATTTATTATTATTATAATACATTA
85336 TTAT
1 TTAT
85340 GTTATTATTA
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
47 9 0.19
48 18 0.38
49 20 0.43
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (49 bp):
TTATTATTACTATTATTATTTATTTATTTATTATTATTATAATACATTA
Found at i:85360 original size:25 final size:24
Alignment explanation
Indices: 85263--85356 Score: 88
Period size: 25 Copynumber: 3.9 Consensus size: 24
85253 TATTTTTTAT
* *
85263 TTATTTATTATTATTATTATACATTA
1 TTATTTATTATTA-TA-TAAATATTA
*
85289 TTA-TTATTATTAT-T-ATTATTTA
1 TTATTTATTATTATATAAATA-TTA
85311 TTATTTATTATTATTATAAATATTA
1 TTATTTATTATTA-TATAAATATTA
85336 TTATGTTATTATTA-ATAAATA
1 TTAT-TTATTATTATATAAATA
85357 ATTAAAAATA
Statistics
Matches: 58, Mismatches: 4, Indels: 14
0.76 0.05 0.18
Matches are distributed among these distances:
21 1 0.02
22 7 0.12
23 9 0.16
24 9 0.16
25 17 0.29
26 15 0.26
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.61
Consensus pattern (24 bp):
TTATTTATTATTATATAAATATTA
Found at i:87098 original size:106 final size:106
Alignment explanation
Indices: 86949--87140 Score: 289
Period size: 106 Copynumber: 1.8 Consensus size: 106
86939 AAATGTTTTT
*
86949 TATTTATTCATTTATTAATATTAAGAAATGAGTTGTCTTAAAGCACCTAAAAGTCCTTTTCTGAT
1 TATTTATTCATTTATTAATATTAAGAAATGAGCTGTCTTAAAGCACCTAAAAGTCCTTTTCTGAT
87014 A-TTCTTAAATAAATAAATATCATAGAGAAATATTTTATTAA
66 ATTTC-TAAATAAATAAATATCATAGAGAAATATTTTATTAA
* * * *
87055 TATTTATTTATATT-TTAATATTAAGAAATGGGCTGTCTTAAAGCACCTAGAAGTCCTTTTTTGA
1 TATTTATTCAT-TTATTAATATTAAGAAATGAGCTGTCTTAAAGCACCTAAAAGTCCTTTTCTGA
* *
87119 TATTTCTGAGTAAATAAATATC
65 TATTTCTAAATAAATAAATATC
87141 TTATTTATAA
Statistics
Matches: 77, Mismatches: 7, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
106 72 0.94
107 5 0.06
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.42
Consensus pattern (106 bp):
TATTTATTCATTTATTAATATTAAGAAATGAGCTGTCTTAAAGCACCTAAAAGTCCTTTTCTGAT
ATTTCTAAATAAATAAATATCATAGAGAAATATTTTATTAA
Found at i:90503 original size:15 final size:16
Alignment explanation
Indices: 90473--90505 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
90463 TTTCATATAC
90473 CAGTACTTAAAAGAAT
1 CAGTACTTAAAAGAAT
*
90489 CAGTACTT-GAAGAAT
1 CAGTACTTAAAAGAAT
90504 CA
1 CA
90506 TAATCATCGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.45, C:0.15, G:0.15, T:0.24
Consensus pattern (16 bp):
CAGTACTTAAAAGAAT
Found at i:93799 original size:9 final size:9
Alignment explanation
Indices: 93767--93864 Score: 97
Period size: 9 Copynumber: 10.3 Consensus size: 9
93757 GCTGCTGAAA
93767 ACCGGTTTG
1 ACCGGTTTG
*
93776 ACCAGTTTTG
1 ACC-GGTTTG
93786 AACCGGTTTG
1 -ACCGGTTTG
*
93796 ACCGGTTCG
1 ACCGGTTTG
93805 AACCGGTTTG
1 -ACCGGTTTG
*
93815 ACCGGTCTG
1 ACCGGTTTG
*
93824 AATCGGTTTG
1 -ACCGGTTTG
*
93834 ACCGGTCTG
1 ACCGGTTTG
93843 ACCCGGTTTG
1 A-CCGGTTTG
*
93853 ACCGGTCTG
1 ACCGGTTTG
93862 ACC
1 ACC
93865 CGACCCTACC
Statistics
Matches: 73, Mismatches: 11, Indels: 10
0.78 0.12 0.11
Matches are distributed among these distances:
9 37 0.51
10 33 0.45
11 3 0.04
ACGTcount: A:0.15, C:0.27, G:0.30, T:0.29
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:93866 original size:19 final size:19
Alignment explanation
Indices: 93766--93862 Score: 133
Period size: 19 Copynumber: 5.1 Consensus size: 19
93756 AGCTGCTGAA
* *
93766 AACCGGTTTGACCAGTTTTG
1 AACCGGTTTGACC-GGTCTG
93786 AACCGGTTTGACCGGT-TCG
1 AACCGGTTTGACCGGTCT-G
93805 AACCGGTTTGACCGGTCTG
1 AACCGGTTTGACCGGTCTG
*
93824 AATCGGTTTGACCGGTCTG
1 AACCGGTTTGACCGGTCTG
*
93843 ACCCGGTTTGACCGGTCTG
1 AACCGGTTTGACCGGTCTG
93862 A
1 A
93863 CCCGACCCTA
Statistics
Matches: 71, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
18 1 0.01
19 56 0.79
20 14 0.20
ACGTcount: A:0.16, C:0.25, G:0.30, T:0.29
Consensus pattern (19 bp):
AACCGGTTTGACCGGTCTG
Found at i:93904 original size:22 final size:22
Alignment explanation
Indices: 93876--93917 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
93866 GACCCTACCA
*
93876 ACCCGACCCGATAGTTGACCTG
1 ACCCGACCCGACAGTTGACCTG
93898 ACCCGACCCGACAGTTGACC
1 ACCCGACCCGACAGTTGACC
93918 GTTGACCGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.24, C:0.40, G:0.21, T:0.14
Consensus pattern (22 bp):
ACCCGACCCGACAGTTGACCTG
Found at i:93923 original size:7 final size:7
Alignment explanation
Indices: 93911--93937 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
93901 CGACCCGACA
93911 GTTGACC
1 GTTGACC
93918 GTTGACC
1 GTTGACC
93925 GTTGACC
1 GTTGACC
93932 GTTGAC
1 GTTGAC
93938 TTCATTTGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.15, C:0.26, G:0.30, T:0.30
Consensus pattern (7 bp):
GTTGACC
Found at i:103629 original size:7 final size:8
Alignment explanation
Indices: 103611--103639 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
103601 CATATGTGTC
103611 ATGATAAA
1 ATGATAAA
103619 ATGAT-AA
1 ATGATAAA
103626 ATGATAAA
1 ATGATAAA
103634 ATGATA
1 ATGATA
103640 CATTACTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.35
8 13 0.65
ACGTcount: A:0.59, C:0.00, G:0.14, T:0.28
Consensus pattern (8 bp):
ATGATAAA
Found at i:103631 original size:15 final size:15
Alignment explanation
Indices: 103611--103639 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
103601 CATATGTGTC
103611 ATGATAAAATGATAA
1 ATGATAAAATGATAA
103626 ATGATAAAATGATA
1 ATGATAAAATGATA
103640 CATTACTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.59, C:0.00, G:0.14, T:0.28
Consensus pattern (15 bp):
ATGATAAAATGATAA
Found at i:105246 original size:60 final size:60
Alignment explanation
Indices: 105153--105269 Score: 225
Period size: 60 Copynumber: 1.9 Consensus size: 60
105143 CCAAAACTTC
*
105153 AAGGACCCATACTCCAGTTAACCGAAAGCTCCTATCTAACATTAAAAACCCTAATTTTTT
1 AAGGACCCATACTCCAATTAACCGAAAGCTCCTATCTAACATTAAAAACCCTAATTTTTT
105213 AAGGACCCATACTCCAATTAACCGAAAGCTCCTATCTAACATTAAAAACCCTAATTT
1 AAGGACCCATACTCCAATTAACCGAAAGCTCCTATCTAACATTAAAAACCCTAATTT
105270 CATTTTTCAT
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 56 1.00
ACGTcount: A:0.38, C:0.27, G:0.08, T:0.26
Consensus pattern (60 bp):
AAGGACCCATACTCCAATTAACCGAAAGCTCCTATCTAACATTAAAAACCCTAATTTTTT
Found at i:107699 original size:21 final size:21
Alignment explanation
Indices: 107673--107714 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
107663 CCAGAATGGG
*
107673 GGGAATCGGTACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
*
107694 GGGAATCGATACCTCTTCATA
1 GGGAATCGATACCCCTTCATA
107715 ATATTCAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (21 bp):
GGGAATCGATACCCCTTCATA
Found at i:107849 original size:19 final size:19
Alignment explanation
Indices: 107825--107885 Score: 68
Period size: 19 Copynumber: 3.2 Consensus size: 19
107815 TCGGGTACTG
*
107825 TTCAAATAGTGATTTAATA
1 TTCAAATAGTAATTTAATA
* * *
107844 TTCAAAGAGTAATTTACTG
1 TTCAAATAGTAATTTAATA
* *
107863 TTCAAATAGTAAATTACTA
1 TTCAAATAGTAATTTAATA
107882 TTCA
1 TTCA
107886 TAAAAACATT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 35 1.00
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.39
Consensus pattern (19 bp):
TTCAAATAGTAATTTAATA
Found at i:107982 original size:29 final size:31
Alignment explanation
Indices: 107950--108009 Score: 97
Period size: 29 Copynumber: 2.0 Consensus size: 31
107940 AAATTTTGAA
*
107950 TAAATTCAATT-AAGTCCAAATA-CATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
107979 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
108010 CCTTAAATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 11 0.39
30 10 0.36
31 7 0.25
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.35
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCCAAAAACCATTTTG
Found at i:109323 original size:19 final size:20
Alignment explanation
Indices: 109280--109327 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
109270 TCTAAATCCT
*
109280 TTTTCAAAATTTCATTTTGG
1 TTTTCAAAATCTCATTTTGG
* *
109300 CTTTCAAAATCT-ATTTTTG
1 TTTTCAAAATCTCATTTTGG
109319 TTTTCAAAA
1 TTTTCAAAA
109328 GAAAATCGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.52
Consensus pattern (20 bp):
TTTTCAAAATCTCATTTTGG
Found at i:110558 original size:20 final size:20
Alignment explanation
Indices: 110533--110572 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
110523 CCAGAATGGG
*
110533 GGAATCGGTACCCCTTCATA
1 GGAATCGATACCCCTTCATA
*
110553 GGAATCGATACCTCTTCATA
1 GGAATCGATACCCCTTCATA
110573 ATATTCAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.28
Consensus pattern (20 bp):
GGAATCGATACCCCTTCATA
Found at i:110701 original size:19 final size:19
Alignment explanation
Indices: 110677--110737 Score: 68
Period size: 19 Copynumber: 3.2 Consensus size: 19
110667 CTCGGTACTG
*
110677 TTCAAATAGTGATTTAATA
1 TTCAAATAGTAATTTAATA
* * *
110696 TTCAAAGAGTAATTTACTG
1 TTCAAATAGTAATTTAATA
* *
110715 TTCAAATAGTAAATTACTA
1 TTCAAATAGTAATTTAATA
110734 TTCA
1 TTCA
110738 TAAAAACATT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 35 1.00
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.39
Consensus pattern (19 bp):
TTCAAATAGTAATTTAATA
Found at i:110834 original size:29 final size:31
Alignment explanation
Indices: 110802--110861 Score: 97
Period size: 29 Copynumber: 2.0 Consensus size: 31
110792 AAATTTTGAA
*
110802 TAAATTCAATT-AAGTCCAAATA-CATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
110831 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
110862 CCTTAAATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 11 0.39
30 10 0.36
31 7 0.25
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.35
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCCAAAAACCATTTTG
Found at i:111662 original size:24 final size:24
Alignment explanation
Indices: 111635--111690 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
111625 AGTTGCAAAG
* *
111635 TAATTTTTTAACTTTATTTTTAAC
1 TAATTTTTTAAATATATTTTTAAC
*
111659 TAATTTTTTAAATATATTTTTAAT
1 TAATTTTTTAAATATATTTTTAAC
*
111683 TCATTTTT
1 TAATTTTT
111691 ATATGTTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.64
Consensus pattern (24 bp):
TAATTTTTTAAATATATTTTTAAC
Found at i:112801 original size:22 final size:23
Alignment explanation
Indices: 112767--112809 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
112757 ATATAATAAA
112767 TAATATTATTTATTATAAAAACT
1 TAATATTATTTATTATAAAAACT
*
112790 TAATATTA-TTATTTTAAAAA
1 TAATATTATTTATTATAAAAA
112810 TATTAGAGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (23 bp):
TAATATTATTTATTATAAAAACT
Found at i:114454 original size:21 final size:19
Alignment explanation
Indices: 114417--114469 Score: 54
Period size: 18 Copynumber: 2.7 Consensus size: 19
114407 CACGTCATAT
*
114417 TTTTATATAAAATTAAAATTA
1 TTTTAT-TAATATT-AAATTA
114438 TTATTATTAATATTAAATT-
1 TT-TTATTAATATTAAATTA
*
114457 TTTTATTTATATT
1 TTTTATTAATATT
114470 TTTTTGTCCA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
18 10 0.34
19 2 0.07
20 5 0.17
21 8 0.28
22 4 0.14
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
TTTTATTAATATTAAATTA
Done.