Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167904.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_17, 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: 21107920
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Warning! 100000 characters in sequence are not A, C, G, or T
File 28 of 121
Found at i:4878178 original size:23 final size:22
Alignment explanation
Indices: 4878147--4878197 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
4878137 TTAATATATG
* *
4878147 TTAATATTTTA-TACATAATTAA
1 TTAAAATTTTATTACA-AATAAA
4878169 TATAAAATTTTATTACAAATAAA
1 T-TAAAATTTTATTACAAATAAA
4878192 TTAAAA
1 TTAAAA
4878198 AAATGATACA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
22 6 0.24
23 15 0.60
24 4 0.16
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (22 bp):
TTAAAATTTTATTACAAATAAA
Found at i:4878659 original size:14 final size:15
Alignment explanation
Indices: 4878642--4878676 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
4878632 GATCTGAAAA
4878642 TTTATTCAATTC-AT
1 TTTATTCAATTCGAT
*
4878656 TTTATTTAATTCGAT
1 TTTATTCAATTCGAT
4878671 TTTATT
1 TTTATT
4878677 ATAAAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 11 0.58
15 8 0.42
ACGTcount: A:0.26, C:0.09, G:0.03, T:0.63
Consensus pattern (15 bp):
TTTATTCAATTCGAT
Found at i:4878968 original size:27 final size:28
Alignment explanation
Indices: 4878920--4878992 Score: 78
Period size: 27 Copynumber: 2.6 Consensus size: 28
4878910 TTTCTTTACT
* *
4878920 TTACAAAAT-ATTTTATTATATTGATATA
1 TTACAAAATGA-TTAATTTTATTGATATA
** *
4878948 TT-GGAAATGATTAATTTTATTGTTATA
1 TTACAAAATGATTAATTTTATTGATATA
4878975 TTACAAAATGATTAATTT
1 TTACAAAATGATTAATTT
4878993 CTTTTTTTTT
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
27 20 0.56
28 16 0.44
ACGTcount: A:0.40, C:0.03, G:0.08, T:0.49
Consensus pattern (28 bp):
TTACAAAATGATTAATTTTATTGATATA
Found at i:4880655 original size:57 final size:56
Alignment explanation
Indices: 4880346--4880868 Score: 645
Period size: 59 Copynumber: 8.8 Consensus size: 56
4880336 AATGACTTTT
* * *
4880346 TTTTTAGGAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAATTTCGA
1 TTTTAAGG-AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTT--A
*
4880405 TTTTCAAGGAAAATTGATACTTTCAACTTTT-CCTCAAAAACCCT-TTTTTTGAAAATTTA
1 TTTT-AAGGAAAATTGATACTTTCAACTTTTCCCT-AAAAA---TATTTTTTGGAAATTTA
* *
4880464 TTTCTAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAATTTTGA
1 TTT-TAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTGGAAA-TTT-A
4880524 TTTTCAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAATTTA
1 TTTT-AAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTGGAAATTTA
*
4880582 TTCTTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTAGAAATTTA
1 TT-TTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTA
* *
4880639 TTCTTAAGGAAAATTGATACTTTCAACTTTTTCCTAAAAATAATTTTTTTTGAAATTTA
1 TT-TTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAAT-A-TTTTTTGGAAATTTA
* * *
4880698 TTTCTGAGGAAAATTGATATTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTA
1 TTT-TAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTA
4880755 TTTCTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTATTTTGGAAATTTA
1 TTT-TAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATA--TT-TTTTGGAAATTTA
*
4880815 TTTTTCTTTTAAGGAAAATTGATACTTTCAACTTTTCCTTAAAAATATATTTTT
1 ------TTTTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATAT-TTTTT
4880869 TAGAATTTTT
Statistics
Matches: 419, Mismatches: 19, Indels: 48
0.86 0.04 0.10
Matches are distributed among these distances:
56 1 0.00
57 107 0.26
58 54 0.13
59 126 0.30
60 70 0.17
61 14 0.03
62 1 0.00
63 5 0.01
64 1 0.00
65 37 0.09
66 3 0.01
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.45
Consensus pattern (56 bp):
TTTTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTA
Found at i:4880679 original size:27 final size:27
Alignment explanation
Indices: 4880591--4880679 Score: 65
Period size: 27 Copynumber: 3.2 Consensus size: 27
4880581 ATTCTTAAGG
*
4880591 AAAATTGATACTTTCAACTTTTCCCTA
1 AAAATTGATACTTTCAACTTTTTCCTA
** * * *
4880618 AAAA-T-ATTTTTTAGAAATTTATTCTTAA
1 AAAATTGATACTTT-CAACTTT-TTCCT-A
4880646 GGAAAATTGATACTTTCAACTTTTTCCTA
1 --AAAATTGATACTTTCAACTTTTTCCTA
4880675 AAAAT
1 AAAAT
4880680 AATTTTTTTT
Statistics
Matches: 44, Mismatches: 11, Indels: 14
0.64 0.16 0.20
Matches are distributed among these distances:
25 5 0.11
26 6 0.14
27 12 0.27
28 1 0.02
29 1 0.02
30 8 0.18
31 6 0.14
32 5 0.11
ACGTcount: A:0.38, C:0.13, G:0.06, T:0.43
Consensus pattern (27 bp):
AAAATTGATACTTTCAACTTTTTCCTA
Found at i:4880722 original size:116 final size:117
Alignment explanation
Indices: 4880355--4880873 Score: 714
Period size: 116 Copynumber: 4.4 Consensus size: 117
4880345 TTTTTTAGGA
4880355 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTT-GAAAATTTCGATTTTCAAGGAAAAT
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTAG-AAATTT-GATTTTCAAGGAAAAT
***
4880419 TGATACTTTCAACTTTT-CCTCAAAAACCCTTTTTTTGAAAATTTATTTC-TAAGG
64 TGATACTTTCAACTTTTCCCT-AAAAATATTTTTTTTG-AAATTTATTTCTTAAGG
*
4880473 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAATTTTGATTTTCAAGGAAAAT
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTAGAAA-TTTGATTTTCAAGGAAAAT
*
4880538 TGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAATTTA-TTCTTAAGG
64 TGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAATTTATTTCTTAAGG
*
4880591 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTAGAAATTT-ATTCTT-AAGGAAAATT
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTAGAAATTTGATT-TTCAAGGAAAATT
* *
4880654 GATACTTTCAACTTTTTCCTAAAAATAATTTTTTTTGAAATTTATTTC-TGAGG
65 GATACTTTCAACTTTTCCCTAAAAAT-ATTTTTTTTGAAATTTATTTCTTAAGG
* *
4880707 AAAATTGATATTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTT-A-TTTCTAAGGAAAATT
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTAGAAATTTGATTTTC-AAGGAAAATT
4880770 GATACTTTCAACTTTTCCCTAAAAATATTTTATTTTGGAAATTTATTTTTCTTTTAAGG
65 GATACTTTCAACTTTTCCCTAAAAATATTTT-TTTT-GAAATTTA--TTTC--TTAAGG
**
4880829 AAAATTGATACTTTCAACTTTTCCTTAAAAATATATTTTTTAGAA
1 AAAATTGATACTTTCAACTTTTCC-CCAAAA-ATATTTTTTAGAA
4880874 TTTTTTTATT
Statistics
Matches: 364, Mismatches: 18, Indels: 32
0.88 0.04 0.08
Matches are distributed among these distances:
114 2 0.01
115 44 0.12
116 109 0.30
117 24 0.07
118 77 0.21
119 58 0.16
120 7 0.02
122 27 0.07
123 4 0.01
124 12 0.03
ACGTcount: A:0.35, C:0.13, G:0.08, T:0.45
Consensus pattern (117 bp):
AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTAGAAATTTGATTTTCAAGGAAAATTG
ATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAATTTATTTCTTAAGG
Found at i:4880965 original size:12 final size:11
Alignment explanation
Indices: 4880948--4881018 Score: 63
Period size: 11 Copynumber: 6.2 Consensus size: 11
4880938 CTAATCTAAT
4880948 AATAAAAATAAA
1 AATAAAAA-AAA
4880960 AATAAAATAAACA
1 AATAAAA-AAA-A
*
4880973 AATAAACAAAGA
1 AATAAA-AAAAA
4880985 AAT-AAAAAAA
1 AATAAAAAAAA
**
4880995 AATTCAAAAAA
1 AATAAAAAAAA
*
4881006 ATTAAAAAAAA
1 AATAAAAAAAA
4881017 AA
1 AA
4881019 AACCTGGAGC
Statistics
Matches: 48, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
10 7 0.15
11 17 0.35
12 13 0.27
13 10 0.21
14 1 0.02
ACGTcount: A:0.80, C:0.04, G:0.01, T:0.14
Consensus pattern (11 bp):
AATAAAAAAAA
Found at i:4881002 original size:20 final size:21
Alignment explanation
Indices: 4880979--4881017 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
4880969 AACAAATAAA
*
4880979 CAAAGAAA-TAAAAAAAAATT
1 CAAAAAAATTAAAAAAAAATT
4880999 CAAAAAAATTAAAAAAAAA
1 CAAAAAAATTAAAAAAAAA
4881018 AAACCTGGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.79, C:0.05, G:0.03, T:0.13
Consensus pattern (21 bp):
CAAAAAAATTAAAAAAAAATT
Found at i:4881436 original size:20 final size:20
Alignment explanation
Indices: 4881396--4881439 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
4881386 CGGAAGTCGG
*
4881396 CCGGTTTCTGGGAATATTCA
1 CCGGTTTCTGGGAATACTCA
* *
4881416 CCGGTTTCTGGGATTCCTCA
1 CCGGTTTCTGGGAATACTCA
4881436 CCGG
1 CCGG
4881440 AAACTGGGCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.14, C:0.27, G:0.27, T:0.32
Consensus pattern (20 bp):
CCGGTTTCTGGGAATACTCA
Found at i:4882110 original size:3 final size:3
Alignment explanation
Indices: 4882102--4882133 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
4882092 AAAGATATAC
4882102 ATA ATA ATA ATA ATA ATA ATA ATA ATA A-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
4882134 CAAAAATACA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:4882337 original size:7 final size:7
Alignment explanation
Indices: 4882327--4882419 Score: 77
Period size: 7 Copynumber: 13.4 Consensus size: 7
4882317 CAACTCAACA
*
4882327 TTTTTAT
1 TTTTTGT
*
4882334 TTTTTGA
1 TTTTTGT
4882341 TTTTT-T
1 TTTTTGT
***
4882347 TTTTAAA
1 TTTTTGT
4882354 TTTTTGT
1 TTTTTGT
4882361 TTTTTGT
1 TTTTTGT
4882368 TTTTTG-
1 TTTTTGT
4882374 TTTTTGTT
1 TTTTTG-T
4882382 TTTTTGT
1 TTTTTGT
4882389 TTTTT-T
1 TTTTTGT
*
4882395 TTGTTTTT
1 TT-TTTGT
4882403 GTTTTTGT
1 -TTTTTGT
4882411 TTTTT-T
1 TTTTTGT
4882417 TTT
1 TTT
4882420 GCCGAAGTTC
Statistics
Matches: 71, Mismatches: 9, Indels: 13
0.76 0.10 0.14
Matches are distributed among these distances:
6 17 0.24
7 41 0.58
8 11 0.15
9 2 0.03
ACGTcount: A:0.05, C:0.00, G:0.10, T:0.85
Consensus pattern (7 bp):
TTTTTGT
Found at i:4882345 original size:14 final size:14
Alignment explanation
Indices: 4882326--4882415 Score: 79
Period size: 13 Copynumber: 6.9 Consensus size: 14
4882316 TCAACTCAAC
*
4882326 ATTTTTATTTTTTG
1 ATTTTTGTTTTTTG
**
4882340 ATTTTT-TTTTTAA
1 ATTTTTGTTTTTTG
4882353 ATTTTTGTTTTTTG
1 ATTTTTGTTTTTTG
*
4882367 TTTTTTG-TTTTTG
1 ATTTTTGTTTTTTG
4882380 -TTTTT-TTGTTTT-
1 ATTTTTGTT-TTTTG
4882392 -TTTTTG-TTTTTG
1 ATTTTTGTTTTTTG
4882404 -TTTTTGTTTTTT
1 ATTTTTGTTTTTT
4882416 TTTTGCCGAA
Statistics
Matches: 65, Mismatches: 5, Indels: 13
0.78 0.06 0.16
Matches are distributed among these distances:
11 4 0.06
12 18 0.28
13 26 0.40
14 17 0.26
ACGTcount: A:0.07, C:0.00, G:0.10, T:0.83
Consensus pattern (14 bp):
ATTTTTGTTTTTTG
Found at i:4882358 original size:1 final size:1
Alignment explanation
Indices: 4882354--4882419 Score: 60
Period size: 1 Copynumber: 66.0 Consensus size: 1
4882344 TTTTTTTAAA
* * * * * * * *
4882354 TTTTTGTTTTTTGTTTTTTGTTTTTGTTTTTTTGTTTTTTTTTGTTTTTGTTTTTGTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
4882419 T
1 T
4882420 GCCGAAGTTC
Statistics
Matches: 49, Mismatches: 16, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 49 1.00
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (1 bp):
T
Found at i:4882363 original size:6 final size:6
Alignment explanation
Indices: 4882354--4882420 Score: 84
Period size: 6 Copynumber: 11.0 Consensus size: 6
4882344 TTTTTTTAAA
*
4882354 TTTTTG TTTTTTG TTTTTTG TTTTTG TTTTT- TTGTTTT TTTTTG TTTTTG
1 TTTTTG -TTTTTG -TTTTTG TTTTTG TTTTTG TT-TTTG TTTTTG TTTTTG
4882404 TTTTTG TTTTT- TTTTTG
1 TTTTTG TTTTTG TTTTTG
4882421 CCGAAGTTCC
Statistics
Matches: 56, Mismatches: 1, Indels: 7
0.88 0.02 0.11
Matches are distributed among these distances:
5 7 0.12
6 34 0.61
7 15 0.27
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (6 bp):
TTTTTG
Found at i:4882513 original size:41 final size:41
Alignment explanation
Indices: 4882428--4882917 Score: 640
Period size: 42 Copynumber: 11.9 Consensus size: 41
4882418 TTGCCGAAGT
*
4882428 TCCTCTAAACAGAGGCACCACGACTTTGGAAAAATAAATTGC
1 TCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATTGC
* *
4882470 TCCTCTCAACAGAGGAACCACGACTTTGAAAAGTAAATTGC
1 TCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGC
* *
4882511 TCCTCTCAACAGAGGTACCACGACTTTGGAAAAGTAAATTGC
1 TCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATTGC
* *
4882553 TCCTCTAAATAGAGGCACCACGACTTTGGAAAGTAAATTGC
1 TCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGC
* * *
4882594 TCCTCTCAACAGAGGTACCACGACTTTGAAAAAATAAATTGC
1 TCCTCTAAACAGAGGCACCACGACTTTG-AAAAGTAAATTGC
* *
4882636 TCCTCTAAACAGAGGCACCAC--TTTTGGAAAGTAAATTGC
1 TCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGC
* * *
4882675 TCCTCTCAACAGAGGTACCACGACTTTGGAAAAATAAATTGC
1 TCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATTGC
* *
4882717 TCATCTAAACAGAGGCA--ACGGAACTTTGAAAAATAAATTGC
1 TCCTCTAAACAGAGGCACCAC-G-ACTTTGAAAAGTAAATTGC
4882758 TCCTCTAAACAGAGGCA--ACGAACTTTGAAAAAGTAAATTGC
1 TCCTCTAAACAGAGGCACCACG-ACTTTG-AAAAGTAAATTGC
4882799 TCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATTGC
1 TCCTCTAAACAGAGGCACCACGAC-TTTGAAAAGTAAATTGC
4882841 TCCTCTAAACAGAGGCA--ACGAACTTTGGAAAA-TAAATTGC
1 TCCTCTAAACAGAGGCACCACG-ACTTT-GAAAAGTAAATTGC
* *
4882881 TCCTCTAAACAGAGGCAACA-AACTTTGAAAAGTAAAT
1 TCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAAT
4882918 ACTCCTAGAC
Statistics
Matches: 403, Mismatches: 29, Indels: 34
0.86 0.06 0.07
Matches are distributed among these distances:
39 35 0.09
40 55 0.14
41 149 0.37
42 157 0.39
43 7 0.02
ACGTcount: A:0.38, C:0.22, G:0.17, T:0.23
Consensus pattern (41 bp):
TCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGC
Found at i:4882567 original size:83 final size:83
Alignment explanation
Indices: 4882428--4882917 Score: 653
Period size: 83 Copynumber: 6.0 Consensus size: 83
4882418 TTGCCGAAGT
* *
4882428 TCCTCTAAACAGAGGCACCACGACTTTGGAAAAATAAATTGCTCCTCTCAACAGAGGAACCACGA
1 TCCTCTAAACAGAGGTACCACGACTTTGGAAAAATAAATTGCTCCTCTAAACAGAGGAACCACGA
4882493 CTTTGAAAAGTAAATTGC
66 CTTTGAAAAGTAAATTGC
* * * *
4882511 TCCTCTCAACAGAGGTACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAATAGAGGCACCACGA
1 TCCTCTAAACAGAGGTACCACGACTTTGGAAAAATAAATTGCTCCTCTAAACAGAGGAACCACGA
*
4882576 CTTTGGAAAGTAAATTGC
66 CTTTGAAAAGTAAATTGC
* * *
4882594 TCCTCTCAACAGAGGTACCACGACTTTGAAAAAATAAATTGCTCCTCTAAACAGAGGCACCAC--
1 TCCTCTAAACAGAGGTACCACGACTTTGGAAAAATAAATTGCTCCTCTAAACAGAGGAACCACGA
* *
4882657 TTTTGGAAAGTAAATTGC
66 CTTTGAAAAGTAAATTGC
* * *
4882675 TCCTCTCAACAGAGGTACCACGACTTTGGAAAAATAAATTGCTCATCTAAACAGAGGCAA-C-GG
1 TCCTCTAAACAGAGGTACCACGACTTTGGAAAAATAAATTGCTCCTCTAAACAGAGG-AACCACG
*
4882738 AACTTTGAAAAATAAATTGC
65 -ACTTTGAAAAGTAAATTGC
* *
4882758 TCCTCTAAACAGAGG--CAACGAACTTT-GAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
1 TCCTCTAAACAGAGGTACCACG-ACTTTGGAAAAA-TAAATTGCTCCTCTAAACAGAGGAACCAC
4882820 GACTTTTGAAAAGTAAATTGC
64 GAC-TTTGAAAAGTAAATTGC
*
4882841 TCCTCTAAACAGAGG--CAACGAACTTTGG-AAAATAAATTGCTCCTCTAAACAGAGGCAA-CA-
1 TCCTCTAAACAGAGGTACCACG-ACTTTGGAAAAATAAATTGCTCCTCTAAACAGAGG-AACCAC
*
4882901 AACTTTGAAAAGTAAAT
64 GACTTTGAAAAGTAAAT
4882918 ACTCCTAGAC
Statistics
Matches: 370, Mismatches: 26, Indels: 25
0.88 0.06 0.06
Matches are distributed among these distances:
80 14 0.04
81 86 0.23
82 56 0.15
83 213 0.58
84 1 0.00
ACGTcount: A:0.38, C:0.22, G:0.17, T:0.23
Consensus pattern (83 bp):
TCCTCTAAACAGAGGTACCACGACTTTGGAAAAATAAATTGCTCCTCTAAACAGAGGAACCACGA
CTTTGAAAAGTAAATTGC
Found at i:4884167 original size:10 final size:10
Alignment explanation
Indices: 4884154--4884199 Score: 58
Period size: 10 Copynumber: 4.6 Consensus size: 10
4884144 CATTTTCTCA
4884154 TTTTTTCCTT
1 TTTTTTCCTT
* *
4884164 TTTTTTTCTCA
1 TTTTTTCCT-T
4884175 TTTTTT-CTT
1 TTTTTTCCTT
4884184 TTTTTTCCTT
1 TTTTTTCCTT
4884194 TTTTTT
1 TTTTTT
4884200 TTTCATCATT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
9 6 0.19
10 19 0.61
11 6 0.19
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (10 bp):
TTTTTTCCTT
Found at i:4884172 original size:21 final size:20
Alignment explanation
Indices: 4884146--4884189 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 20
4884136 CTTTTTTTCA
4884146 TTTTCTCATTTTTTCCTTTTT
1 TTTTCTCATTTTTT-CTTTTT
4884167 TTTTCTCATTTTTTCTTTTT
1 TTTTCTCATTTTTTCTTTTT
4884187 TTT
1 TTT
4884190 CCTTTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 9 0.39
21 14 0.61
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.80
Consensus pattern (20 bp):
TTTTCTCATTTTTTCTTTTT
Found at i:4884190 original size:30 final size:28
Alignment explanation
Indices: 4884137--4884201 Score: 94
Period size: 30 Copynumber: 2.2 Consensus size: 28
4884127 TTTGAATCTC
4884137 TTTTTTTCATTTTCTCATTTTTTCCTTT
1 TTTTTTTCATTTTCTCATTTTTTCCTTT
* *
4884165 TTTTTTCTCATTTTTTCTTTTTTTTCCTTT
1 TTTTTT-TCATTTTCTC-ATTTTTTCCTTT
4884195 TTTTTTT
1 TTTTTTT
4884202 TCATCATTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
28 6 0.18
29 10 0.30
30 17 0.52
ACGTcount: A:0.05, C:0.15, G:0.00, T:0.80
Consensus pattern (28 bp):
TTTTTTTCATTTTCTCATTTTTTCCTTT
Found at i:4884553 original size:8 final size:8
Alignment explanation
Indices: 4884542--4884575 Score: 61
Period size: 8 Copynumber: 4.4 Consensus size: 8
4884532 GCATTTTTTC
4884542 TTTTTATT
1 TTTTTATT
4884550 TTTTTA-T
1 TTTTTATT
4884557 TTTTTATT
1 TTTTTATT
4884565 TTTTTATT
1 TTTTTATT
4884573 TTT
1 TTT
4884576 GAGACCTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 7 0.28
8 18 0.72
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTTTATT
Found at i:4884560 original size:15 final size:15
Alignment explanation
Indices: 4884542--4884575 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
4884532 GCATTTTTTC
4884542 TTTTTATTTTTTTAT
1 TTTTTATTTTTTTAT
4884557 TTTTTATTTTTTTAT
1 TTTTTATTTTTTTAT
4884572 TTTT
1 TTTT
4884576 GAGACCTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (15 bp):
TTTTTATTTTTTTAT
Found at i:4888160 original size:59 final size:57
Alignment explanation
Indices: 4888041--4888620 Score: 695
Period size: 59 Copynumber: 9.7 Consensus size: 57
4888031 TTTTTTTTAG
* *
4888041 GGAAAATTGATACTTTCAACTTTTCCC-CAAAATATTTTTTGGAAATTTCGATTT-TCAA
1 GGAAAATTGATACTTTCAACTTTTCCCAAAAAATTTTTTTTGGAAATTT--ATTTCT-AA
** *
4888099 GGAAAATTGATACTTTTCAAC-TTTCCTCAAAAACCCTTTTTTTGAAAATTTATTTCTAA
1 GGAAAATTGATAC-TTTCAACTTTTCC-CAAAAA-ATTTTTTTTGGAAATTTATTTCTAA
4888158 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGGAAATTTATTTTTCTTTTAA
1 GGAAAATTGATACTTTCAACTTTT-CCCAAAAA-ATTTTTTTTGGAAATTTA--TTTC---TAA
* *
4888222 GGAAAATTGATACTTTCAACTTTTTCCTAAAAATATTTTTTTGGAAATTTA-TTCTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCAAAAAAT-TTTTTTTGGAAATTTATTTC-TAA
4888280 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCC-AAAAA-ATTTTTTTTGGAAATTTATTTCTAA
* * *
4888339 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTAGAAATTTA-TTCTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCAAAAAATTTTTTTTGGAAATTTATTTC-TAA
** *
4888396 GGAAAATTGATACTTTCAACTTTTTTCTAAAAATAATTTTTTTT-GAAATTTATTTCTGA
1 GGAAAATTGATACTTTCAAC--TTTTCCCAAAA-AATTTTTTTTGGAAATTTATTTCTAA
* *
4888455 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCAAAAAATTTTTTTTGGAAATTTATTTCTAA
4888512 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTATTTTGGAAATTTATTTTTCTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCC-AAAAA-ATTTT-TTTTGGAAATTTA--TTTC---TAA
4888577 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATATTTTTTT
1 GGAAAATTGATACTTTCAACTTTTCCC-AAAAA-AT-TTTTTTT
4888621 AGAATTTTTT
Statistics
Matches: 463, Mismatches: 28, Indels: 55
0.85 0.05 0.10
Matches are distributed among these distances:
56 12 0.03
57 88 0.19
58 63 0.14
59 143 0.31
60 39 0.08
61 17 0.04
62 6 0.01
63 22 0.05
64 27 0.06
65 43 0.09
66 3 0.01
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.46
Consensus pattern (57 bp):
GGAAAATTGATACTTTCAACTTTTCCCAAAAAATTTTTTTTGGAAATTTATTTCTAA
Found at i:4888427 original size:116 final size:116
Alignment explanation
Indices: 4888041--4888618 Score: 789
Period size: 116 Copynumber: 4.9 Consensus size: 116
4888031 TTTTTTTTAG
*
4888041 GGAAAATTGATACTTTCAACTTTTCCC-CAAAATA--TTTTTTGGAAATTTCGATTT-TCAAGGA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAAATTT--ATTTCT-AAGGA
*
4888102 AAATTGATACTTTTCAAC-TTT-CCTCAAAAACCCT-TTTTTTGAAAATTTATTTCTAA
63 AAATTGATAC-TTTCAACTTTTCCCT-AAAAA---TATTTTTTGGAAATTTATTTCTAA
*
4888158 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGGAAATTTATTTTTCTTTTAAG
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAAATTTA--TTTC---TAAG
*
4888223 GAAAATTGATACTTTCAACTTTTTCCTAAAAATATTTTTTTGGAAATTTA-TTCTTAA
61 GAAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTGGAAATTTATTTC-TAA
4888280 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAAATTTATTTCTAAGGAAAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAAATTTATTTCTAAGGAAAA
*
4888345 TTGATACTTTCAACTTTTCCCTAAAAATATTTTTTAGAAATTTA-TTCTTAA
66 TTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTATTTC-TAA
** *
4888396 GGAAAATTGATACTTTCAACTTTTTTCTAAAAATAATTTTTTTT-GAAATTTATTTCTGAGGAAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAAT-ATTTTTTTTGGAAATTTATTTCTAAGGAAA
*
4888460 ATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTAA
65 ATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTATTTCTAA
4888512 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTATTTTGGAAATTTATTTTTCTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTT-TTTTGGAAATTTA--TTTC---TAA
4888577 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATATTTTT
60 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATAT-TTTTT
4888619 TTAGAATTTT
Statistics
Matches: 423, Mismatches: 14, Indels: 42
0.88 0.03 0.09
Matches are distributed among these distances:
115 5 0.01
116 154 0.36
117 84 0.20
118 7 0.02
119 4 0.01
120 22 0.05
121 3 0.01
122 112 0.26
123 28 0.07
124 4 0.01
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.45
Consensus pattern (116 bp):
GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAAATTTATTTCTAAGGAAAA
TTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTATTTCTAA
Found at i:4888717 original size:12 final size:11
Alignment explanation
Indices: 4888697--4888756 Score: 50
Period size: 12 Copynumber: 5.2 Consensus size: 11
4888687 AACCTAATCT
*
4888697 AATAAATAAAA
1 AATAAAAAAAA
4888708 AATAAAATAAACA
1 AATAAAA-AAA-A
*
4888721 AATAAACAAAGA
1 AATAAA-AAAAA
4888733 AAT-AAAAAAA
1 AATAAAAAAAA
*
4888743 ATTCAAAAAAAA
1 AAT-AAAAAAAA
4888755 AA
1 AA
4888757 ACCTGGAGCG
Statistics
Matches: 39, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
10 6 0.15
11 8 0.21
12 15 0.38
13 9 0.23
14 1 0.03
ACGTcount: A:0.80, C:0.05, G:0.02, T:0.13
Consensus pattern (11 bp):
AATAAAAAAAA
Found at i:4889857 original size:3 final size:3
Alignment explanation
Indices: 4889849--4889886 Score: 53
Period size: 3 Copynumber: 13.0 Consensus size: 3
4889839 AAAGATATAC
4889849 ATA ATA ATA ATA ATA ATA ATA ATA A-A ATA CATA A-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA
4889887 CAAAAGAAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
2 4 0.12
3 25 0.78
4 3 0.09
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:4890131 original size:17 final size:17
Alignment explanation
Indices: 4890109--4890143 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
4890099 ACATATTTCG
4890109 TATGTCTCATACATATA
1 TATGTCTCATACATATA
*
4890126 TATGTCTCATGCATATA
1 TATGTCTCATACATATA
4890143 T
1 T
4890144 TCATATGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.31, C:0.17, G:0.09, T:0.43
Consensus pattern (17 bp):
TATGTCTCATACATATA
Found at i:4892147 original size:21 final size:20
Alignment explanation
Indices: 4892122--4892180 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 20
4892112 TATAATATTT
4892122 TAAAATTTATTAATTTAAATA
1 TAAAATTTATTAA-TTAAATA
*
4892143 TAAAAATTATTAA--AAATA
1 TAAAATTTATTAATTAAATA
* *
4892161 -AAAATTAATTAATTCAATA
1 TAAAATTTATTAATTAAATA
4892180 T
1 T
4892181 TTTTTGATCA
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
17 10 0.32
18 5 0.16
19 4 0.13
21 12 0.39
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.41
Consensus pattern (20 bp):
TAAAATTTATTAATTAAATA
Found at i:4892171 original size:17 final size:17
Alignment explanation
Indices: 4892130--4892172 Score: 61
Period size: 16 Copynumber: 2.5 Consensus size: 17
4892120 TTTAAAATTT
*
4892130 ATTAATTTAAATATAAAA
1 ATTAA-TTAAAAATAAAA
4892148 ATT-ATTAAAAATAAAA
1 ATTAATTAAAAATAAAA
4892164 ATTAATTAA
1 ATTAATTAA
4892173 TTCAATATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 14 0.61
17 6 0.26
18 3 0.13
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
ATTAATTAAAAATAAAA
Found at i:4893415 original size:19 final size:20
Alignment explanation
Indices: 4893393--4893433 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
4893383 TTTTAAAAAT
4893393 AAAAAACTATTTT-CTATTA
1 AAAAAACTATTTTACTATTA
* *
4893412 AAAATATTATTTTACTATTA
1 AAAAAACTATTTTACTATTA
4893432 AA
1 AA
4893434 TCATAATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (20 bp):
AAAAAACTATTTTACTATTA
Found at i:4894192 original size:31 final size:31
Alignment explanation
Indices: 4894113--4894215 Score: 84
Period size: 31 Copynumber: 3.3 Consensus size: 31
4894103 AATGATTTGA
* *
4894113 AAATTTTTACTTAATATTT-TAAAA-GATATG
1 AAATTTTTTCTTAAT-TTTGTAAAACGATATC
* * * * *
4894143 AAGTTTTTTATTTTATTTTGTATACCGATATC
1 AAATTTTTT-CTTAATTTTGTAAAACGATATC
* * *
4894175 AAATTTTTTCTTAATTTTTTAAAATGATATG
1 AAATTTTTTCTTAATTTTGTAAAACGATATC
4894206 AAATTTTTTC
1 AAATTTTTTC
4894216 AAAAAGATTT
Statistics
Matches: 55, Mismatches: 15, Indels: 5
0.73 0.20 0.07
Matches are distributed among these distances:
30 10 0.18
31 32 0.58
32 13 0.24
ACGTcount: A:0.34, C:0.06, G:0.07, T:0.53
Consensus pattern (31 bp):
AAATTTTTTCTTAATTTTGTAAAACGATATC
Found at i:4894235 original size:22 final size:21
Alignment explanation
Indices: 4894187--4894235 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
4894177 ATTTTTTCTT
* *
4894187 AATTTTTTAAAATGATATGAA
1 AATTTTTCAAAAAGATATGAA
* *
4894208 ATTTTTTCAAAAAGATTTTGAA
1 AATTTTTCAAAAAGA-TATGAA
4894230 AATTTT
1 AATTTT
4894236 AGCTTAATTT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
21 12 0.55
22 10 0.45
ACGTcount: A:0.43, C:0.02, G:0.08, T:0.47
Consensus pattern (21 bp):
AATTTTTCAAAAAGATATGAA
Found at i:4897205 original size:15 final size:16
Alignment explanation
Indices: 4897181--4897214 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
4897171 AAATTAATTT
*
4897181 AAATACATAAA-ATAA
1 AAATAAATAAATATAA
4897196 AAATAAATAAATATAA
1 AAATAAATAAATATAA
4897212 AAA
1 AAA
4897215 ATATCAAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (16 bp):
AAATAAATAAATATAA
Found at i:4898317 original size:31 final size:31
Alignment explanation
Indices: 4898257--4898359 Score: 109
Period size: 32 Copynumber: 3.3 Consensus size: 31
4898247 AATATATAAA
** *
4898257 TTTAAAGAATTAAATAAAAATTTTTATGTCGA-
1 TTTAAA-AATTAAATAAAAAACTTCATGTC-AT
*
4898289 TTTAAAAATTAAATAAAAAACTCCATGTCATT
1 TTTAAAAATTAAATAAAAAACTTCATGTCA-T
** *
4898321 TTTAAATTTTAAGTAAAAAACTTCATGTCAT
1 TTTAAAAATTAAATAAAAAACTTCATGTCAT
4898352 TTTAAAAA
1 TTTAAAAA
4898360 AGATTTATTA
Statistics
Matches: 59, Mismatches: 10, Indels: 5
0.80 0.14 0.07
Matches are distributed among these distances:
30 1 0.02
31 26 0.44
32 32 0.54
ACGTcount: A:0.48, C:0.08, G:0.06, T:0.39
Consensus pattern (31 bp):
TTTAAAAATTAAATAAAAAACTTCATGTCAT
Found at i:4898638 original size:32 final size:32
Alignment explanation
Indices: 4898601--4898720 Score: 129
Period size: 32 Copynumber: 3.8 Consensus size: 32
4898591 AATAAATCAA
4898601 TTTTTAAAATGACT-TGAAAATTTTTACTTAAT
1 TTTTTAAAATGA-TATGAAAATTTTTACTTAAT
* ** *
4898633 ATTTTAAAA-GATATGAAGTTTTTTATTTAAT
1 TTTTTAAAATGATATGAAAATTTTTACTTAAT
* * * *
4898664 TTTTTAAATTGATATAAAAATCTTTGCTTAAT
1 TTTTTAAAATGATATGAAAATTTTTACTTAAT
*
4898696 TTTTTAAAATAATATG-AAATTTTTA
1 TTTTTAAAATGATATGAAAATTTTTA
4898721 AAAAATAAAT
Statistics
Matches: 69, Mismatches: 17, Indels: 5
0.76 0.19 0.05
Matches are distributed among these distances:
30 1 0.01
31 31 0.45
32 37 0.54
ACGTcount: A:0.39, C:0.03, G:0.07, T:0.51
Consensus pattern (32 bp):
TTTTTAAAATGATATGAAAATTTTTACTTAAT
Found at i:4900151 original size:30 final size:28
Alignment explanation
Indices: 4900091--4900148 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 28
4900081 ATAATAATTC
*
4900091 ATATATTTATATTATATTTTATATAAAA
1 ATATATTTATATTATATTTGATATAAAA
4900119 ATATATGTTATAATT-TATTTGATATAAAA
1 ATATAT-TTAT-ATTATATTTGATATAAAA
4900148 A
1 A
4900149 ATACAATATA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 6 0.22
29 18 0.67
30 3 0.11
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (28 bp):
ATATATTTATATTATATTTGATATAAAA
Found at i:4900198 original size:15 final size:15
Alignment explanation
Indices: 4900178--4900214 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
4900168 ATTTTTATTA
*
4900178 AATTATATAACTTTT
1 AATTATATAAATTTT
4900193 AATTATATAAATTTT
1 AATTATATAAATTTT
4900208 ATATTAT
1 A-ATTAT
4900215 TTTATTTATC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 15 0.75
16 5 0.25
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (15 bp):
AATTATATAAATTTT
Found at i:4906749 original size:28 final size:30
Alignment explanation
Indices: 4906718--4906798 Score: 80
Period size: 30 Copynumber: 2.8 Consensus size: 30
4906708 TTTTACTTAG
* *
4906718 ATAAATCTTTATATTTT-A-TTATACTCAA
1 ATAAATCTTTAAATTTTAATTTACACTCAA
*
4906746 ATAAA-CTCTTAAATTTTAATTTACACTTAA
1 ATAAATCT-TTAAATTTTAATTTACACTCAA
*
4906776 ATAAATTTTTAACA-TTTAATTTA
1 ATAAATCTTTAA-ATTTTAATTTA
4906799 TATCCAAATA
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
27 2 0.05
28 13 0.30
29 1 0.02
30 26 0.59
31 2 0.05
ACGTcount: A:0.42, C:0.10, G:0.00, T:0.48
Consensus pattern (30 bp):
ATAAATCTTTAAATTTTAATTTACACTCAA
Found at i:4908398 original size:94 final size:95
Alignment explanation
Indices: 4908213--4908406 Score: 264
Period size: 94 Copynumber: 2.1 Consensus size: 95
4908203 ACCAATTATA
* * *
4908213 TGATTTAAATCTTGATGTACATGTTAATTTCAAGAATTTTGATTTTGAATTATATGAATATTAAT
1 TGATTTAAATCTTGACGTACATATTAATTTCAAGAATTTTGATTTTGAATTACATGAATATTAAT
*** * **
4908278 TTTCAATGAAATTTTTTGTTGGTTAAAATT
66 TTTCAATGAAAGAATTCGTCAGTTAAAATT
* * *
4908308 TGATTTAAATTTTTACGTACATATTAATTTTAAGAATTTTGA-TTTGAATTACATGAATATTAAT
1 TGATTTAAATCTTGACGTACATATTAATTTCAAGAATTTTGATTTTGAATTACATGAATATTAAT
*
4908372 TTTTAATGAAAGAATTCGTCAGTTAAAATT
66 TTTCAATGAAAGAATTCGTCAGTTAAAATT
4908402 TGATT
1 TGATT
4908407 CCATCTTCAA
Statistics
Matches: 86, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
94 49 0.57
95 37 0.43
ACGTcount: A:0.36, C:0.05, G:0.12, T:0.48
Consensus pattern (95 bp):
TGATTTAAATCTTGACGTACATATTAATTTCAAGAATTTTGATTTTGAATTACATGAATATTAAT
TTTCAATGAAAGAATTCGTCAGTTAAAATT
Found at i:4910207 original size:28 final size:26
Alignment explanation
Indices: 4910175--4910228 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
4910165 CGTTTTGGAA
4910175 GATTTTTTGCATTTTGTTATTTGTCTCT
1 GATTTTTT--ATTTTGTTATTTGTCTCT
*
4910203 GATTTTTTATTTTTTTATTTGTCTCT
1 GATTTTTTATTTTGTTATTTGTCTCT
4910229 TTCTATTATG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 17 0.68
28 8 0.32
ACGTcount: A:0.11, C:0.09, G:0.11, T:0.69
Consensus pattern (26 bp):
GATTTTTTATTTTGTTATTTGTCTCT
Found at i:4910242 original size:26 final size:26
Alignment explanation
Indices: 4910186--4910243 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 26
4910176 ATTTTTTGCA
*
4910186 TTTTGTTATTTGTCTCTGATTTTTTAT
1 TTTTGTTATTTGTCTCT-ATTTATTAT
4910213 TTTT-TTATTTGTCTCT-TTCTATTAT
1 TTTTGTTATTTGTCTCTATT-TATTAT
4910238 GTTTTG
1 -TTTTG
4910244 CAAAGAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
24 2 0.07
25 5 0.19
26 16 0.59
27 4 0.15
ACGTcount: A:0.10, C:0.09, G:0.10, T:0.71
Consensus pattern (26 bp):
TTTTGTTATTTGTCTCTATTTATTAT
Found at i:4911830 original size:42 final size:43
Alignment explanation
Indices: 4911783--4911867 Score: 118
Period size: 42 Copynumber: 2.0 Consensus size: 43
4911773 GTTATATGTA
* * *
4911783 CATATCTTTATCAATGGCTTTAC-CTAGCTCATGCTTTTATTG
1 CATATCTTTACCAATGGCTCTACACTAACTCATGCTTTTATTG
*
4911825 CATATCTTTACCAATGGCTCTACAGCTAACTTATGCTTTTATT
1 CATATCTTTACCAATGGCTCTACA-CTAACTCATGCTTTTATT
4911868 TCATTTAACA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
42 21 0.57
44 16 0.43
ACGTcount: A:0.24, C:0.22, G:0.11, T:0.44
Consensus pattern (43 bp):
CATATCTTTACCAATGGCTCTACACTAACTCATGCTTTTATTG
Found at i:4912064 original size:2 final size:2
Alignment explanation
Indices: 4912057--4912096 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
4912047 GAGTTTGGGA
4912057 AT AT AT AT AT 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 AT AT AT AT AT
4912097 TCTAACAAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4913767 original size:16 final size:16
Alignment explanation
Indices: 4913746--4913779 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
4913736 GAACCAAAGG
*
4913746 AAATAAGTTTTATTGA
1 AAATAAGTTTTATAGA
*
4913762 AAATAATTTTTATAGA
1 AAATAAGTTTTATAGA
4913778 AA
1 AA
4913780 GAGAATTCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (16 bp):
AAATAAGTTTTATAGA
Found at i:4914098 original size:23 final size:23
Alignment explanation
Indices: 4914072--4914141 Score: 56
Period size: 23 Copynumber: 3.1 Consensus size: 23
4914062 ATTAAAATTT
4914072 TAATATTTTATTAATAAATTATA
1 TAATATTTTATTAATAAATTATA
* *
4914095 TAAT-TATTTA-TAATTAATTATGT
1 TAATAT-TTTATTAATAAATTAT-A
* * *
4914118 TTATATTTT-TCAATAAAATATA
1 TAATATTTTATTAATAAATTATA
4914140 TA
1 TA
4914142 TTCTCTACAA
Statistics
Matches: 35, Mismatches: 8, Indels: 9
0.67 0.15 0.17
Matches are distributed among these distances:
22 12 0.34
23 22 0.63
24 1 0.03
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (23 bp):
TAATATTTTATTAATAAATTATA
Found at i:4916533 original size:18 final size:19
Alignment explanation
Indices: 4916505--4916540 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
4916495 TTATATAAAA
*
4916505 ATTATACATAATAATTAAT
1 ATTATACATAAAAATTAAT
4916524 ATTA-ACATAAAAATTAA
1 ATTATACATAAAAATTAA
4916541 AAATGTATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (19 bp):
ATTATACATAAAAATTAAT
Found at i:4916572 original size:21 final size:22
Alignment explanation
Indices: 4916548--4916588 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
4916538 TAAAAATGTA
*
4916548 TATTTTTAA-TTTTATTAAATT
1 TATTTATAATTTTTATTAAATT
4916569 TATTTATAATTTTTATTAAA
1 TATTTATAATTTTTATTAAA
4916589 ATTTTAAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (22 bp):
TATTTATAATTTTTATTAAATT
Found at i:4916613 original size:11 final size:11
Alignment explanation
Indices: 4916599--4916636 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
4916589 ATTTTAAATC
4916599 ATATTATTTTT
1 ATATTATTTTT
*
4916610 ATATTTTTATTT
1 ATATTATT-TTT
4916622 ATATTATTTTT
1 ATATTATTTTT
4916633 ATAT
1 ATAT
4916637 CATATTATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 14 0.58
12 10 0.42
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
ATATTATTTTT
Found at i:4916616 original size:23 final size:23
Alignment explanation
Indices: 4916589--4916636 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
4916579 TTTTATTAAA
4916589 ATTTTAAATCATATTATTTTTAT
1 ATTTTAAATCATATTATTTTTAT
* * *
4916612 ATTTTTATTTATATTATTTTTAT
1 ATTTTAAATCATATTATTTTTAT
4916635 AT
1 AT
4916637 CATATTATTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (23 bp):
ATTTTAAATCATATTATTTTTAT
Found at i:4916621 original size:14 final size:15
Alignment explanation
Indices: 4916602--4916645 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
4916592 TTAAATCATA
*
4916602 TTATTTTTA-TATTT
1 TTATTTATATTATTT
4916616 TTATTTATATTATTT
1 TTATTTATATTATTT
*
4916631 TTATATCATATTATT
1 TTAT-TTATATTATT
4916646 ATATAATATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
14 8 0.31
15 9 0.35
16 9 0.35
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.70
Consensus pattern (15 bp):
TTATTTATATTATTT
Found at i:4916624 original size:12 final size:12
Alignment explanation
Indices: 4916567--4916636 Score: 54
Period size: 12 Copynumber: 5.9 Consensus size: 12
4916557 TTTTATTAAA
4916567 TTTATTTATAATT
1 TTTATTTAT-ATT
* *
4916580 TTTATTAAAATT
1 TTTATTTATATT
* * *
4916592 TTAAATCATATT
1 TTTATTTATATT
*
4916604 ATT-TTTATATT
1 TTTATTTATATT
4916615 TTTATTTATATT
1 TTTATTTATATT
*
4916627 ATT-TTTATAT
1 TTTATTTATAT
4916637 CATATTATTA
Statistics
Matches: 44, Mismatches: 12, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
11 15 0.34
12 22 0.50
13 7 0.16
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (12 bp):
TTTATTTATATT
Found at i:4929786 original size:15 final size:16
Alignment explanation
Indices: 4929758--4929805 Score: 62
Period size: 16 Copynumber: 2.9 Consensus size: 16
4929748 AGAAATTTTA
*
4929758 AAAAATTTAGAAAAAT
1 AAAAATATAGAAAAAT
4929774 AAAAATATA-AAAAAT
1 AAAAATATAGAAAAAT
4929789 AAAATATATATGAAAAA
1 AAAA-ATATA-GAAAAA
4929806 GGTTTAAATC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
15 10 0.36
16 13 0.46
18 5 0.18
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.23
Consensus pattern (16 bp):
AAAAATATAGAAAAAT
Found at i:4930046 original size:12 final size:13
Alignment explanation
Indices: 4930013--4930046 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
4930003 TATTAATTTT
4930013 AAATTATTTATAA
1 AAATTATTTATAA
4930026 AAATATATTT-TAA
1 AAAT-TATTTATAA
4930039 AAATTATT
1 AAATTATT
4930047 AAATTGTCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 4 0.20
13 11 0.55
14 5 0.25
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
AAATTATTTATAA
Found at i:4932194 original size:544 final size:540
Alignment explanation
Indices: 4931061--4932668 Score: 2348
Period size: 527 Copynumber: 3.0 Consensus size: 540
4931051 TTATTTTTTC
* *
4931061 TTTTCTATTTTGTTGAGGTAAGCTCTCTTAGTTTAATTTTGATTTTTTTTTTTTGCACTTAAGTA
1 TTTTCTATTTTGTTGAGGTAAGCTCTCTTAGTTTAATTTTGACTTTTTTTTATTGCACTTAAGTA
*
4931126 AATGAATAGAACAGAATGCCAAGAACATATAAAGCAATACAACATGCAAATGAGCTTTTATATAC
66 AATGAATAGAACAGAATGCCAAGAACATGTAAAGCAATACAACATGCAAATGAGCTTTTATATAC
* * * * *
4931191 TATATGTTAGAGATCACTTCTGGAACTTGAACAAGCTTAC---AAAAGAAGATTTCTGTTGCTAA
131 TATATGTTAGAGATCACTTCTGGAACTTCAACAAGATTACAAAAAAAGAAAATTTCTATTACTAA
* * *
4931253 TTGATGAGGCCATAATCAATTTATTAGAAGATAGCTGCAGATTATGAATAACCTTTAATCCTTTC
196 CTGATGAGGCCATAATCAATTTATTAGAAGATAGCAGTAGATTATGAATAACCTTTAATCCTTTC
4931318 ATTAACCCAAAAATGAAAATAAAAAAAGAAAAAATATACAATAGATTGGCTTTCATATTAAGCTA
261 ATTAACCCAAAAAT-AAAA-AAAAAAA-AAAAAATATACAATAGATTGGCTTTCATATTAAGCTA
* *
4931383 TTTCAATTTAGATTGTTTCATTGTACAATGATGAAGCCTCTTTAAAAGCTAAGGAAATTATATTA
323 TTTCAATTCAGATTGTTTCATTGTACAATGATGAAGCCTCTTTAAAAGCTAAGGAAATTATCTTA
*
4931448 TTATTGTCATATCATCATTTTCACATCATGTTATTAAAATGCATATTGCTTT-TTTTC-TGGGAA
388 TTATTGTCATATCATCATTTTCACATCATGTTATTAAAATGCATATTGCTTTCTTTCCATGGGAA
* * *
4931511 TTAAGATTACAAATTTTCTTATGTTCTAAGTAAACTAACACTTACTGTTTACTTGACAGTTCTTG
453 TTAAGATTACAAATTTTCTTATGTTCTAAATAAACTAACATTTACTGTTTACTTGACAGTTCTAG
* *
4931576 CAAAAAGAGGC-TCTAATCTTGAGA
518 C-AAAAGAAGCTTC-AATCTTAAGA
* *
4931600 TTTTCTATTTTGTTAAGGTAAGCTCTCTTAGTTTAATTTTGACTTTTTTTTATTGCACTTAAATA
1 TTTTCTATTTTGTTGAGGTAAGCTCTCTTAGTTTAATTTTGACTTTTTTTTATTGCACTTAAGTA
* * * *
4931665 AATAAATAGAACATAATGCCAAGAACATGTAAAGCAAAATAACATGCAAATGAGCTTTTATATAC
66 AATGAATAGAACAGAATGCCAAGAACATGTAAAGCAATACAACATGCAAATGAGCTTTTATATAC
** * * * *
4931730 CGTATGTTAGAGATCATTTATAGAACTTCAACAAGATTACAAAAAAAGCAAAAATTCTATTACTA
131 TATATGTTAGAGATCACTTCTGGAACTTCAACAAGATTACAAAAAAAG-AAAATTTCTATTACTA
* * **
4931795 ACTGATGAGGTCATAATCAATTTATTAAAAGATAGCAGTAGATTATGAATAATATTTAATCCTTT
195 ACTGATGAGGCCATAATCAATTTATTAGAAGATAGCAGTAGATTATGAATAACCTTTAATCCTTT
4931860 CATTAACCCAAAAATTAAAAAAAAAGAAAAGAAAGATATACAATAGATTGGCTTTCATATTAAGC
260 CATTAACCCAAAAA-TAAAAAAAAA-AAAA-AAA-ATATACAATAGATTGGCTTTCATATTAAGC
* *
4931925 TATTTCAATTCAGATTGTTTCATTGTACAATGATGAAGCCTATTTAAAAGCTAAGGAAACTATCT
321 TATTTCAATTCAGATTGTTTCATTGTACAATGATGAAGCCTCTTTAAAAGCTAAGGAAATTATCT
* * *
4931990 TATTATTGTCATATCATCATTTTCACAACATTTTATTAAAATGCACATTGCTTTCTTTCCATGGG
386 TATTATTGTCATATCATCATTTTCACATCATGTTATTAAAATGCATATTGCTTTCTTTCCATGGG
* * *
4932055 AATTAAGATTACAAATTTTCTTATGTTCTAAATAGACTAACATTTACTGTTTACTTGATAGGTCT
451 AATTAAGATTACAAATTTTCTTATGTTCTAAATAAACTAACATTTACTGTTTACTTGACAGTTCT
4932120 AGCAAAAGAAGCTTCAATCTTAAGA
516 AGCAAAAGAAGCTTCAATCTTAAGA
*
4932145 TTTTCTATTTTGTTGAGGTAAGCTCTCTTAGGTTAATTTTGACTTTTTTTTATTGCA-TTCAAGT
1 TTTTCTATTTTGTTGAGGTAAGCTCTCTTAGTTTAATTTTGACTTTTTTTTATTGCACTT-AAGT
*
4932209 AAATGAATAGAACAGAATGCCAAGAACATGTAAAGCAATACAATATGCAAATGCA-CTTTTATAT
65 AAATGAATAGAACAGAATGCCAAGAACATGTAAAGCAATACAACATGCAAATG-AGCTTTTATAT
* *
4932273 ACTATATGTTAGAGTTCACTTCTGGAACTTTAACAAGATTACAAAAAAAAAGAAAGATTTCTATT
129 ACTATATGTTAGAGATCACTTCTGGAACTTCAACAAGATTAC--AAAAAAAGAAA-ATTTCTATT
* *
4932338 ACTAACTAACGAGGCCATAATCAATTTATTAGAAGATAGCAGTAGATTATGAATAACCTTTAATC
191 ACTAACTGATGAGGCCATAATCAATTTATTAGAAGATAGCAGTAGATTATGAATAACCTTTAATC
** *
4932403 CTTTCATTAACCC------------AAAAAAAAAAA-A-A-AA-AGATTGGCTTTTGTGTTAAGC
256 CTTTCATTAACCCAAAAATAAAAAAAAAAAAAAAAATATACAATAGATTGGCTTTCATATTAAGC
*
4932452 TATTTCAATTCAGATTGTTTCATTGTACAATGATGAAGCCTCTTTAAAAGCTAAGGAAATTGTCT
321 TATTTCAATTCAGATTGTTTCATTGTACAATGATGAAGCCTCTTTAAAAGCTAAGGAAATTATCT
* *
4932517 TATTACTGTCATATCATCATTTTCACATCATGTTATTAAAATGCATATTACTTTCTTTCCATGGG
386 TATTATTGTCATATCATCATTTTCACATCATGTTATTAAAATGCATATTGCTTTCTTTCCATGGG
* * * *
4932582 AATTAAGATTATAAATTTTCTAATATTCTAAATAAACTAACATTTATTGTTTACTTGACAGTTCT
451 AATTAAGATTACAAATTTTCTTATGTTCTAAATAAACTAACATTTACTGTTTACTTGACAGTTCT
*
4932647 GGCAAAA-AGAGCCTTCAATCTT
516 AGCAAAAGA-AG-CTTCAATCTT
4932669 GAGACAACAA
Statistics
Matches: 967, Mismatches: 84, Indels: 47
0.88 0.08 0.04
Matches are distributed among these distances:
526 1 0.00
527 206 0.21
528 12 0.01
529 1 0.00
530 1 0.00
531 1 0.00
532 3 0.00
533 4 0.00
534 3 0.00
539 154 0.16
542 12 0.01
543 93 0.10
544 145 0.15
545 171 0.18
546 72 0.07
547 88 0.09
ACGTcount: A:0.37, C:0.14, G:0.13, T:0.37
Consensus pattern (540 bp):
TTTTCTATTTTGTTGAGGTAAGCTCTCTTAGTTTAATTTTGACTTTTTTTTATTGCACTTAAGTA
AATGAATAGAACAGAATGCCAAGAACATGTAAAGCAATACAACATGCAAATGAGCTTTTATATAC
TATATGTTAGAGATCACTTCTGGAACTTCAACAAGATTACAAAAAAAGAAAATTTCTATTACTAA
CTGATGAGGCCATAATCAATTTATTAGAAGATAGCAGTAGATTATGAATAACCTTTAATCCTTTC
ATTAACCCAAAAATAAAAAAAAAAAAAAAAATATACAATAGATTGGCTTTCATATTAAGCTATTT
CAATTCAGATTGTTTCATTGTACAATGATGAAGCCTCTTTAAAAGCTAAGGAAATTATCTTATTA
TTGTCATATCATCATTTTCACATCATGTTATTAAAATGCATATTGCTTTCTTTCCATGGGAATTA
AGATTACAAATTTTCTTATGTTCTAAATAAACTAACATTTACTGTTTACTTGACAGTTCTAGCAA
AAGAAGCTTCAATCTTAAGA
Found at i:4933812 original size:30 final size:29
Alignment explanation
Indices: 4933747--4933817 Score: 92
Period size: 29 Copynumber: 2.4 Consensus size: 29
4933737 ACAAGATTGC
*
4933747 AAATTGTT-AATATTTTATTATAATTAATT
1 AAATT-TTAAATATTTTATTACAATTAATT
4933776 AAATTTTAAATATTTTATT-CAATTCAATT
1 AAATTTTAAATATTTTATTACAATT-AATT
4933805 AAAATTTTAAATA
1 -AAATTTTAAATA
4933818 AACAAAATCG
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
28 6 0.16
29 20 0.53
30 12 0.32
ACGTcount: A:0.45, C:0.03, G:0.01, T:0.51
Consensus pattern (29 bp):
AAATTTTAAATATTTTATTACAATTAATT
Found at i:4944829 original size:59 final size:58
Alignment explanation
Indices: 4944575--4945095 Score: 560
Period size: 59 Copynumber: 8.8 Consensus size: 58
4944565 ATTTTTTTTG
* * * *
4944575 TTCAGGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTCTT-GAAATTTTAAT
1 TTCAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTT-TTGGAAAATTTATT
* * *
4944633 TTCGAA-AAAAATTGATATTTTCAACTTTT-CCTCAAAAATTTATTTTCTTTGAAAATTTA-T
1 TTC-AAGGAAAATTGATACTTTCAACTTTTCCCT-AAAAA--TATTTT-TTGGAAAATTTATT
* * *
4944693 TTCTAAGGAAGATTGATACTTTCAACTTTTCCCTAAACATATTTTTTTTTGAAAAATTTGATT
1 TTC-AAGGAAAATTGATACTTTCAACTTTTCCCTAAA-A-A-TATTTTTTGGAAAATTT-ATT
*
4944756 TTCAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTTGATT
1 TTCAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAAATTT-ATT
** *
4944815 TTCAAGGAAAATTGATACTTTCAACTTTT-CCTCAAAAACCCTTTTTTTGAAAATTTATT
1 TTCAAGGAAAATTGATACTTTCAACTTTTCCCT-AAAAA-TATTTTTTGGAAAATTTATT
* *
4944874 TTTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGAAAAATTTGATT
1 TTCAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTGGAAAATTT-ATT
*
4944934 TTCAAGGAAAATTGATACTTTCAACTTTT-CCTCAAAAACCCT-TTTTTTTG-AAATTTATT
1 TTCAAGGAAAATTGATACTTTCAACTTTTCCCT-AAAAA---TATTTTTTGGAAAATTTATT
* * ** *
4944993 TTTAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-AGTTTGGAAAGCTTT-TT
1 TTCAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAA-ATTTATT
*
4945050 TTTAAGGAAAATTGATACTTTCAACTTTT-CCTCAAAAATATTTTTT
1 TTCAAGGAAAATTGATACTTTCAACTTTTCCCT-AAAAATATTTTTT
4945096 TTGAAATTTT
Statistics
Matches: 400, Mismatches: 37, Indels: 52
0.82 0.08 0.11
Matches are distributed among these distances:
56 7 0.02
57 42 0.10
58 38 0.09
59 141 0.35
60 76 0.19
61 47 0.12
62 43 0.11
63 6 0.01
ACGTcount: A:0.34, C:0.14, G:0.08, T:0.44
Consensus pattern (58 bp):
TTCAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAAATTTATT
Found at i:4945113 original size:119 final size:117
Alignment explanation
Indices: 4944580--4945107 Score: 645
Period size: 119 Copynumber: 4.5 Consensus size: 117
4944570 TTTTGTTCAG
* * * ** *
4944580 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTCTTGAAATTTTAATTTCGAA-AAAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAAATTT-ATTTTTAAGGAAA
* * * *
4944643 ATTGATATTTTCAACTTTTCCTCAAAAATTTATTTTCTTTGAAAATTTATTTCTAA
65 ATTGATACTTTCAACTTTTCCCCAAAAA--TATTTT-TTGGAAAATTTATTTTTAA
* * *
4944699 GGAAGATTGATACTTTCAACTTTTCC-CTAAACATATTTTTTTTTGAAAAATTTGATTTTCAAGG
1 GGAAAATTGATACTTTCAACTTTTCCTC-AAAAATA-TTTTTTTTG-AAAATTT-ATTTTTAAGG
* * *
4944763 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTTGATTTTCAA
62 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAAATTT-ATTTTTAA
***
4944820 GGAAAATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTTGAAAATTTATTTTTAAGGAAAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAAATTTATTTTTAAGGAAAA
* * *
4944885 TTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGAAAAATTTGATTTTCAA
66 TTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTGGAAAATTT-ATTTTTAA
**
4944939 GGAAAATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTTTG-AAATTTATTTTTAAGGAAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAA-TATTTTTTTTGAAAATTTATTTTTAAGGAAA
** *
4945003 ATTGATACTTTCAACTTTTCCCCAAAAATA-AGTTTGGAAAGCTTT-TTTTTAA
65 ATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAA-ATTTATTTTTAA
*
4945055 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAATTTTAT
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAAATTTAT
4945108 CATTTTATTT
Statistics
Matches: 365, Mismatches: 33, Indels: 25
0.86 0.08 0.06
Matches are distributed among these distances:
115 9 0.02
116 46 0.13
117 7 0.02
118 46 0.13
119 141 0.39
120 27 0.07
121 48 0.13
122 13 0.04
123 28 0.08
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.44
Consensus pattern (117 bp):
GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAAATTTATTTTTAAGGAAAA
TTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAAATTTATTTTTAA
Found at i:4946556 original size:18 final size:17
Alignment explanation
Indices: 4946535--4946573 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 17
4946525 TCTCCTTTTC
*
4946535 CTATTCGGATTCCTCCT
1 CTATTCAGATTCCTCCT
4946552 ACTATTCAGATTCCTCCT
1 -CTATTCAGATTCCTCCT
4946570 CTAT
1 CTAT
4946574 CTTTTTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.18, C:0.33, G:0.08, T:0.41
Consensus pattern (17 bp):
CTATTCAGATTCCTCCT
Found at i:4947602 original size:1 final size:1
Alignment explanation
Indices: 4947592--4947664 Score: 83
Period size: 1 Copynumber: 73.0 Consensus size: 1
4947582 CAACTCAACA
* ** * * * *
4947592 TTTTTATTTTTTGATTTTTTTTTTTTTTTTGTTTTTTGTTTTTTTTTTTGTTTTTTTTTTTTGTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
4947657 TTTTTTTT
1 TTTTTTTT
4947665 CCAAAGCTCC
Statistics
Matches: 59, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
1 59 1.00
ACGTcount: A:0.03, C:0.00, G:0.07, T:0.90
Consensus pattern (1 bp):
T
Found at i:4947615 original size:12 final size:12
Alignment explanation
Indices: 4947592--4947664 Score: 103
Period size: 12 Copynumber: 5.8 Consensus size: 12
4947582 CAACTCAACA
4947592 TTTTTATTTTTTG
1 TTTTT-TTTTTTG
4947605 ATTTTTTTTTTT-
1 -TTTTTTTTTTTG
4947617 TTTTTGTTTTTTG
1 TTTTT-TTTTTTG
4947630 TTTTTTTTTTTG
1 TTTTTTTTTTTG
4947642 TTTTTTTTTTTTG
1 -TTTTTTTTTTTG
4947655 TTTTTTTTTT
1 TTTTTTTTTT
4947665 CCAAAGCTCC
Statistics
Matches: 56, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
11 5 0.09
12 23 0.41
13 23 0.41
14 5 0.09
ACGTcount: A:0.03, C:0.00, G:0.07, T:0.90
Consensus pattern (12 bp):
TTTTTTTTTTTG
Found at i:4947749 original size:41 final size:41
Alignment explanation
Indices: 4947670--4948151 Score: 844
Period size: 41 Copynumber: 12.0 Consensus size: 41
4947660 TTTTTCCAAA
4947670 GCTCCTCTAAACAGAGGCA-CACGACTTTGGAAAA-TAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATT
4947710 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
4947751 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
4947792 GCTCCTCTAAACAGAGG-ACCACGACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATT
*
4947833 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
4947874 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
4947915 GCTCCTCTAAACAGAGG---CACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
4947953 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
4947994 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
4948035 GCTCCTCTAAACAGAGGCA--ACGACTTTGAAAA-TAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
4948073 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAA-TAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
4948113 GCTCCTCTAAACAGAGGCA--ACGACTTTGGAAAAGTAAAT
1 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAAT
4948152 ACTCCTAGAC
Statistics
Matches: 429, Mismatches: 2, Indels: 22
0.95 0.00 0.05
Matches are distributed among these distances:
38 71 0.17
39 18 0.04
40 78 0.18
41 251 0.59
42 11 0.03
ACGTcount: A:0.37, C:0.23, G:0.18, T:0.22
Consensus pattern (41 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
Found at i:4948009 original size:120 final size:121
Alignment explanation
Indices: 4947670--4948151 Score: 852
Period size: 120 Copynumber: 4.0 Consensus size: 121
4947660 TTTTTCCAAA
4947670 GCTCCTCTAAACAGAGGCACACGACTTTGGAAAATAAATTGCTCCTCTAAACAGAGGCACCACGA
1 GCTCCTCTAAACAGAGG-ACACGACTTTGGAAAATAAATTGCTCCTCTAAACAGAGGCACCACGA
4947735 CTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
65 CTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
4947792 GCTCCTCTAAACAGAGGACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
1 GCTCCTCTAAACAGAGGA-CACGACTTTGGAAAA-TAAATTGCTCCTCTAAACAGAGGCACCACG
*
4947857 ACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
64 ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
4947915 GCTCCTCTAAACAGAGG-CACGACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGA
1 GCTCCTCTAAACAGAGGACACGACTTTGGAAAA-TAAATTGCTCCTCTAAACAGAGGCACCACGA
4947978 CTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
65 CTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
4948035 GCTCCTCTAAACAGAGG-CAACGACTTT-GAAAATAAATTGCTCCTCTAAACAGAGGCACCACGA
1 GCTCCTCTAAACAGAGGAC-ACGACTTTGGAAAATAAATTGCTCCTCTAAACAGAGGCACCACGA
4948098 CTTTGAAAA-TAAATTGCTCCTCTAAACAGAGGCA--ACGACTTTGGAAAAGTAAAT
65 CTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAAT
4948152 ACTCCTAGAC
Statistics
Matches: 354, Mismatches: 2, Indels: 12
0.96 0.01 0.03
Matches are distributed among these distances:
117 8 0.02
118 11 0.03
119 25 0.07
120 151 0.43
121 23 0.06
122 32 0.09
123 104 0.29
ACGTcount: A:0.37, C:0.23, G:0.18, T:0.22
Consensus pattern (121 bp):
GCTCCTCTAAACAGAGGACACGACTTTGGAAAATAAATTGCTCCTCTAAACAGAGGCACCACGAC
TTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
Found at i:4949340 original size:21 final size:21
Alignment explanation
Indices: 4949307--4949367 Score: 52
Period size: 21 Copynumber: 2.9 Consensus size: 21
4949297 AACATGATAC
* *
4949307 AATTTTCCATTTTCATTTTTT
1 AATTTTTCTTTTTCATTTTTT
*
4949328 AATTTTTCTTTTTCCCTTTTTT
1 AATTTTTCTTTTT-CATTTTTT
**
4949350 TCTATTTT-TTTTTCATTT
1 AAT-TTTTCTTTTTCATTT
4949368 CTCATTTTTA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
21 15 0.47
22 13 0.41
23 4 0.12
ACGTcount: A:0.13, C:0.15, G:0.00, T:0.72
Consensus pattern (21 bp):
AATTTTTCTTTTTCATTTTTT
Found at i:4953441 original size:59 final size:57
Alignment explanation
Indices: 4953191--4953540 Score: 380
Period size: 61 Copynumber: 5.9 Consensus size: 57
4953181 TTTTGTTCAG
* * * * **
4953191 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTCTTAAAATTTTAATTTCGA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAAT-TTTTTTTGAAATTTTATTTTTAA
* * *
4953249 GGAAAATTGATATTTTCAACTTTTCCTCAAAAATTTATTTTCTTTGAAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAA--T-TTTT-TTTGAAATTTTATTTTTAA
* * *
4953310 GGAAGATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAAATTTTGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTT-CCTCAAAA-A-TTTTTTTTG-AAATTTT-ATTTTTAA
4953372 GGAAAATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTTTGAAA-TTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAA---TTTTTTTTGAAATTTTATTTTTAA
* *** * *
4953431 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATAAGTTTGGAAAGCTTT-TTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATTTTTTTTGAAA-TTTTATTTTTAA
4953488 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAATTTTAT
1 GGAAAATTGATACTTTCAACTTTTCCTC-AAAA-ATTTTTTTTGAAATTTTAT
4953541 CATTTTTTTT
Statistics
Matches: 248, Mismatches: 30, Indels: 27
0.81 0.10 0.09
Matches are distributed among these distances:
56 8 0.03
57 34 0.14
58 41 0.17
59 49 0.20
60 14 0.06
61 54 0.22
62 47 0.19
63 1 0.00
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.45
Consensus pattern (57 bp):
GGAAAATTGATACTTTCAACTTTTCCTCAAAAATTTTTTTTGAAATTTTATTTTTAA
Found at i:4953451 original size:121 final size:117
Alignment explanation
Indices: 4953191--4953537 Score: 468
Period size: 121 Copynumber: 2.9 Consensus size: 117
4953181 TTTTGTTCAG
* * *
4953191 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTCTT-AAAATTTTAATTTCGAGGAAAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATTTTATTTTCAAGGAAAA
* *
4953255 TTGATATTTTCAACTTTTCCTCAAAAATTTATTTTCTTTGAAAATTTATTTCTAA
66 TTGATACTTTCAACTTTTCCTCAAAAA--TATTTTTTTTG-AAATTTATTTCTAA
* *
4953310 GGAAGATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAAATTTTGATTTTCAAGGA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA--TTTTTTTGAAAATTTT-ATTTTCAAGGA
** *
4953375 AAATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTTTGAAATTTATTTTTAA
63 AAATTGATACTTTCAACTTTTCCTCAAAAA-TATTTTTTTTGAAATTTATTTCTAA
** * *
4953431 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-AGTTTGGAAAGCTTTT-TTTT-AAGGAAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAA-ATTTTATTTTCAAGGAAA
4953493 ATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAATTT
65 ATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAATTT
4953538 TATCATTTTT
Statistics
Matches: 204, Mismatches: 19, Indels: 14
0.86 0.08 0.06
Matches are distributed among these distances:
115 15 0.07
116 35 0.17
117 4 0.02
118 7 0.03
119 37 0.18
121 52 0.25
122 16 0.08
123 38 0.19
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.44
Consensus pattern (117 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATTTTATTTTCAAGGAAAA
TTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAATTTATTTCTAA
Found at i:4954980 original size:18 final size:17
Alignment explanation
Indices: 4954959--4954997 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 17
4954949 TCTCCTTTTC
*
4954959 CTATTCGGATTCCTCCT
1 CTATTCAGATTCCTCCT
4954976 ACTATTCAGATTCCTCCT
1 -CTATTCAGATTCCTCCT
4954994 CTAT
1 CTAT
4954998 CTTTTTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.18, C:0.33, G:0.08, T:0.41
Consensus pattern (17 bp):
CTATTCAGATTCCTCCT
Found at i:4955127 original size:20 final size:20
Alignment explanation
Indices: 4955099--4955143 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
4955089 GAATGTTCGT
*
4955099 CGGATTCTGGAAAATGTCAC
1 CGGAATCTGGAAAATGTCAC
* *
4955119 CGGAATCTGGAAAATTTCGC
1 CGGAATCTGGAAAATGTCAC
4955139 CGGAA
1 CGGAA
4955144 GTTAGTCGGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (20 bp):
CGGAATCTGGAAAATGTCAC
Found at i:4956466 original size:20 final size:20
Alignment explanation
Indices: 4956438--4956476 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
4956428 TAAATAATTG
* *
4956438 TTTATAATTTAATACTATTA
1 TTTAAAATTTAAAACTATTA
4956458 TTTAAAATTTAAAACTATT
1 TTTAAAATTTAAAACTATT
4956477 TCATTTCAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (20 bp):
TTTAAAATTTAAAACTATTA
Found at i:4956930 original size:19 final size:19
Alignment explanation
Indices: 4956901--4956951 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
4956891 GTTACTTAAA
* *
4956901 ATTTTTATTTTTATTATG-
1 ATTTATATTTTAATTATGT
4956919 ATTTGATATTTTAATTATGTT
1 ATTT-ATATTTTAATTATG-T
4956940 ATTTATATTTTA
1 ATTTATATTTTA
4956952 TATATATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 4 0.14
19 12 0.43
20 8 0.29
21 4 0.14
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.67
Consensus pattern (19 bp):
ATTTATATTTTAATTATGT
Found at i:4969559 original size:355 final size:356
Alignment explanation
Indices: 4969095--4970383 Score: 1848
Period size: 355 Copynumber: 3.7 Consensus size: 356
4969085 TATAACAAAT
* * *
4969095 TATTGAAGGCATTTTATAATAAAAGATGCCTTTAATAATCCCAAAATTTTTTTTAA-GAAAATTA
1 TATTGAAGGTATTTTATAATAAAAGACGCCTTTAATAATTCCAAAATTTTTTTTAATG-AAATTA
* * * *
4969159 TTGAAGGCATTGTTATCTGCAAACGCCTTCACTAATTATCTACAAAATCTAATAGGAATTATTAA
65 TTGAAGGCGTTGCTATCTGCAAACGCCTTCACTAATTATCTACAAAATCTAATAGCAAATATTAA
* * * *
4969224 AGGCATTTTTCTTGAATATACGCCTTT-AATAACCATGTTAAAATTTTTGTGACGGTATATTGAA
130 AGGTATTTTTCTTGAATATAC-ACTTTCAATAACCGTGTTAAAATTTGTGTGACGGTATATTGAA
** * ** **
4969288 GGTATTTTACAATAGAAGACACCTTTAATAATTTCTAAAATTTTTTGAGAAAAAATATTGAAGGC
194 GGTATTTTACAATAGAAGACACCTTTAATAATGCCCAAAATTTTTCAAGGGAAAATATTGAAGGC
* * * * *
4969353 GTTTGTTATTAACAAACACCTTCAGTAAAT-GATTACTAAGTTTAAAAGTATATTGAAGGCACTT
259 GTCTGTTATTAGCAAACGCCTTCAGT-AATGGATTACTAAGTTTAAAGGTATATTGAAGTCACTT
* * *
4969417 TTTCGAATAAACGCTTTCTATAACCATCGTGGTC
323 TTTCGAATAAACGCTTTCTATAACTATCATGGTA
*
4969451 TATTGAAGGTATTTTATAATAAAAGACGTCTTTAATAA-TCTCAAAA-TTTTTTTAATGAAATTA
1 TATTGAAGGTATTTTATAATAAAAGACGCCTTTAATAATTC-CAAAATTTTTTTTAATGAAATTA
* *
4969514 TTGAAGGCGTTGCTATCTGCAAACACCTTCAGTAATTATCTACAAAATCTAATAGCAAATATTAA
65 TTGAAGGCGTTGCTATCTGCAAACGCCTTCACTAATTATCTACAAAATCTAATAGCAAATATTAA
* *
4969579 AGGTGTTTTTCTTGAATATACACTTTCAATAATCGTGTTAAAATTTGTGTGACGGTATATTGAAG
130 AGGTATTTTTCTTGAATATACACTTTCAATAACCGTGTTAAAATTTGTGTGACGGTATATTGAAG
* * * *
4969644 GCATTTTACAATAGAAGACGCCTTTAATAATGCCCAAAATTTTTCAAGGGAAAATATTAAAGGTG
195 GTATTTTACAATAGAAGACACCTTTAATAATGCCCAAAATTTTTCAAGGGAAAATATTGAAGGCG
*
4969709 TCTGTTATTAGCAAATGCCTTCAGTAATGGATTACTAAGTTTAAAGGTATATTGAAGTCACTTTT
260 TCTGTTATTAGCAAACGCCTTCAGTAATGGATTACTAAGTTTAAAGGTATATTGAAGTCACTTTT
4969774 TCGAATAAACGCTTTCTATAACTATCATGGTA
325 TCGAATAAACGCTTTCTATAACTATCATGGTA
*
4969806 TATTGAAGGCT-TTTTATAATAAAACACGCCTTTAATAATTCCAAAATTTTTTTTAATGAAATTA
1 TATTGAAGG-TATTTTATAATAAAAGACGCCTTTAATAATTCCAAAATTTTTTTTAATGAAATTA
*
4969870 TTGAAGGCGTTGCTATCTGCAAACGCCTTCACTAATTATCTATAAAATC---T-----A-A-T--
65 TTGAAGGCGTTGCTATCTGCAAACGCCTTCACTAATTATCTACAAAATCTAATAGCAAATATTAA
* *
4969923 -GGTGTTTTTCTTGAATATACACTTTCAATAACCGTGTTAAAATTTGTGTGGCGGTATATTGAAG
130 AGGTATTTTTCTTGAATATACACTTTCAATAACCGTGTTAAAATTTGTGTGACGGTATATTGAAG
* *
4969987 GTATTTTACAGTAGAAGACATCTTTAATAATGCCCAAAATTTTTCAAGGGAAAATATTGAAGGCG
195 GTATTTTACAATAGAAGACACCTTTAATAATGCCCAAAATTTTTCAAGGGAAAATATTGAAGGCG
* *
4970052 TCTGTTATTAGCAAACGCCTTTAGTAATGGATTACTAAGTTTAAAGGTATATTGAAGTCGCTTTT
260 TCTGTTATTAGCAAACGCCTTCAGTAATGGATTACTAAGTTTAAAGGTATATTGAAGTCACTTTT
*
4970117 TCGAATAAACGCCTTT-TATAACTATCATGGTT
325 TCGAATAAACG-CTTTCTATAACTATCATGGTA
* *
4970149 TATTGAAGGTGTTTTATAATAAAAGACGTCTTTAATAATTCC-AAATTTTTTTTAATGAAATTAT
1 TATTGAAGGTATTTTATAATAAAAGACGCCTTTAATAATTCCAAAATTTTTTTTAATGAAATTAT
* *
4970213 TGAAGGCGTTGCTATCTGTAAACGCCTTCACTAATTATCTACAAAATCTTAATAACAAATATTAA
66 TGAAGGCGTTGCTATCTGCAAACGCCTTCACTAATTATCTACAAAATC-TAATAGCAAATATTAA
* * *
4970278 AGGTATTTTTCTTGAATATACGCCTTT-AATAACCGTGGTAAAATTTGTGTGACAGTATATTGAA
130 AGGTATTTTTCTTGAATATAC-ACTTTCAATAACCGTGTTAAAATTTGTGTGACGGTATATTGAA
* * **
4970342 AGTATTTTACAGTAGAAGATGCCTTTAATAATGCCCAAAATT
194 GGTATTTTACAATAGAAGACACCTTTAATAATGCCCAAAATT
4970384 AAAGGTGCAT
Statistics
Matches: 843, Mismatches: 66, Indels: 48
0.88 0.07 0.05
Matches are distributed among these distances:
342 69 0.08
343 247 0.29
344 4 0.00
346 2 0.00
347 1 0.00
348 1 0.00
351 1 0.00
352 1 0.00
353 2 0.00
354 7 0.01
355 306 0.36
356 198 0.23
357 4 0.00
ACGTcount: A:0.35, C:0.13, G:0.14, T:0.37
Consensus pattern (356 bp):
TATTGAAGGTATTTTATAATAAAAGACGCCTTTAATAATTCCAAAATTTTTTTTAATGAAATTAT
TGAAGGCGTTGCTATCTGCAAACGCCTTCACTAATTATCTACAAAATCTAATAGCAAATATTAAA
GGTATTTTTCTTGAATATACACTTTCAATAACCGTGTTAAAATTTGTGTGACGGTATATTGAAGG
TATTTTACAATAGAAGACACCTTTAATAATGCCCAAAATTTTTCAAGGGAAAATATTGAAGGCGT
CTGTTATTAGCAAACGCCTTCAGTAATGGATTACTAAGTTTAAAGGTATATTGAAGTCACTTTTT
CGAATAAACGCTTTCTATAACTATCATGGTA
Found at i:4974743 original size:8 final size:8
Alignment explanation
Indices: 4974730--4974783 Score: 57
Period size: 8 Copynumber: 7.4 Consensus size: 8
4974720 ATTATATATA
4974730 TTTCTTCT
1 TTTCTTCT
4974738 TTTCTTC-
1 TTTCTTCT
4974745 TTT-TTC-
1 TTTCTTCT
4974751 TTT-TTCT
1 TTTCTTCT
4974758 TTTCTTCT
1 TTTCTTCT
4974766 TTTC-T-T
1 TTTCTTCT
4974772 TTTCTTTCT
1 TTTC-TTCT
4974781 TTT
1 TTT
4974784 TGACAGCATT
Statistics
Matches: 41, Mismatches: 0, Indels: 9
0.82 0.00 0.18
Matches are distributed among these distances:
6 14 0.34
7 7 0.17
8 16 0.39
9 4 0.10
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (8 bp):
TTTCTTCT
Found at i:4974759 original size:20 final size:19
Alignment explanation
Indices: 4974734--4974778 Score: 81
Period size: 19 Copynumber: 2.3 Consensus size: 19
4974724 TATATATTTC
4974734 TTCTTTTCTTCTTTTTCTTT
1 TTCTTTTCTTC-TTTTCTTT
4974754 TTCTTTTCTTCTTTTCTTT
1 TTCTTTTCTTCTTTTCTTT
4974773 TTCTTT
1 TTCTTT
4974779 CTTTTTGACA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 14 0.56
20 11 0.44
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (19 bp):
TTCTTTTCTTCTTTTCTTT
Found at i:4974770 original size:28 final size:29
Alignment explanation
Indices: 4974730--4974784 Score: 94
Period size: 28 Copynumber: 1.9 Consensus size: 29
4974720 ATTATATATA
4974730 TTTCTTCTTTTCTTCTT-TTTCTTTTTCT
1 TTTCTTCTTTTCTTCTTCTTTCTTTTTCT
*
4974758 TTTCTTCTTTTCTTTTTCTTTCTTTTT
1 TTTCTTCTTTTCTTCTTCTTTCTTTTT
4974785 GACAGCATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 16 0.64
29 9 0.36
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (29 bp):
TTTCTTCTTTTCTTCTTCTTTCTTTTTCT
Found at i:4976038 original size:22 final size:22
Alignment explanation
Indices: 4975994--4976038 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
4975984 TTTTTTTTCT
* *
4975994 TTAATAAAATAATAAAAATTAA
1 TTAATAAAATAAGAAAAAGTAA
* *
4976016 TTAATAAATTAAGAATAAGTAA
1 TTAATAAAATAAGAAAAAGTAA
4976038 T
1 T
4976039 AAAAATGAGA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.33
Consensus pattern (22 bp):
TTAATAAAATAAGAAAAAGTAA
Found at i:4976996 original size:20 final size:20
Alignment explanation
Indices: 4976967--4977006 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
4976957 CAAAAAGTCA
*
4976967 AAAAAAAAAAAAAACAAATTG
1 AAAAAAAAAAGAAA-AAATTG
*
4976988 AAAACAAAAAGAAAAAATT
1 AAAAAAAAAAGAAAAAATT
4977007 CATACATGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.80, C:0.05, G:0.05, T:0.10
Consensus pattern (20 bp):
AAAAAAAAAAGAAAAAATTG
Found at i:4988102 original size:47 final size:47
Alignment explanation
Indices: 4987988--4988142 Score: 220
Period size: 48 Copynumber: 3.3 Consensus size: 47
4987978 ACAAATGATT
* *
4987988 TTTTAAAGTTGTTAAGCCTTTACTGAGATGAGCTTTTTCAAGATGAAA
1 TTTTAAAGTTGTTAAGCCTCTACTGAGATGAGCTTTTTCAAGAT-TAA
* * *
4988036 TTTTAAAGTTGTTAAGCCTCTGCTGAGATGAGCTTTTTGAAAATTAA
1 TTTTAAAGTTGTTAAGCCTCTACTGAGATGAGCTTTTTCAAGATTAA
* *
4988083 TTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTTTCAAGATTAA
1 TTTTAAAGTTGTTAAGCCTCTACTGAGATGAGCTTTTTCAAGATTAA
*
4988130 TTTTTAAAATTGT
1 -TTTTAAAGTTGT
4988143 GGAGCATGAA
Statistics
Matches: 95, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
47 44 0.46
48 51 0.54
ACGTcount: A:0.30, C:0.10, G:0.19, T:0.41
Consensus pattern (47 bp):
TTTTAAAGTTGTTAAGCCTCTACTGAGATGAGCTTTTTCAAGATTAA
Found at i:4988240 original size:118 final size:118
Alignment explanation
Indices: 4988030--4988255 Score: 344
Period size: 118 Copynumber: 1.9 Consensus size: 118
4988020 CTTTTTCAAG
* * *
4988030 ATGAAATTTTAAAGTTGTTAAGCCTCTGCTGAGATGAGCTTTTTGAAAATTAATTTTAAAGTTGT
1 ATGAAATTTTAAAGTTGTTAAGCCTCTGCTGAGAGGAGCTTTTTCAAAATTAATTTTAAAGTTAT
* * * *
4988095 TGAGCCTCTACTGAGAGGAGCTTTTTCAAGATTAATTTTTAAAATTGTGGAGC
66 TGAGCATCTACTGAGAGGAGCTCTTTCAAGATGAAATTTTAAAATTGTGGAGC
* * *
4988148 ATGAATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAATATTAATTTTAAAGTTAT
1 ATGAAATTTTAAAGTTGTTAAGCCTCTGCTGAGAGGAGCTTTTTCAAAATTAATTTTAAAGTTAT
* *
4988213 TGAGCATTTGCTGAGAGGAGCTCTTTCAAGATGAAATTTTAAA
66 TGAGCATCTACTGAGAGGAGCTCTTTCAAGATGAAATTTTAAA
4988256 GTTATTGAGC
Statistics
Matches: 96, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
118 96 1.00
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (118 bp):
ATGAAATTTTAAAGTTGTTAAGCCTCTGCTGAGAGGAGCTTTTTCAAAATTAATTTTAAAGTTAT
TGAGCATCTACTGAGAGGAGCTCTTTCAAGATGAAATTTTAAAATTGTGGAGC
Found at i:4988273 original size:48 final size:48
Alignment explanation
Indices: 4988148--4988460 Score: 323
Period size: 48 Copynumber: 6.6 Consensus size: 48
4988138 ATTGTGGAGC
* *
4988148 ATGAATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAT
1 ATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAG
* * * * *
4988196 AT-TAATTTTAAAGTTATTGAGCATTTGCTGAGAGGAGCTCTTTCAAG
1 ATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAG
* *
4988243 ATGAAATTTTAAAGTTATTGAGCCTCTGCTGAGAGGTGCTTTTTCAAG
1 ATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAG
* * *
4988291 ATGAAATTTAAAAGTTATTGAGCCTCTGCTAAGAGGAGCATTTTT--A-
1 ATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGC-TTTTTCAAG
* * * * * * **
4988337 A-GAATTTTTAAAATTGTGGAGCCTTTACTTAGAAAAGCTTTTTCAAG
1 ATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAG
* * * *
4988384 ATGAATTTTTAAAGTTGTTGAGCCTTTGTTGAGAGAAGCATTTTTCTAAG
1 ATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGC-TTTTTC-AAG
*
4988434 AT-AGAATTTTAAAGTTGTCGAGCCTCT
1 ATGA-AATTTTAAAGTTGTTGAGCCTCT
4988461 ATTGAGAAGA
Statistics
Matches: 222, Mismatches: 34, Indels: 16
0.82 0.12 0.06
Matches are distributed among these distances:
44 5 0.02
45 27 0.12
46 2 0.01
47 42 0.19
48 109 0.49
49 12 0.05
50 25 0.11
ACGTcount: A:0.30, C:0.11, G:0.21, T:0.38
Consensus pattern (48 bp):
ATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAG
Found at i:4988651 original size:17 final size:19
Alignment explanation
Indices: 4988629--4988670 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
4988619 ATTATATATA
4988629 TTTTTTC-TTTTCTT-CTT
1 TTTTTTCTTTTTCTTGCTT
*
4988646 TTTTTTCTTTTTTTTGCTT
1 TTTTTTCTTTTTCTTGCTT
4988665 TTTTTT
1 TTTTTT
4988671 GACAACTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.32
18 6 0.27
19 9 0.41
ACGTcount: A:0.00, C:0.12, G:0.02, T:0.86
Consensus pattern (19 bp):
TTTTTTCTTTTTCTTGCTT
Found at i:4988653 original size:9 final size:9
Alignment explanation
Indices: 4988629--4988670 Score: 59
Period size: 9 Copynumber: 4.7 Consensus size: 9
4988619 ATTATATATA
4988629 TTTTTTC-T
1 TTTTTTCTT
*
4988637 TTTCTTCTT
1 TTTTTTCTT
4988646 TTTTTTCTT
1 TTTTTTCTT
4988655 TTTTTTGCTT
1 TTTTTT-CTT
4988665 TTTTTT
1 TTTTTT
4988671 GACAACTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
8 6 0.20
9 15 0.50
10 9 0.30
ACGTcount: A:0.00, C:0.12, G:0.02, T:0.86
Consensus pattern (9 bp):
TTTTTTCTT
Found at i:4988653 original size:12 final size:11
Alignment explanation
Indices: 4988629--4988670 Score: 50
Period size: 10 Copynumber: 3.7 Consensus size: 11
4988619 ATTATATATA
4988629 TTTTTTCTTTTC
1 TTTTTT-TTTTC
4988641 TTCTTTTTTTTC
1 TT-TTTTTTTTC
*
4988653 -TTTTTTTTGC
1 TTTTTTTTTTC
4988663 TTTTTTTT
1 TTTTTTTT
4988671 GACAACTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
10 8 0.30
11 8 0.30
12 7 0.26
13 4 0.15
ACGTcount: A:0.00, C:0.12, G:0.02, T:0.86
Consensus pattern (11 bp):
TTTTTTTTTTC
Found at i:4988671 original size:10 final size:10
Alignment explanation
Indices: 4988643--4988671 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
4988633 TTCTTTTCTT
4988643 CTTTTTTTT-
1 CTTTTTTTTG
4988652 CTTTTTTTTG
1 CTTTTTTTTG
4988662 CTTTTTTTTG
1 CTTTTTTTTG
4988672 ACAACTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.47
10 10 0.53
ACGTcount: A:0.00, C:0.10, G:0.07, T:0.83
Consensus pattern (10 bp):
CTTTTTTTTG
Found at i:4996074 original size:22 final size:22
Alignment explanation
Indices: 4996046--4996095 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
4996036 ATATATATTT
* *
4996046 TTATTTTTATCAAACTTATATA
1 TTATTTTTATCAAAATTATAAA
* *
4996068 TTATTTTTATTAAAATTTTAAA
1 TTATTTTTATCAAAATTATAAA
4996090 TTATTT
1 TTATTT
4996096 CACTTTCCTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (22 bp):
TTATTTTTATCAAAATTATAAA
Found at i:4997454 original size:14 final size:14
Alignment explanation
Indices: 4997430--4997471 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
4997420 GCCTCGTTTG
4997430 TTTTGTGAAAAATGA
1 TTTT-TGAAAAATGA
*
4997445 TTTTTGAAAAATAA
1 TTTTTGAAAAATGA
*
4997459 TTTTTAAAAAATG
1 TTTTTGAAAAATG
4997472 TTTACATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
14 20 0.83
15 4 0.17
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.43
Consensus pattern (14 bp):
TTTTTGAAAAATGA
Found at i:4997629 original size:26 final size:26
Alignment explanation
Indices: 4997600--4997662 Score: 83
Period size: 26 Copynumber: 2.5 Consensus size: 26
4997590 AACTATTAAA
*
4997600 ATATTAAAATTATTTATTATCAAAGT
1 ATATTAAAATTATTTATTATCAAACT
* *
4997626 ATATTGAAATTATTTATTATTAAACT
1 ATATTAAAATTATTTATTATCAAACT
*
4997652 -TATTAATATTA
1 ATATTAAAATTA
4997663 AAAAAATTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
25 9 0.28
26 23 0.72
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.49
Consensus pattern (26 bp):
ATATTAAAATTATTTATTATCAAACT
Found at i:4997810 original size:31 final size:30
Alignment explanation
Indices: 4997750--4997841 Score: 102
Period size: 31 Copynumber: 3.1 Consensus size: 30
4997740 TATTATTCTT
*
4997750 TATATTATTTATTAATATATTAATAATTAA
1 TATATTATTTAATAATATATTAATAATTAA
* * *
4997780 TATATTATATTAATAGTATATTATTTATTAA
1 TATATTAT-TTAATAATATATTAATAATTAA
4997811 TATATT-TTT-ATAATA-ATT-ATACATTAA
1 TATATTATTTAATAATATATTAATA-ATTAA
4997838 TATA
1 TATA
4997842 ATAATATTTA
Statistics
Matches: 53, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
26 1 0.02
27 12 0.23
28 5 0.09
29 2 0.04
30 9 0.17
31 24 0.45
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (30 bp):
TATATTATTTAATAATATATTAATAATTAA
Found at i:4997821 original size:18 final size:19
Alignment explanation
Indices: 4997759--4997812 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
4997749 TTATATTATT
* *
4997759 TATTAATATATTAATAAT-
1 TATTATTATATTAATAGTA
4997777 TAATATATTATATTAATAGTA
1 T-AT-TATTATATTAATAGTA
4997798 TATTATT-TATTAATA
1 TATTATTATATTAATA
4997813 TATTTTTATA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
18 9 0.29
19 6 0.19
20 15 0.48
21 1 0.03
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (19 bp):
TATTATTATATTAATAGTA
Found at i:4997889 original size:22 final size:22
Alignment explanation
Indices: 4997846--4997892 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
4997836 AATATAATAA
* * *
4997846 TATTTATTAATGTGATATTTTT
1 TATTTATTAATATAATAATTTT
*
4997868 TATTTATTACTATAATAATTTT
1 TATTTATTAATATAATAATTTT
4997890 TAT
1 TAT
4997893 AAAGAAAATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.62
Consensus pattern (22 bp):
TATTTATTAATATAATAATTTT
Found at i:4999350 original size:21 final size:22
Alignment explanation
Indices: 4999310--4999351 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
4999300 ATATTTTTGG
4999310 AAGAAAATTTATAAGGTGTATA
1 AAGAAAATTTATAAGGTGTATA
* *
4999332 AAGAAGATTT-TATGGTGTAT
1 AAGAAAATTTATAAGGTGTAT
4999352 TTAGAAGTCC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.43, C:0.00, G:0.21, T:0.36
Consensus pattern (22 bp):
AAGAAAATTTATAAGGTGTATA
Found at i:4999822 original size:18 final size:19
Alignment explanation
Indices: 4999801--4999838 Score: 69
Period size: 18 Copynumber: 2.1 Consensus size: 19
4999791 AAGCAACATG
4999801 ATTTATAATTTCAG-CAAA
1 ATTTATAATTTCAGCCAAA
4999819 ATTTATAATTTCAGCCAAA
1 ATTTATAATTTCAGCCAAA
4999838 A
1 A
4999839 ATACTTTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.45, C:0.13, G:0.05, T:0.37
Consensus pattern (19 bp):
ATTTATAATTTCAGCCAAA
Found at i:5000026 original size:64 final size:64
Alignment explanation
Indices: 4999864--5000091 Score: 232
Period size: 64 Copynumber: 3.6 Consensus size: 64
4999854 CCCTCAATAA
* * * * *
4999864 TATTGAAGGGATTATTAAAGGCATTTTTGGCTAAAAACGCCTTGAATAA-TTCACTTAACAAATT
1 TATTGAAGGGATTATTGAAGGCATTTTTGGCCAAAAATGCCTTGAATAATTTCTCATAA-AAATT
* * * **
4999928 T-TGGAAGGGATTATTGAAGACGTTTTTGATCAAAAATGCCTTGAATAATTTCTCATAAAAATT
1 TATTGAAGGGATTATTGAAGGCATTTTTGGCCAAAAATGCCTTGAATAATTTCTCATAAAAATT
** * * *
4999991 TATT-AAGGAGATTATTGAAGGTGTTTTTAGCCAAAAATACCTTAAATAATCCTT-T-ATAAAAA
1 TATTGAAGG-GATTATTGAAGGCATTTTTGGCCAAAAATGCCTTGAATAAT--TTCTCATAAAAA
5000053 TT
63 TT
* *
5000055 TATTGAAGGGATTATTTAAGGTATTTTTGGCCAAAAA
1 TATTGAAGGGATTATTGAAGGCATTTTTGGCCAAAAA
5000092 CGACTTAAAT
Statistics
Matches: 137, Mismatches: 21, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
63 49 0.36
64 81 0.59
65 5 0.04
66 2 0.01
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (64 bp):
TATTGAAGGGATTATTGAAGGCATTTTTGGCCAAAAATGCCTTGAATAATTTCTCATAAAAATT
Found at i:5000313 original size:20 final size:20
Alignment explanation
Indices: 5000288--5000326 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
5000278 CATAGCCTAA
*
5000288 TCTCCACGTCTCACCAACTT
1 TCTCCACCTCTCACCAACTT
5000308 TCTCCACCTCTCACCAACT
1 TCTCCACCTCTCACCAACT
5000327 CTACAAACTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.21, C:0.49, G:0.03, T:0.28
Consensus pattern (20 bp):
TCTCCACCTCTCACCAACTT
Found at i:5005210 original size:34 final size:34
Alignment explanation
Indices: 5005153--5005223 Score: 90
Period size: 34 Copynumber: 2.1 Consensus size: 34
5005143 TTAGTAGTGC
* * *
5005153 TTTTTACTATAAATGCTATTAAATTTAGTGACAT
1 TTTTTACTATAAACGCTACTAAATTTAGGGACAT
*
5005187 TTTTTACTATAAACG-TCACTAAATTTAGGGGCAT
1 TTTTTACTATAAACGCT-ACTAAATTTAGGGACAT
5005221 TTT
1 TTT
5005224 ATGATAAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 1 0.03
34 31 0.97
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.45
Consensus pattern (34 bp):
TTTTTACTATAAACGCTACTAAATTTAGGGACAT
Found at i:5005928 original size:16 final size:16
Alignment explanation
Indices: 5005903--5005937 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
5005893 AAAATAACTT
5005903 AAAATATGAAAATATAA
1 AAAATATG-AAATATAA
5005920 AAAAT-TGAAATATAA
1 AAAATATGAAATATAA
5005935 AAA
1 AAA
5005938 TAATGAACAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 11 0.61
16 2 0.11
17 5 0.28
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (16 bp):
AAAATATGAAATATAA
Found at i:5005944 original size:16 final size:16
Alignment explanation
Indices: 5005903--5005944 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
5005893 AAAATAACTT
5005903 AAAAT-ATGAAAATATA
1 AAAATAATG-AAATATA
*
5005919 AAAA-ATTGAAATATA
1 AAAATAATGAAATATA
5005934 AAAATAATGAA
1 AAAATAATGAA
5005945 CACTCAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 11 0.50
16 11 0.50
ACGTcount: A:0.69, C:0.00, G:0.07, T:0.24
Consensus pattern (16 bp):
AAAATAATGAAATATA
Found at i:5007889 original size:105 final size:105
Alignment explanation
Indices: 5007707--5007910 Score: 363
Period size: 105 Copynumber: 1.9 Consensus size: 105
5007697 AAATGGAAAG
* * *
5007707 ATTTGGCAAGGGAGGCCGCCATGGAAGGTGGATCCTTGGACATCAACCTTAAGGCTTTCGTAGAT
1 ATTTGGCAAGGGAGGCCGCCACGAAAGGTGGATCCTTGGACAACAACCTTAAGGCTTTCGTAGAT
5007772 GATGTTGCTCTAGGTTGCTAGTAAAGTTGAACTTGTGTTA
66 GATGTTGCTCTAGGTTGCTAGTAAAGTTGAACTTGTGTTA
*
5007812 ATTTGGCAAGGGAGGCGGCCACGAAAGGTGGATCCTTGGACAACAACCTTAAGGCTTTCGTAGAT
1 ATTTGGCAAGGGAGGCCGCCACGAAAGGTGGATCCTTGGACAACAACCTTAAGGCTTTCGTAGAT
*
5007877 GATGTTGCTCTAGGTTGCTAGTAAAGTTGTACTT
66 GATGTTGCTCTAGGTTGCTAGTAAAGTTGAACTT
5007911 TGTCATAAAA
Statistics
Matches: 94, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
105 94 1.00
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (105 bp):
ATTTGGCAAGGGAGGCCGCCACGAAAGGTGGATCCTTGGACAACAACCTTAAGGCTTTCGTAGAT
GATGTTGCTCTAGGTTGCTAGTAAAGTTGAACTTGTGTTA
Found at i:5008867 original size:15 final size:16
Alignment explanation
Indices: 5008847--5008880 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
5008837 TTAGTTTGAA
*
5008847 AATATAAAA-ATTTAT
1 AATATAAAATAATTAT
5008862 AATATAAAATAATTAT
1 AATATAAAATAATTAT
5008878 AAT
1 AAT
5008881 TTTAAAAGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
AATATAAAATAATTAT
Found at i:5009365 original size:16 final size:15
Alignment explanation
Indices: 5009337--5009371 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
5009327 CTAGACTTCC
*
5009337 TAAAAATAGAAAAAT
1 TAAAAATAAAAAAAT
5009352 TAAAAATTAAAAAAAT
1 TAAAAA-TAAAAAAAT
5009368 TAAA
1 TAAA
5009372 CTCTTCAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (15 bp):
TAAAAATAAAAAAAT
Found at i:5010792 original size:12 final size:14
Alignment explanation
Indices: 5010765--5010821 Score: 51
Period size: 15 Copynumber: 3.8 Consensus size: 14
5010755 ATATAAAATA
5010765 TTAATATATATTAT
1 TTAATATATATTAT
* *
5010779 TTAATTATTTATTTT
1 TTAA-TATATATTAT
5010794 TTATATAATATAATTAT
1 TTA-AT-ATAT-ATTAT
*
5010811 ATAATATATAT
1 TTAATATATAT
5010822 AAAAGTTATT
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
14 6 0.18
15 16 0.47
16 6 0.18
17 6 0.18
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
TTAATATATATTAT
Found at i:5010822 original size:24 final size:24
Alignment explanation
Indices: 5010768--5010822 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 24
5010758 TAAAATATTA
* * * *
5010768 ATATATATTATTTAATTATTTATT
1 ATATATATAATATAATTATATAAT
* *
5010792 TTTTATATAATATAATTATATAAT
1 ATATATATAATATAATTATATAAT
5010816 ATATATA
1 ATATATA
5010823 AAAGTTATTC
Statistics
Matches: 23, Mismatches: 8, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (24 bp):
ATATATATAATATAATTATATAAT
Found at i:5011073 original size:2 final size:2
Alignment explanation
Indices: 5011066--5011090 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
5011056 TCTATCATTA
5011066 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
5011091 ATGATCATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:5011709 original size:19 final size:19
Alignment explanation
Indices: 5011685--5011747 Score: 99
Period size: 19 Copynumber: 3.3 Consensus size: 19
5011675 ATATCAAATT
*
5011685 TTATAGTTCACACATCATC
1 TTATAGTCCACACATCATC
*
5011704 TTATAGTCCACACGTCATC
1 TTATAGTCCACACATCATC
5011723 TTATAGTCCACACATCATC
1 TTATAGTCCACACATCATC
*
5011742 TCATAG
1 TTATAG
5011748 GTTGAAAATG
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 40 1.00
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (19 bp):
TTATAGTCCACACATCATC
Found at i:5018826 original size:17 final size:17
Alignment explanation
Indices: 5018801--5018835 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
5018791 CATATTTTTA
*
5018801 TATATTTTTAATACAAT
1 TATACTTTTAATACAAT
*
5018818 TATACTTTTACTACAAT
1 TATACTTTTAATACAAT
5018835 T
1 T
5018836 GGATAAATTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.37, C:0.11, G:0.00, T:0.51
Consensus pattern (17 bp):
TATACTTTTAATACAAT
Found at i:5024619 original size:47 final size:47
Alignment explanation
Indices: 5024543--5024649 Score: 117
Period size: 47 Copynumber: 2.3 Consensus size: 47
5024533 ACACCCTATA
* * *
5024543 GGATTAGAGGAGATTAAGAGCATCTTTATGTGTATGTATATTTGAGT
1 GGATTAGAGGAGATTAAGAGCATCTTTATGAGTATGCATATTTAAGT
* ** *
5024590 GGATTAGAGGAGATTGAGATGGTTC-TTATGAGTGTGCATATTTAAGT
1 GGATTAGAGGAGATTAAGA-GCATCTTTATGAGTATGCATATTTAAGT
* *
5024637 AGATTAGGGGAGA
1 GGATTAGAGGAGA
5024650 ATGCGAAAGT
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
47 47 0.94
48 3 0.06
ACGTcount: A:0.30, C:0.04, G:0.32, T:0.35
Consensus pattern (47 bp):
GGATTAGAGGAGATTAAGAGCATCTTTATGAGTATGCATATTTAAGT
Found at i:5027348 original size:10 final size:10
Alignment explanation
Indices: 5027333--5027416 Score: 54
Period size: 10 Copynumber: 9.0 Consensus size: 10
5027323 CTAATTATCT
5027333 TTTTAATAAA
1 TTTTAATAAA
*
5027343 TTTTAATTAA
1 TTTTAATAAA
5027353 TTTT-A-AAA
1 TTTTAATAAA
*
5027361 TTTTATTAAA
1 TTTTAATAAA
* * **
5027371 --ATGATATG
1 TTTTAATAAA
*
5027379 TTTTAATATA
1 TTTTAATAAA
*
5027389 TTTTAATTAA
1 TTTTAATAAA
5027399 TTTT-A-AAA
1 TTTTAATAAA
5027407 TTTTAATAAA
1 TTTTAATAAA
5027417 AGGATCCCAT
Statistics
Matches: 54, Mismatches: 14, Indels: 12
0.68 0.17 0.15
Matches are distributed among these distances:
8 15 0.28
9 3 0.06
10 36 0.67
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (10 bp):
TTTTAATAAA
Found at i:5031033 original size:50 final size:48
Alignment explanation
Indices: 5030934--5031042 Score: 121
Period size: 49 Copynumber: 2.2 Consensus size: 48
5030924 ATTGAAATTT
* * *
5030934 ATTTTTATTTTTTATTTCTAAATTTTCCACCATTTGGGCTAATTCAAA
1 ATTTTTCTTTTTTATGTCTAAATTTTCCACCATTTGGGCTAATTAAAA
* * * *
5030982 ATTTTTCTTTTTTGATGTCTAACTTTTTCACCATTTTGGTCTATTTAAAA
1 ATTTTTCTTTTTT-ATGTCTAAATTTTCCACCA-TTTGGGCTAATTAAAA
*
5031032 A-TTCTCTTTTT
1 ATTTTTCTTTTT
5031043 CTTTTTTTTA
Statistics
Matches: 51, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
48 12 0.24
49 25 0.49
50 14 0.27
ACGTcount: A:0.23, C:0.15, G:0.06, T:0.56
Consensus pattern (48 bp):
ATTTTTCTTTTTTATGTCTAAATTTTCCACCATTTGGGCTAATTAAAA
Found at i:5032853 original size:15 final size:15
Alignment explanation
Indices: 5032829--5032863 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
5032819 CACAATTTGA
5032829 GTTCAAAATTCAAAG
1 GTTCAAAATTCAAAG
*
5032844 GTTCATAATTCAAAG
1 GTTCAAAATTCAAAG
*
5032859 ATTCA
1 GTTCA
5032864 CAAGAATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.31
Consensus pattern (15 bp):
GTTCAAAATTCAAAG
Found at i:5032878 original size:18 final size:18
Alignment explanation
Indices: 5032857--5032892 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
5032847 CATAATTCAA
5032857 AGATTCACAAGAATTTTT
1 AGATTCACAAGAATTTTT
**
5032875 AGATTTGCAAGAATTTTT
1 AGATTCACAAGAATTTTT
5032893 CAACTTTGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.36, C:0.08, G:0.14, T:0.42
Consensus pattern (18 bp):
AGATTCACAAGAATTTTT
Found at i:5032900 original size:19 final size:18
Alignment explanation
Indices: 5032864--5032908 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 18
5032854 CAAAGATTCA
5032864 CAAGAATTTTTAGATTTG
1 CAAGAATTTTTAGATTTG
5032882 CAAGAATTTTTCA-ACTTTG
1 CAAGAATTTTT-AGA-TTTG
5032901 CAAGAATT
1 CAAGAATT
5032909 CAGATTCACA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.48
19 13 0.52
ACGTcount: A:0.36, C:0.11, G:0.13, T:0.40
Consensus pattern (18 bp):
CAAGAATTTTTAGATTTG
Found at i:5032997 original size:8 final size:8
Alignment explanation
Indices: 5032976--5033065 Score: 105
Period size: 8 Copynumber: 11.2 Consensus size: 8
5032966 TCTTTTCTCT
*
5032976 ATTTTTTT
1 ATTTTTTC
5032984 ACTTTTTTC
1 A-TTTTTTC
5032993 ATTTTTTC
1 ATTTTTTC
5033001 ATTTTTTC
1 ATTTTTTC
5033009 A-TTTTTC
1 ATTTTTTC
5033016 ATTTTTTC
1 ATTTTTTC
5033024 ATTTTTTC
1 ATTTTTTC
5033032 A-TTTTTC
1 ATTTTTTC
*
5033039 TTTCTTTTTC
1 -AT-TTTTTC
*
5033049 A-TTGTTC
1 ATTTTTTC
5033056 ATTTTTTC
1 ATTTTTTC
5033064 AT
1 AT
5033066 CCATTATTAA
Statistics
Matches: 71, Mismatches: 5, Indels: 12
0.81 0.06 0.14
Matches are distributed among these distances:
7 19 0.27
8 39 0.55
9 7 0.10
10 6 0.08
ACGTcount: A:0.12, C:0.13, G:0.01, T:0.73
Consensus pattern (8 bp):
ATTTTTTC
Found at i:5033005 original size:15 final size:15
Alignment explanation
Indices: 5032987--5033065 Score: 97
Period size: 15 Copynumber: 5.1 Consensus size: 15
5032977 TTTTTTTACT
5032987 TTTTTCATTTTTTCA
1 TTTTTCATTTTTTCA
5033002 TTTTTTCA-TTTTTCA
1 -TTTTTCATTTTTTCA
5033017 TTTTTTCATTTTTTCA
1 -TTTTTCATTTTTTCA
*
5033033 TTTTTCTTTCTTTTTCA
1 TTTTTC-AT-TTTTTCA
*
5033050 TTGTTCATTTTTTCA
1 TTTTTCATTTTTTCA
5033065 T
1 T
5033066 CCATTATTAA
Statistics
Matches: 57, Mismatches: 3, Indels: 7
0.85 0.04 0.10
Matches are distributed among these distances:
15 29 0.51
16 16 0.28
17 12 0.21
ACGTcount: A:0.11, C:0.14, G:0.01, T:0.73
Consensus pattern (15 bp):
TTTTTCATTTTTTCA
Found at i:5033006 original size:23 final size:23
Alignment explanation
Indices: 5032978--5033061 Score: 107
Period size: 23 Copynumber: 3.6 Consensus size: 23
5032968 TTTTCTCTAT
*
5032978 TTTTTTACTTTTTTCATTTTTTCA
1 TTTTTT-CATTTTTCATTTTTTCA
5033002 TTTTTTCATTTTTCATTTTTTCA
1 TTTTTTCATTTTTCATTTTTTCA
*
5033025 TTTTTTCATTTTTCTTTCTTTTTCA
1 TTTTTTCATTTTTC-AT-TTTTTCA
*
5033050 -TTGTTCATTTTT
1 TTTTTTCATTTTT
5033062 TCATCCATTA
Statistics
Matches: 55, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
23 30 0.55
24 18 0.33
25 7 0.13
ACGTcount: A:0.11, C:0.13, G:0.01, T:0.75
Consensus pattern (23 bp):
TTTTTTCATTTTTCATTTTTTCA
Found at i:5033047 original size:40 final size:40
Alignment explanation
Indices: 5032949--5033065 Score: 121
Period size: 40 Copynumber: 2.8 Consensus size: 40
5032939 TAAGTATGCC
* *
5032949 TTTTCTCTCTTTTTACATCTTTTCTCTATTTTTTTACTTTTTTCAT
1 TTTTCTATCTTTTT-CA--TTTT-TC-ATTTTTTCA-TTTTTTCAT
5032995 TTTT-TCAT-TTTTTCATTTTTCATTTTTTCATTTTTTCAT
1 TTTTCT-ATCTTTTTCATTTTTCATTTTTTCATTTTTTCAT
* *
5033034 TTTTCTTTCTTTTTCATTGTTCATTTTTTCAT
1 TTTTCTATCTTTTTCATTTTTCATTTTTTCAT
5033066 CCATTATTAA
Statistics
Matches: 64, Mismatches: 4, Indels: 12
0.80 0.05 0.15
Matches are distributed among these distances:
39 14 0.22
40 31 0.48
41 2 0.03
42 4 0.06
44 2 0.03
45 6 0.09
46 5 0.08
ACGTcount: A:0.11, C:0.16, G:0.01, T:0.72
Consensus pattern (40 bp):
TTTTCTATCTTTTTCATTTTTCATTTTTTCATTTTTTCAT
Found at i:5037180 original size:46 final size:46
Alignment explanation
Indices: 5037076--5037165 Score: 135
Period size: 46 Copynumber: 2.0 Consensus size: 46
5037066 TTTATTTTTT
* *
5037076 ATTTCTAAATTTTCCACCATTTAGGTCAATTTAGAAATTTTCTTTG
1 ATTTCTAATTTTTCCACCATTTAGGTCAATTTAGAAATTCTCTTTG
* * *
5037122 ATTTCTAATTTTTTCACCATTTGGGTCTATTTAGAAATTCTCTT
1 ATTTCTAATTTTTCCACCATTTAGGTCAATTTAGAAATTCTCTT
5037166 CTTTTTGTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.26, C:0.16, G:0.09, T:0.50
Consensus pattern (46 bp):
ATTTCTAATTTTTCCACCATTTAGGTCAATTTAGAAATTCTCTTTG
Found at i:5037936 original size:15 final size:15
Alignment explanation
Indices: 5037902--5037944 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
5037892 TTCCCTTATA
*
5037902 TTTTC-CTTCTTACC
1 TTTTCTCTTCTTTCC
5037916 TCTTTCTCTTCTTTCC
1 T-TTTCTCTTCTTTCC
5037932 TTTTCTCTTCTTT
1 TTTTCTCTTCTTT
5037945 TATCTCTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 1 0.04
15 16 0.62
16 9 0.35
ACGTcount: A:0.02, C:0.33, G:0.00, T:0.65
Consensus pattern (15 bp):
TTTTCTCTTCTTTCC
Found at i:5038594 original size:14 final size:15
Alignment explanation
Indices: 5038568--5038602 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
5038558 AAAAAGTAAG
*
5038568 AAATAACAAACAAAT
1 AAATAACAAACAAAC
5038583 AAATAA-AAACAAAC
1 AAATAACAAACAAAC
5038597 AAATAA
1 AAATAA
5038603 TGGATAATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 13 0.68
15 6 0.32
ACGTcount: A:0.77, C:0.11, G:0.00, T:0.11
Consensus pattern (15 bp):
AAATAACAAACAAAC
Found at i:5038877 original size:49 final size:48
Alignment explanation
Indices: 5038802--5038960 Score: 185
Period size: 49 Copynumber: 3.2 Consensus size: 48
5038792 GAAAAAATGA
* * *
5038802 AAATTTTTAAAGTTTTTGAGCTTCTACTTAACGGAGCTTTTTCAAGATG
1 AAATTTTTAAAGTTTTT-AGCCTCTACTTAAAGGAGCTTTTACAAGATG
*
5038851 AAGTTTTTAAAGTTCTTTAGCCTCTACTTAAAGGAGCTTTTACAAGATG
1 AAATTTTTAAAGTT-TTTAGCCTCTACTTAAAGGAGCTTTTACAAGATG
* * * *
5038900 AAATTTTTAAAGTTGTTGAGCCTCTACTTAGAA-GAACTTTTTTTCAAGATA
1 AAATTTTTAAAGTT-TTTAGCCTCTACTTA-AAGGAGC--TTTTACAAGATG
5038951 AAATTTTTAA
1 AAATTTTTAA
5038961 TTAGAGCAGC
Statistics
Matches: 96, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
49 71 0.74
50 5 0.05
51 20 0.21
ACGTcount: A:0.32, C:0.12, G:0.14, T:0.42
Consensus pattern (48 bp):
AAATTTTTAAAGTTTTTAGCCTCTACTTAAAGGAGCTTTTACAAGATG
Found at i:5039052 original size:49 final size:49
Alignment explanation
Indices: 5038961--5039178 Score: 262
Period size: 49 Copynumber: 4.4 Consensus size: 49
5038951 AAATTTTTAA
* * * * *
5038961 TTAGAGCAGCTTTTTCCAAAATAAAAATTTTAAAGTTTTTGAGCCTCTGC
1 TTAGAGGAGC-TTTTCTAAAATAAAATTTTTAAAGTTGTTGAGCCTCTAC
* * *
5039011 TTAGAGGAGCTTTTCTAAGATGAAATTTTTAAAATTGTTGAG-CTCTAC
1 TTAGAGGAGCTTTTCTAAAATAAAATTTTTAAAGTTGTTGAGCCTCTAC
* *
5039059 TTAGAGGAGCTTTCCTAAAATAAAATTTTTAAAGTTATTGAGCCTCTAC
1 TTAGAGGAGCTTTTCTAAAATAAAATTTTTAAAGTTGTTGAGCCTCTAC
* * * *
5039108 TTAGATGAGCTTTTTTCAAGATAAAATTTTT-AAGTTGTTGAGCCTTTAC
1 TTAGAGGAGCTTTTCT-AAAATAAAATTTTTAAAGTTGTTGAGCCTCTAC
5039157 TTAGAGGAGCTCTTT-TAAAATA
1 TTAGAGGAGCT-TTTCTAAAATA
5039179 TTCAAGTGTT
Statistics
Matches: 144, Mismatches: 21, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
48 47 0.33
49 72 0.50
50 25 0.17
ACGTcount: A:0.32, C:0.12, G:0.16, T:0.39
Consensus pattern (49 bp):
TTAGAGGAGCTTTTCTAAAATAAAATTTTTAAAGTTGTTGAGCCTCTAC
Found at i:5039105 original size:97 final size:97
Alignment explanation
Indices: 5038973--5039167 Score: 286
Period size: 97 Copynumber: 2.0 Consensus size: 97
5038963 AGAGCAGCTT
* * *
5038973 TTTCCAAAATAAAAATTTTAAAGTTTTTGAGCCTCTGCTTAGAGGAGCTTTTCT-AAGATGAAAT
1 TTTCCAAAATAAAAATTTTAAAGTTATTGAGCCTCTACTTAGAGGAGCTTTTCTCAAGATAAAAT
5039037 TTTTAAAATTGTTGAG-CTCTACTTAGAGGAGC
66 TTTT-AAATTGTTGAGCCTCTACTTAGAGGAGC
* * *
5039069 TTTCCTAAAATAAAATTTTTAAAGTTATTGAGCCTCTACTTAGATGAGCTTTTTTCAAGATAAAA
1 TTTCC-AAAATAAAAATTTTAAAGTTATTGAGCCTCTACTTAGAGGAGCTTTTCTCAAGATAAAA
* *
5039134 TTTTTAAGTTGTTGAGCCTTTACTTAGAGGAGC
65 TTTTTAAATTGTTGAGCCTCTACTTAGAGGAGC
5039167 T
1 T
5039168 CTTTTAAAAT
Statistics
Matches: 88, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
96 5 0.06
97 54 0.61
98 29 0.33
ACGTcount: A:0.32, C:0.12, G:0.16, T:0.39
Consensus pattern (97 bp):
TTTCCAAAATAAAAATTTTAAAGTTATTGAGCCTCTACTTAGAGGAGCTTTTCTCAAGATAAAAT
TTTTAAATTGTTGAGCCTCTACTTAGAGGAGC
Found at i:5039111 original size:181 final size:182
Alignment explanation
Indices: 5038795--5039140 Score: 497
Period size: 181 Copynumber: 1.9 Consensus size: 182
5038785 GTTTCGAGAA
* * *
5038795 AAAATGAAAATTTTTAAAGTTTTTGAGCTTCTACTTAACGGAGCTTTTTCAAGATGAAGTTTTTA
1 AAAATGAAAAATTTTAAAGTTTTTGAGCCTCTACTTAACGGAGCTTTTTCAAGATGAAATTTTTA
* * * *
5038860 AAGTTCTTTAGCCTCTACTTAAAGGAGCTTTTACAAGATGAAATTTTTAAAGTTGTTGAGCCTCT
66 AAATTCTTGAGCCTCTACTTAAAGGAGCTTTTACAAGATAAAATTTTTAAAGTTATTGAGCCTCT
5038925 ACTTAGAAGAACTTTTTTTCAAGATAAAATTTTTAATTAGAGCAGCTTTTTCC
131 ACTTAGAAGAAC-TTTTTTCAAGATAAAATTTTTAATTAGAGCAGCTTTTTCC
*
5038978 AAAAT-AAAAATTTTAAAGTTTTTGAGCCTCTGCTTAGA-GGAGC-TTTTCTAAGATGAAATTTT
1 AAAATGAAAAATTTTAAAGTTTTTGAGCCTCTACTTA-ACGGAGCTTTTTC-AAGATGAAATTTT
* *
5039040 TAAAATTGTTGAG-CTCTACTTAGAGGAGCTTTCCTA-AA-ATAAAATTTTTAAAGTTATTGAGC
64 TAAAATTCTTGAGCCTCTACTTAAAGGAGCTTT--TACAAGATAAAATTTTTAAAGTTATTGAGC
* *
5039102 CTCTACTTAGATGAGCTTTTTTCAAGATAAAATTTTTAA
127 CTCTACTTAGAAGAACTTTTTTCAAGATAAAATTTTTAA
5039141 GTTGTTGAGC
Statistics
Matches: 147, Mismatches: 12, Indels: 11
0.86 0.07 0.06
Matches are distributed among these distances:
180 23 0.16
181 59 0.40
182 57 0.39
183 8 0.05
ACGTcount: A:0.34, C:0.12, G:0.15, T:0.40
Consensus pattern (182 bp):
AAAATGAAAAATTTTAAAGTTTTTGAGCCTCTACTTAACGGAGCTTTTTCAAGATGAAATTTTTA
AAATTCTTGAGCCTCTACTTAAAGGAGCTTTTACAAGATAAAATTTTTAAAGTTATTGAGCCTCT
ACTTAGAAGAACTTTTTTCAAGATAAAATTTTTAATTAGAGCAGCTTTTTCC
Found at i:5039208 original size:45 final size:45
Alignment explanation
Indices: 5039141--5039228 Score: 124
Period size: 45 Copynumber: 2.0 Consensus size: 45
5039131 AAATTTTTAA
* * * *
5039141 GTTGTTGAGCCTTTACTTAGAGGAGCTCTTTTAAAATATTCAAGT
1 GTTGTTAAGCCTCTACTTAGAGGAACCCTTTTAAAATATTCAAGT
5039186 GTTGTTAAGCCTCTA-TTCAGAGGAACCCTTTTAAAATATTCAA
1 GTTGTTAAGCCTCTACTT-AGAGGAACCCTTTTAAAATATTCAA
5039229 AAATCATTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
44 2 0.05
45 36 0.95
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.38
Consensus pattern (45 bp):
GTTGTTAAGCCTCTACTTAGAGGAACCCTTTTAAAATATTCAAGT
Done.