Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr6
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: 44797108
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 921406 characters in sequence are not A, C, G, or T
File 15 of 144
Found at i:3922468 original size:16 final size:16
Alignment explanation
Indices: 3922447--3922488 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
3922437 AATAATTTGA
*
3922447 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
3922463 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
3922479 TAGTTTTAAT
1 TAATTTTAAT
3922489 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:3922472 original size:22 final size:22
Alignment explanation
Indices: 3922462--3922516 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
3922452 TTACTAACAA
* * *
3922462 TTAATTTTAATAACAATTAGTT
1 TTAATTTTAATAAAAAATAATT
*
3922484 TTAATTTTATTAAAAAATAATT
1 TTAATTTTAATAAAAAATAATT
3922506 TTAATTTTAAT
1 TTAATTTTAAT
3922517 TTTAATTAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (22 bp):
TTAATTTTAATAAAAAATAATT
Found at i:3926143 original size:44 final size:44
Alignment explanation
Indices: 3926090--3926198 Score: 200
Period size: 44 Copynumber: 2.5 Consensus size: 44
3926080 AATAAATTTA
* *
3926090 ATTTGGACTGCCACATAGGACATCCAAGTTGACATTTAAAACCT
1 ATTTGGACTGTCACATAGAACATCCAAGTTGACATTTAAAACCT
3926134 ATTTGGACTGTCACATAGAACATCCAAGTTGACATTTAAAACCT
1 ATTTGGACTGTCACATAGAACATCCAAGTTGACATTTAAAACCT
3926178 ATTTGGACTGTCACATAGAAC
1 ATTTGGACTGTCACATAGAAC
3926199 TATTATTACG
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
44 63 1.00
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.28
Consensus pattern (44 bp):
ATTTGGACTGTCACATAGAACATCCAAGTTGACATTTAAAACCT
Found at i:3926790 original size:14 final size:14
Alignment explanation
Indices: 3926771--3926810 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
3926761 TTGATTGCCA
3926771 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
3926785 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
3926799 GGAAAATGTTTT
1 GTAAAATGTTTT
3926811 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:3926819 original size:20 final size:20
Alignment explanation
Indices: 3926794--3926833 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
3926784 CGTAAAATGA
*
3926794 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
3926814 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
3926834 AGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:3926823 original size:34 final size:35
Alignment explanation
Indices: 3926779--3926845 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
3926769 CAGTAAAATG
* *
3926779 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTAGAAAATATTTTAC
*
3926813 TTTTCTGTAAAATGATTTACTAGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTAGAAAATATTTT
3926846 CTGCTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTAGAAAATATTTTAC
Found at i:3929153 original size:18 final size:18
Alignment explanation
Indices: 3929132--3929175 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
3929122 CAAAAAAATA
3929132 AATATAATTAAAATATAT
1 AATATAATTAAAATATAT
* * *
3929150 AATAAAATTATATTATAT
1 AATATAATTAAAATATAT
*
3929168 AATTTAAT
1 AATATAAT
3929176 ATTATGAAAA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
AATATAATTAAAATATAT
Found at i:3930741 original size:18 final size:18
Alignment explanation
Indices: 3930718--3930762 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
3930708 TAATTCAAGG
3930718 TTTAATTAATTTAAAATT-
1 TTTAATTAA-TTAAAATTA
*
3930736 TTTAATTAATTAAATTTA
1 TTTAATTAATTAAAATTA
3930754 TTTAATTAA
1 TTTAATTAA
3930763 AAATCTATTC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 7 0.28
18 18 0.72
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTAATTAATTAAAATTA
Found at i:3934831 original size:11 final size:11
Alignment explanation
Indices: 3934795--3934824 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
3934785 CAATAACAAT
*
3934795 AAAATAATAGC
1 AAAATAATAAC
3934806 AAAATAATAAC
1 AAAATAATAAC
3934817 AAAATAAT
1 AAAATAAT
3934825 GAAAAAAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.70, C:0.07, G:0.03, T:0.20
Consensus pattern (11 bp):
AAAATAATAAC
Found at i:3952438 original size:21 final size:21
Alignment explanation
Indices: 3952412--3952452 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
3952402 ATCTGCTCAA
* *
3952412 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
3952433 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
3952453 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:3961659 original size:21 final size:21
Alignment explanation
Indices: 3961633--3961673 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
3961623 AGACGAGCAA
* *
3961633 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
3961654 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
3961674 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:3978468 original size:51 final size:52
Alignment explanation
Indices: 3978408--3978509 Score: 145
Period size: 52 Copynumber: 2.0 Consensus size: 52
3978398 CTAATGCATA
* * * *
3978408 CTTTAGCTTTGCAGCAAT-TT-TTTGTTTCAAAACGAGTGATGTAGGATAAGG
1 CTTTAGCTTTGCA-AAATGTTGTGTGTTTCAAAACAAGTGATGTAAGATAAGG
3978459 CTTTAGCTTTGCAAAATGTTGTGTGTTTCAAAACAAGTGATGTAAGATAAG
1 CTTTAGCTTTGCAAAATGTTGTGTGTTTCAAAACAAGTGATGTAAGATAAG
3978510 TAAGGAGAAG
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
50 3 0.07
51 15 0.33
52 27 0.60
ACGTcount: A:0.30, C:0.11, G:0.23, T:0.36
Consensus pattern (52 bp):
CTTTAGCTTTGCAAAATGTTGTGTGTTTCAAAACAAGTGATGTAAGATAAGG
Found at i:3992620 original size:9 final size:9
Alignment explanation
Indices: 3992606--3992636 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
3992596 GTTAAATGAA
3992606 TCGAGTTAT
1 TCGAGTTAT
*
3992615 TCGAGTTAA
1 TCGAGTTAT
3992624 TCGAGTTAT
1 TCGAGTTAT
3992633 TCGA
1 TCGA
3992637 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:3994082 original size:9 final size:9
Alignment explanation
Indices: 3994070--3994128 Score: 66
Period size: 9 Copynumber: 6.4 Consensus size: 9
3994060 AAAAATAAAA
*
3994070 AATTTGGGT
1 AATTCGGGT
3994079 AATTCGGGT
1 AATTCGGGT
*
3994088 ATTTTTC-GGT
1 A--ATTCGGGT
*
3994098 AATTCGGTT
1 AATTCGGGT
3994107 AATTCGGGT
1 AATTCGGGT
3994116 AATTCGGGT
1 AATTCGGGT
3994125 AATT
1 AATT
3994129 TTTAATCAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
8 3 0.07
9 32 0.76
10 4 0.10
11 3 0.07
ACGTcount: A:0.22, C:0.08, G:0.27, T:0.42
Consensus pattern (9 bp):
AATTCGGGT
Found at i:3997962 original size:24 final size:24
Alignment explanation
Indices: 3997935--3997986 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
3997925 TTAGTAGGTC
* *
3997935 AAATAAATTATACTAATAAATGCT
1 AAATAAATTAAACTAATAAATACT
* *
3997959 AAATATATTAAATTAATAAATACT
1 AAATAAATTAAACTAATAAATACT
3997983 AAAT
1 AAAT
3997987 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.58, C:0.06, G:0.02, T:0.35
Consensus pattern (24 bp):
AAATAAATTAAACTAATAAATACT
Found at i:4001862 original size:13 final size:13
Alignment explanation
Indices: 4001844--4001880 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
4001834 AGTTTGGCAA
4001844 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
4001857 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
*
4001870 TACTTTTGAAA
1 TGCTTTTGAAA
4001881 TTTTGAGTGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.30, C:0.08, G:0.22, T:0.41
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:4022627 original size:41 final size:40
Alignment explanation
Indices: 4022503--4022638 Score: 118
Period size: 40 Copynumber: 3.5 Consensus size: 40
4022493 ACCAGTTTGG
* * *
4022503 CACCTAGTGCCTCATCGGA-TAATTCGAAGTAATAAATTAA
1 CACCCAGTGCCTCATCGAATTAATCCGAAGTAA-AAATTAA
* * * * * * **
4022543 CACCCAATGTCTCATC-AGTTAAACTGAAGT--AAAGTGG
1 CACCCAGTGCCTCATCGAATTAATCCGAAGTAAAAATTAA
4022580 CACCCAGTGCCTCATCGAATTAATCCGAAGTAACAAATTAA
1 CACCCAGTGCCTCATCGAATTAATCCGAAGTAA-AAATTAA
*
4022621 CACCCAGTGTCTCATCGA
1 CACCCAGTGCCTCATCGA
4022639 CTCGAAGTCG
Statistics
Matches: 71, Mismatches: 20, Indels: 9
0.71 0.20 0.09
Matches are distributed among these distances:
37 18 0.25
38 11 0.15
40 21 0.30
41 21 0.30
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.24
Consensus pattern (40 bp):
CACCCAGTGCCTCATCGAATTAATCCGAAGTAAAAATTAA
Found at i:4022839 original size:24 final size:24
Alignment explanation
Indices: 4022794--4022840 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
4022784 TATATATACC
4022794 AATTCAATCAATATAAATTCAATA
1 AATTCAATCAATATAAATTCAATA
4022818 AATTC-ATCACATACTAAA-TCAAT
1 AATTCAATCA-ATA-TAAATTCAAT
4022841 CCATTTCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 4 0.19
24 13 0.62
25 4 0.19
ACGTcount: A:0.51, C:0.17, G:0.00, T:0.32
Consensus pattern (24 bp):
AATTCAATCAATATAAATTCAATA
Found at i:4028114 original size:27 final size:28
Alignment explanation
Indices: 4028073--4028128 Score: 87
Period size: 27 Copynumber: 2.0 Consensus size: 28
4028063 TATACTTAAC
* *
4028073 TTTTAAGTTTTAATA-TTATAATATATA
1 TTTTAACTTTAAATATTTATAATATATA
4028100 TTTTAACTTTAAATATTTATAATATATA
1 TTTTAACTTTAAATATTTATAATATATA
4028128 T
1 T
4028129 ACACTTATGC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 13 0.50
28 13 0.50
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (28 bp):
TTTTAACTTTAAATATTTATAATATATA
Found at i:4028134 original size:26 final size:25
Alignment explanation
Indices: 4028075--4028128 Score: 63
Period size: 28 Copynumber: 2.0 Consensus size: 25
4028065 TACTTAACTT
* *
4028075 TTAAGTTTTAATATTATAATATATA
1 TTAACTTTAAATATTATAATATATA
4028100 TTTTAACTTTAAATATTTATAATATATA
1 --TTAACTTTAAATA-TTATAATATATA
4028128 T
1 T
4028129 ACACTTATGC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 1 0.04
27 11 0.46
28 12 0.50
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (25 bp):
TTAACTTTAAATATTATAATATATA
Found at i:4033672 original size:14 final size:13
Alignment explanation
Indices: 4033646--4033670 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4033636 AAATTATTAA
4033646 AAATTATAAAAAT
1 AAATTATAAAAAT
4033659 AAATTATAAAAA
1 AAATTATAAAAA
4033671 ATTTAAATGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
AAATTATAAAAAT
Found at i:4037318 original size:6 final size:6
Alignment explanation
Indices: 4037309--4037335 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
4037299 AAATAAAAAA
4037309 AAATTG AAATTG AAATTG AAATTG AAA
1 AAATTG AAATTG AAATTG AAATTG AAA
4037336 AATGGCGAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.56, C:0.00, G:0.15, T:0.30
Consensus pattern (6 bp):
AAATTG
Found at i:4045714 original size:16 final size:16
Alignment explanation
Indices: 4045671--4045714 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 16
4045661 TTGGTTAGTT
* *
4045671 TAATATTTCTGCTTTT
1 TAATATTTCTTCTTTA
*
4045687 TAACTTTTTCTTCTTTA
1 TAA-TATTTCTTCTTTA
4045704 TAATATTTCTT
1 TAATATTTCTT
4045715 GGTTGTTGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 10 0.43
17 13 0.57
ACGTcount: A:0.20, C:0.14, G:0.02, T:0.64
Consensus pattern (16 bp):
TAATATTTCTTCTTTA
Found at i:4051244 original size:45 final size:44
Alignment explanation
Indices: 4051172--4051314 Score: 137
Period size: 44 Copynumber: 3.2 Consensus size: 44
4051162 NNNNNNNCTT
* * * * *
4051172 CGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTG
1 CGATCTACTTCCCACCAATATAGGAAGACAAGATCTGCTATCTG
* *
4051216 CGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGC-GTC-G
1 CGATCTACTTC-CCACCAATATAGGAAGACAAGATCTGCTATCTG
* * * * * *
4051259 TCGATCCACTTCCTACCAATATAGGAAGATAGGATCAGCTATCTT
1 -CGATCTACTTCCCACCAATATAGGAAGACAAGATCTGCTATCTG
4051304 CGATCTACTTC
1 CGATCTACTTC
4051315 TTGCCCCGGG
Statistics
Matches: 80, Mismatches: 15, Indels: 8
0.78 0.15 0.08
Matches are distributed among these distances:
43 23 0.29
44 35 0.44
45 22 0.28
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (44 bp):
CGATCTACTTCCCACCAATATAGGAAGACAAGATCTGCTATCTG
Found at i:4051437 original size:95 final size:95
Alignment explanation
Indices: 4051322--4051581 Score: 477
Period size: 95 Copynumber: 2.7 Consensus size: 95
4051312 TTCTTGCCCC
** *
4051322 GGGAGATAGAACTATCAGCTTCAATGTACTCCACTGTAATCAGGGAGGTAAAATCTGCCATCTTT
1 GGGAGATAGAGTTATCAGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTT
4051387 GATCTTCAATCTATTCCACTGCCAGATGCA
66 GATCTTCAATCTATTCCACTGCCAGATGCA
4051417 GGGAGATAGAGTTATCAGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATAC-T
1 GGGAGATAGAGTTATCAGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCAT-CTT
4051481 TGATCTTCAATCTATTCCACTGCCAGATGCA
65 TGATCTTCAATCTATTCCACTGCCAGATGCA
4051512 GGGAGATAGAGTTATCAGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTT
1 GGGAGATAGAGTTATCAGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTT
4051577 GATCT
66 GATCT
4051582 ACTTCGCTGC
Statistics
Matches: 160, Mismatches: 3, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
94 1 0.01
95 158 0.99
96 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (95 bp):
GGGAGATAGAGTTATCAGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTT
GATCTTCAATCTATTCCACTGCCAGATGCA
Found at i:4051648 original size:134 final size:135
Alignment explanation
Indices: 4051483--4051736 Score: 420
Period size: 134 Copynumber: 1.9 Consensus size: 135
4051473 GCCATACTTG
* *
4051483 ATCTTCAATCTATTCCACTGCCAGATGCAGGGAGATAGAGTTATCAGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAGATACAGGGAGATAGAGTTATCAGCTTCAATGTACTCCAATG
* *
4051548 TAGT-CAGGGAGGTAAAATCTGCCATCTTTGATCTACTTCGCTGCCAAATACAGGAAGGTAAGAT
66 TAGTACAGGGAAGTAAAATCTGCCATCTTTCATCTACTTCGCTGCCAAATACAGGAAGGTAAGAT
4051612 CTACA
131 CTACA
*
4051617 ATCTTCAATCTATTCCACTGCCAGATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCAATG
1 ATCTTCAATCTATTCCACTGCCAGATACAGGGAGATAGAGTTATCAGCTTCAATGTACTCCAATG
* * *
4051682 TGGTCACATGGAAGTAAAATCTGCCATCTTTCATCTGCTTCGCTGCCAAATACAG
66 TAGT-ACAGGGAAGTAAAATCTGCCATCTTTCATCTACTTCGCTGCCAAATACAG
4051737 AAAAGCAAGA
Statistics
Matches: 110, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
134 65 0.59
136 45 0.41
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.28
Consensus pattern (135 bp):
ATCTTCAATCTATTCCACTGCCAGATACAGGGAGATAGAGTTATCAGCTTCAATGTACTCCAATG
TAGTACAGGGAAGTAAAATCTGCCATCTTTCATCTACTTCGCTGCCAAATACAGGAAGGTAAGAT
CTACA
Found at i:4051842 original size:86 final size:86
Alignment explanation
Indices: 4051714--4052057 Score: 517
Period size: 86 Copynumber: 4.0 Consensus size: 86
4051704 GCCATCTTTC
* * * * *
4051714 ATCTGCTTCGCTGCCAAATACAGAAAAGCAAGATCTGATATCTTCAACCAGCTCTGCTACAAACG
1 ATCTGCTTCGCTGTC-AATGCAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTACTACAAACG
4051779 AGAGAGGCAAGGTTTGTCTTCG
65 AGAGAGGCAAGGTTTGTCTTCG
* * *
4051801 ATCTGCTTCGCTGTCAGTGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCTACTACAAACGT
1 ATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTACTACAAACGA
*
4051866 GAGTGGCAAGGTTTGTCTTCG
66 GAGAGGCAAGGTTTGTCTTCG
* *
4051887 ATCTGCTTCACTGTCAATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCTACTACAAACGA
1 ATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTACTACAAACGA
*
4051952 GAGTGGCAAGGTTTGTCTTCG
66 GAGAGGCAAGGTTTGTCTTCG
* * * * *
4051973 ATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGATAGCTTCAACTAGCTCTGCTACGACCGA
1 ATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTACTACAAACGA
*
4052038 GAGAGGCAAGGTTTATCTTC
66 GAGAGGCAAGGTTTGTCTTC
4052058 AATTTTTACT
Statistics
Matches: 236, Mismatches: 21, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
86 222 0.94
87 14 0.06
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (86 bp):
ATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTACTACAAACGA
GAGAGGCAAGGTTTGTCTTCG
Found at i:4051917 original size:42 final size:42
Alignment explanation
Indices: 4051783--4052003 Score: 107
Period size: 42 Copynumber: 5.2 Consensus size: 42
4051773 CAAACGAGAG
* *
4051783 AGGCAAGGTTTGTCTTCGATCTGCTTCGCTGTCAGTGCAGGA
1 AGGCAAGGTTTGTCTTCGATCTGCTTCACTGTCAATGCAGGA
* * * * * * *
4051825 AGGCAAGATCTGCTATCTTCAACCAGC-TCTACT-ACAA-AC-GTGA
1 AGGCAAGGT-T--TGTCTTCGATCTGCTTC-ACTGTCAATGCAG-GA
*
4051868 GTGGCAAGGTTTGTCTTCGATCTGCTTCACTGTCAATGCAGGA
1 -AGGCAAGGTTTGTCTTCGATCTGCTTCACTGTCAATGCAGGA
* * * * * * *
4051911 AGGCAAGATCTGCTATCTTCAACCAGC-TCTACT-ACAA-AC-GAGA
1 AGGCAAGGT-T--TGTCTTCGATCTGCTTC-ACTGTCAATGCAG-GA
* *
4051954 GTGGCAAGGTTTGTCTTCGATCTGCTTCGCTGTCAATGCAGGA
1 -AGGCAAGGTTTGTCTTCGATCTGCTTCACTGTCAATGCAGGA
4051997 AGGCAAG
1 AGGCAAG
4052004 ATCTGATAGC
Statistics
Matches: 124, Mismatches: 35, Indels: 40
0.62 0.18 0.20
Matches are distributed among these distances:
41 25 0.20
42 33 0.27
43 16 0.13
44 25 0.20
45 25 0.20
ACGTcount: A:0.24, C:0.24, G:0.25, T:0.27
Consensus pattern (42 bp):
AGGCAAGGTTTGTCTTCGATCTGCTTCACTGTCAATGCAGGA
Found at i:4052685 original size:108 final size:108
Alignment explanation
Indices: 4052485--4052691 Score: 281
Period size: 108 Copynumber: 1.9 Consensus size: 108
4052475 AAATGCTTGA
* *
4052485 AAAAGATTATCAAAATGGACAAAATGAAATTTTGTTGAGAGCAAAGCTCTAAACAAACAAATCAA
1 AAAAGATTATCAAAATGGACAAAATGAAAATTTGTTGAGAGCAAAACTCTAAACAAACAAATCAA
*
4052550 TCAAGATAGCAAATTTTGCTGAGATACAAGATGAATAAGATGG
66 TCAAGATAGCAAATTTTGCTGAGATACAAAATGAATAAGATGG
* * * * ** * *
4052593 AAAATATTATCACAATGGATAAGATGAAAATTTGTTGAGAGCAAAACTCTAAATGAACACATTAA
1 AAAAGATTATCAAAATGGACAAAATGAAAATTTGTTGAGAGCAAAACTCTAAACAAACAAATCAA
* *
4052658 TCAGGATAGCAAATTTTG-TTAGAATACAAAATGA
66 TCAAGATAGCAAATTTTGCTGAG-ATACAAAATGA
4052692 GAATAAATTA
Statistics
Matches: 85, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
107 3 0.04
108 82 0.96
ACGTcount: A:0.48, C:0.11, G:0.16, T:0.25
Consensus pattern (108 bp):
AAAAGATTATCAAAATGGACAAAATGAAAATTTGTTGAGAGCAAAACTCTAAACAAACAAATCAA
TCAAGATAGCAAATTTTGCTGAGATACAAAATGAATAAGATGG
Found at i:4053532 original size:15 final size:15
Alignment explanation
Indices: 4053493--4053547 Score: 60
Period size: 15 Copynumber: 3.7 Consensus size: 15
4053483 GAGGTTTTTC
*
4053493 TTTTATTTGTTT-AT
1 TTTTATTTTTTTGAT
*
4053507 TTGTT-TTTTTTTGCT
1 TT-TTATTTTTTTGAT
*
4053522 TTTTATTTTTTTTAT
1 TTTTATTTTTTTGAT
4053537 TTTTATTTTTT
1 TTTTATTTTTT
4053548 GCCTCCACTG
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
14 10 0.29
15 24 0.71
ACGTcount: A:0.09, C:0.02, G:0.05, T:0.84
Consensus pattern (15 bp):
TTTTATTTTTTTGAT
Found at i:4053545 original size:29 final size:29
Alignment explanation
Indices: 4053493--4053549 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
4053483 GAGGTTTTTC
*
4053493 TTTTATTTGTTTATTTGTTTTTTTTTGCT
1 TTTTATTTGTTTATTTGTTATTTTTTGCT
*
4053522 TTTTATTTTTTTTATTT-TTATTTTTTGC
1 TTTTA-TTTGTTTATTTGTTATTTTTTGC
4053550 CTCCACTGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 15 0.60
30 10 0.40
ACGTcount: A:0.09, C:0.04, G:0.07, T:0.81
Consensus pattern (29 bp):
TTTTATTTGTTTATTTGTTATTTTTTGCT
Found at i:4059613 original size:3 final size:3
Alignment explanation
Indices: 4059605--4059657 Score: 97
Period size: 3 Copynumber: 17.7 Consensus size: 3
4059595 TAGAATGACA
*
4059605 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAA AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
4059653 AAG AA
1 AAG AA
4059658 ATGGACGCAC
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:4060170 original size:15 final size:15
Alignment explanation
Indices: 4060113--4060170 Score: 64
Period size: 15 Copynumber: 3.7 Consensus size: 15
4060103 AATATTTTCC
4060113 TTTAATTAATTTAGAAA
1 TTTAATTAA-TTA-AAA
4060130 TTTCAATTAATT-AAA
1 TTT-AATTAATTAAAA
*
4060145 TTTATTTAATTAAAA
1 TTTAATTAATTAAAA
*
4060160 ATTAATTAATT
1 TTTAATTAATT
4060171 TATTTGGCTG
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
14 7 0.19
15 18 0.50
17 5 0.14
18 6 0.17
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (15 bp):
TTTAATTAATTAAAA
Found at i:4068493 original size:263 final size:263
Alignment explanation
Indices: 4068026--4068554 Score: 1031
Period size: 263 Copynumber: 2.0 Consensus size: 263
4068016 AGAAAGAGAA
4068026 AACTGCAAAGACTCAAAGACATAAGCAGCAGCTCGGAAATTGCATGATGGTATCGACATCACATG
1 AACTGCAAAGACTCAAAGACATAAGCAGCAGCTCGGAAATTGCATGATGGTATCGACATCACATG
*
4068091 ATTCTCAAATCCCACTAATAAGCATGTTTCATAATAAACATAAAATGTCCAAAAGATCCTTGCTT
66 ATTCTCAAATCCCACTAATAAGCATGTTTCATAATAAACATAAAATGCCCAAAAGATCCTTGCTT
4068156 TTTCTACCAGTAAGGACTCTTGAATATGAGCACCAACACAACAAACCCTAATAACCAGAAAATAA
131 TTTCTACCAGTAAGGACTCTTGAATATGAGCACCAACACAACAAACCCTAATAACCAGAAAATAA
4068221 AGCATATGGAAACAACATACATACAACATCGTTTACTACAATGGTTTCTTGAATCAGAAAAGGAA
196 AGCATATGGAAACAACATACATACAACATCGTTTACTACAATGGTTTCTTGAATCAGAAAAGGAA
4068286 AAT
261 AAT
4068289 AACTGCAAAGACTCAAAGACATAAGCAGCAGCTCGGAAATTGCATGATGGTATCGACATCACATG
1 AACTGCAAAGACTCAAAGACATAAGCAGCAGCTCGGAAATTGCATGATGGTATCGACATCACATG
4068354 ATTCTCAAATCCCACTAATAAGCATGTTTCATAATAAACATAAAATGCCCAAAAGATCCTTGCTT
66 ATTCTCAAATCCCACTAATAAGCATGTTTCATAATAAACATAAAATGCCCAAAAGATCCTTGCTT
4068419 TTTCTACCAGTAAGGACTCTTGAATATGAGCACCAACACAACAAACCCTAATAACCAGAAAATAA
131 TTTCTACCAGTAAGGACTCTTGAATATGAGCACCAACACAACAAACCCTAATAACCAGAAAATAA
* *
4068484 AGCATATGGAAACAATATACATACAACATCGTTTACTACAATGGTTTCTTGTATCAGAAAAGGAA
196 AGCATATGGAAACAACATACATACAACATCGTTTACTACAATGGTTTCTTGAATCAGAAAAGGAA
4068549 AAT
261 AAT
4068552 AAC
1 AAC
4068555 CTTTCTAAGT
Statistics
Matches: 263, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
263 263 1.00
ACGTcount: A:0.42, C:0.21, G:0.14, T:0.24
Consensus pattern (263 bp):
AACTGCAAAGACTCAAAGACATAAGCAGCAGCTCGGAAATTGCATGATGGTATCGACATCACATG
ATTCTCAAATCCCACTAATAAGCATGTTTCATAATAAACATAAAATGCCCAAAAGATCCTTGCTT
TTTCTACCAGTAAGGACTCTTGAATATGAGCACCAACACAACAAACCCTAATAACCAGAAAATAA
AGCATATGGAAACAACATACATACAACATCGTTTACTACAATGGTTTCTTGAATCAGAAAAGGAA
AAT
Found at i:4069914 original size:26 final size:27
Alignment explanation
Indices: 4069872--4069931 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 27
4069862 AAAAATAACT
*
4069872 AAAATATTATG-ACTTTTTTATTTACC
1 AAAATATTATGAATTTTTTTATTTACC
* *
4069898 AAAATATTATTAATTTTTTTATTTATC
1 AAAATATTATGAATTTTTTTATTTACC
4069925 AAAATAT
1 AAAATAT
4069932 ACCAAAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 10 0.33
27 20 0.67
ACGTcount: A:0.40, C:0.07, G:0.02, T:0.52
Consensus pattern (27 bp):
AAAATATTATGAATTTTTTTATTTACC
Found at i:4070210 original size:19 final size:19
Alignment explanation
Indices: 4070186--4070242 Score: 80
Period size: 19 Copynumber: 3.1 Consensus size: 19
4070176 TTTAATTAAG
4070186 TAATAACTCTATTTTAATT
1 TAATAACTCTATTTTAATT
* * *
4070205 TAATAA-ACTATTCTCATT
1 TAATAACTCTATTTTAATT
4070223 TAATAACTCTATTTTAATT
1 TAATAACTCTATTTTAATT
4070242 T
1 T
4070243 TAAAAAATTA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
18 15 0.48
19 16 0.52
ACGTcount: A:0.37, C:0.12, G:0.00, T:0.51
Consensus pattern (19 bp):
TAATAACTCTATTTTAATT
Found at i:4070350 original size:18 final size:19
Alignment explanation
Indices: 4070322--4070378 Score: 62
Period size: 18 Copynumber: 3.0 Consensus size: 19
4070312 CTAATTAAGC
*
4070322 AATAACTCTATTTTAATTT
1 AATAACACTATTTTAATTT
* *
4070341 AATAA-ACTATTCTCATTT
1 AATAACACTATTTTAATTT
*
4070359 AATAACTCTATTTTTAATTT
1 AATAACACTA-TTTTAATTT
4070379 TAAAAAAATT
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
18 15 0.50
19 8 0.27
20 7 0.23
ACGTcount: A:0.37, C:0.12, G:0.00, T:0.51
Consensus pattern (19 bp):
AATAACACTATTTTAATTT
Found at i:4071049 original size:27 final size:28
Alignment explanation
Indices: 4070996--4071060 Score: 114
Period size: 28 Copynumber: 2.4 Consensus size: 28
4070986 TTTTTTTGGT
*
4070996 ATATTTTGGTAAATAAAAAAATTTTATA
1 ATATTTTGGTAAATAAAAAAATGTTATA
4071024 ATATTTTGGTAAATAAAAAAA-GTTATA
1 ATATTTTGGTAAATAAAAAAATGTTATA
4071051 ATATTTTGGT
1 ATATTTTGGT
4071061 TATTTTTTAT
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
27 15 0.42
28 21 0.58
ACGTcount: A:0.46, C:0.00, G:0.11, T:0.43
Consensus pattern (28 bp):
ATATTTTGGTAAATAAAAAAATGTTATA
Found at i:4079372 original size:15 final size:16
Alignment explanation
Indices: 4079345--4079374 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
4079335 CTCTTATTCC
4079345 TCTTTTATTTTATAAT
1 TCTTTTATTTTATAAT
4079361 TCTTTT-TTTTATAA
1 TCTTTTATTTTATAA
4079375 AACAATTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (16 bp):
TCTTTTATTTTATAAT
Found at i:4092862 original size:45 final size:47
Alignment explanation
Indices: 4092785--4092879 Score: 126
Period size: 44 Copynumber: 2.1 Consensus size: 47
4092775 CATGTAAGCA
* *
4092785 TTTAATTATTTTTTAGTTTTAAAAAT-ATTTT-TATACTTTTTA-AAT
1 TTTAATGATTTTTTAATTTTAAAAATAATTTTATATA-TTTTTATAAT
4092830 TTTAATGA-TTTTTAATTTTAAAAATAAATTTTATATATTTTTATAAT
1 TTTAATGATTTTTTAATTTTAAAAAT-AATTTTATATATTTTTATAAT
4092877 TTT
1 TTT
4092880 TTAAATTTTA
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
44 16 0.36
45 7 0.16
46 11 0.25
47 10 0.23
ACGTcount: A:0.36, C:0.01, G:0.02, T:0.61
Consensus pattern (47 bp):
TTTAATGATTTTTTAATTTTAAAAATAATTTTATATATTTTTATAAT
Found at i:4094904 original size:19 final size:19
Alignment explanation
Indices: 4094864--4094904 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
4094854 TCTCTCAACA
* *
4094864 AAAAATCCAAAATATTTTT
1 AAAAATCCAAAATACTTAT
*
4094883 AAAAATTCAAAATACTTAT
1 AAAAATCCAAAATACTTAT
4094902 AAA
1 AAA
4094905 TTTTTTTAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.59, C:0.10, G:0.00, T:0.32
Consensus pattern (19 bp):
AAAAATCCAAAATACTTAT
Found at i:4094931 original size:29 final size:28
Alignment explanation
Indices: 4094873--4094933 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 28
4094863 AAAAAATCCA
4094873 AAATATTTTTAAAAATTCAAAATACTTAT
1 AAATATTTTTAAAAATTCAAAATAC-TAT
*
4094902 AAATTTTTTTAAAAATTCTAAAAATA-TAT
1 AAATATTTTTAAAAATTC--AAAATACTAT
4094931 AAA
1 AAA
4094934 GAAAGTTAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
29 23 0.79
31 6 0.21
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (28 bp):
AAATATTTTTAAAAATTCAAAATACTAT
Found at i:4098146 original size:3 final size:3
Alignment explanation
Indices: 4098138--4098172 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
4098128 GAGTAACAAA
4098138 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
4098173 CTATTTAACA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:4104406 original size:16 final size:16
Alignment explanation
Indices: 4104385--4104417 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
4104375 CAAAATTTAA
*
4104385 TTGTTAAAAGTACATT
1 TTGTTAAAAATACATT
4104401 TTGTTAAAAATACATT
1 TTGTTAAAAATACATT
4104417 T
1 T
4104418 AATGCCCTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.09, T:0.45
Consensus pattern (16 bp):
TTGTTAAAAATACATT
Found at i:4111735 original size:18 final size:19
Alignment explanation
Indices: 4111712--4111758 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
4111702 TCAATGATCC
4111712 AAAAATAAGT-AAACAATT
1 AAAAATAAGTCAAACAATT
* * *
4111730 AAAAATTAGTCAAATATTT
1 AAAAATAAGTCAAACAATT
*
4111749 AAAAAAAAGT
1 AAAAATAAGT
4111759 TAAAAATTTG
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
18 9 0.39
19 14 0.61
ACGTcount: A:0.64, C:0.04, G:0.06, T:0.26
Consensus pattern (19 bp):
AAAAATAAGTCAAACAATT
Found at i:4115564 original size:26 final size:25
Alignment explanation
Indices: 4115519--4115568 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
4115509 AGTCCTTAAT
*
4115519 CTTATATTTTTTTGTCAATTTGACA
1 CTTATATTTTTTTGTAAATTTGACA
4115544 CTTAT-TTTTTTTAGTTAAATTTGAC
1 CTTATATTTTTTT-G-TAAATTTGAC
4115569 CCTCAACTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 7 0.32
25 6 0.27
26 9 0.41
ACGTcount: A:0.24, C:0.10, G:0.08, T:0.58
Consensus pattern (25 bp):
CTTATATTTTTTTGTAAATTTGACA
Found at i:4116407 original size:89 final size:88
Alignment explanation
Indices: 4116215--4116421 Score: 211
Period size: 89 Copynumber: 2.3 Consensus size: 88
4116205 AAAAGTCTTT
* * * *
4116215 AAACTTTTTCAAAAAAAGCTATTAAGCTCCTGCTTTTTTTTGTACACATTTGGGCACTTAAACAT
1 AAACTTTTTAAAAAAAAGTTATTAAGC-CCTACTTTTTTTTGTACACAATTGGGCACTTAAACAT
* * * *
4116280 TTAAAATGCATCAAAAAGGCCTTT
65 TTAAAATGCATAAAAAAGACCCTC
** * * * *
4116304 AAACCCTTT-CAAAAAAGTTATTAAGCCCTTACTTTTTTTT-TGCAGTCAATTGGGTACTTGAAC
1 AAACTTTTTAAAAAAAAGTTATTAAGCCC-TACTTTTTTTTGTACA--CAATTGGGCACTTAAAC
* *
4116367 TTTTGAAATGCATAAAAAAGACCCTC
63 ATTTAAAATGCATAAAAAAGACCCTC
*
4116393 AAACTTTTTAAAAAAAAGTAATTAAGCCC
1 AAACTTTTTAAAAAAAAGTTATTAAGCCC
4116422 ATGTTTTTAT
Statistics
Matches: 95, Mismatches: 19, Indels: 7
0.79 0.16 0.06
Matches are distributed among these distances:
87 5 0.05
88 25 0.26
89 48 0.51
90 17 0.18
ACGTcount: A:0.37, C:0.18, G:0.11, T:0.34
Consensus pattern (88 bp):
AAACTTTTTAAAAAAAAGTTATTAAGCCCTACTTTTTTTTGTACACAATTGGGCACTTAAACATT
TAAAATGCATAAAAAAGACCCTC
Found at i:4116575 original size:72 final size:72
Alignment explanation
Indices: 4116429--4116571 Score: 166
Period size: 72 Copynumber: 2.0 Consensus size: 72
4116419 CCCATGTTTT
* * * **
4116429 TATTAAAAATTATAAAAAAATTAAAATCAATAAAAGATATAAATATTATTAAATTTTAATAAAAA
1 TATTAAAAATTAGAAAAAAATCAAAATCAAGAAAAGATATAAATATTATTAAATAGTAATAAAAA
4116494 ATTCAAA
66 ATTCAAA
* * * *
4116501 TATTAAAAATTAGAAAAAAATACAAAATCTAGAAAATATA-AAATTTTA-TAAA-AGTCATAAAA
1 TATTAAAAATTAGAAAAAAAT-CAAAATCAAGAAAAGATATAAATATTATTAAATAGTAATAAAA
4116563 AATTACAAA
65 AATT-CAAA
4116572 ATATATAGAT
Statistics
Matches: 60, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
70 11 0.18
71 8 0.13
72 27 0.45
73 14 0.23
ACGTcount: A:0.63, C:0.04, G:0.03, T:0.30
Consensus pattern (72 bp):
TATTAAAAATTAGAAAAAAATCAAAATCAAGAAAAGATATAAATATTATTAAATAGTAATAAAAA
ATTCAAA
Found at i:4117527 original size:51 final size:51
Alignment explanation
Indices: 4117445--4117703 Score: 329
Period size: 51 Copynumber: 5.2 Consensus size: 51
4117435 ACTTCTGATC
* * *
4117445 AGTGACAAGTGATAAGTGATAGCTTCAGCTACACTTATCTTATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
**
4117496 AGTGGTAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
** *
4117547 AGTGACAAGTGATAAGTGGTAGCTTTAATTACACTTATCTAATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
*
4117598 AGTGGCAAGTG---A----TAGCTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
* * *
4117642 AGT-ACAAGTGATAACTGGTAGCTTTAGCTATACTTATCTTATCAAG-GACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATC-AGTGACA
*
4117692 AGTGATAAGTGA
1 AGTGACAAGTGA
4117704 CCATATGTAA
Statistics
Matches: 181, Mismatches: 18, Indels: 18
0.83 0.08 0.08
Matches are distributed among these distances:
43 6 0.03
44 32 0.18
46 1 0.01
48 1 0.01
50 30 0.17
51 111 0.61
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.31
Consensus pattern (51 bp):
AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
Found at i:4120653 original size:50 final size:50
Alignment explanation
Indices: 4120529--4120777 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
4120519 GATAATAACA
* * ** * *
4120529 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
4120580 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
4120630 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
4120680 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
4120735 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
4120778 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:4120707 original size:100 final size:104
Alignment explanation
Indices: 4120528--4120777 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
4120518 TGATAATAAC
**
4120528 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
4120593 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
4120630 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
4120693 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
4120735 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
4120778 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:4120893 original size:13 final size:13
Alignment explanation
Indices: 4120872--4120903 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
4120862 GCTTGGATCA
*
4120872 TCATCAAATAAAT
1 TCATAAAATAAAT
4120885 TCATAAAATAAAT
1 TCATAAAATAAAT
4120898 TCATAA
1 TCATAA
4120904 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:4121150 original size:30 final size:30
Alignment explanation
Indices: 4121115--4121172 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
4121105 CCTCGACTCT
*
4121115 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
4121145 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
4121173 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:4128247 original size:50 final size:50
Alignment explanation
Indices: 4128123--4128371 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
4128113 GATAATAACA
* * ** * *
4128123 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
4128174 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
4128224 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
4128274 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
4128329 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
4128372 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:4128301 original size:100 final size:104
Alignment explanation
Indices: 4128122--4128371 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
4128112 TGATAATAAC
**
4128122 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
4128187 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
4128224 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
4128287 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
4128329 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
4128372 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:4128487 original size:13 final size:13
Alignment explanation
Indices: 4128466--4128497 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
4128456 GCTTGGATCA
*
4128466 TCATCAAATAAAT
1 TCATAAAATAAAT
4128479 TCATAAAATAAAT
1 TCATAAAATAAAT
4128492 TCATAA
1 TCATAA
4128498 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:4128744 original size:30 final size:30
Alignment explanation
Indices: 4128709--4128766 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
4128699 CCTCGACTCT
*
4128709 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
4128739 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
4128767 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:4134203 original size:51 final size:51
Alignment explanation
Indices: 4134118--4134552 Score: 458
Period size: 51 Copynumber: 8.3 Consensus size: 51
4134108 ACTTCTGATC
* *
4134118 AGTGACAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
*
4134169 AGTGACAAGTGATAAGTGGTAGCTTTAGCCACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
* * * * * *
4134220 AGTGGCGAGTGATAATTGATAGCTTCAACTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
**
4134271 AGTGGTAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
* *
4134322 AGTGACAAGTGATCAGTGGTAGCTTTAGCTACACTTATCTTATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
* * ** * * * * **
4134373 AGTGGCAAGTGATAAGTGACAAGTGATAAG-TGGTAGCTTTAGTTACACTTATCTGATCAGTGA
1 AGTGACAAGTGATAAGT-----G-G-T-AGCT-TTAGCTACACTTA-TCTGATCAG-T--GACA
* * *
4134436 CAAGTGGCAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAGTGACA
1 --AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
* * *
4134489 AGTGACAAGTGATAACTGGTAGCTTTAGCTATACTTATCTGATCAGAGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
*
4134540 AGTGATAAGTGAT
1 AGTGACAAGTGAT
4134553 CATATGTAAG
Statistics
Matches: 320, Mismatches: 48, Indels: 32
0.80 0.12 0.08
Matches are distributed among these distances:
51 256 0.80
53 2 0.01
55 1 0.00
56 7 0.02
57 11 0.03
58 4 0.01
59 11 0.03
60 8 0.03
61 1 0.00
63 2 0.01
65 17 0.05
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (51 bp):
AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
Found at i:4134281 original size:102 final size:102
Alignment explanation
Indices: 4134118--4134552 Score: 582
Period size: 102 Copynumber: 4.1 Consensus size: 102
4134108 ACTTCTGATC
*
4134118 AGTGACAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAGTGACAAGTGACAAGTGATA
1 AGTGGCAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAGTGACAAGTGACAAGTGATA
*
4134183 AGTGGTAGCTTTAGCCACACTTATCTGATCAGTGACA
66 AGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
* * * **
4134220 AGTGGCGAGTGATAATTGATAGCTTCAACTACACTTATCTGATCAGTGACAAGTGGTAAGTGATA
1 AGTGGCAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAGTGACAAGTGACAAGTGATA
4134285 AGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
66 AGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
* * * * *
4134322 AGTGACAAGTGATCAGTGGTAGCTTTAGCTACACTTATCTTATCAGTGACAAGTGGCAAGTGATA
1 AGTGGCAAGTGATAAGTGATAGCTTCAGCT--AC--A-CTTATC--TG---A-T--C-AGTGACA
*
4134387 AGTGACAAGTGATAAGTGGTAGCTTTAGTTACACTTATCTGATCAGTGACA
52 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
4134438 AGTGGCAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAGTGACAAGTGACAAGTGATA
1 AGTGGCAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAGTGACAAGTGACAAGTGATA
* * *
4134503 ACTGGTAGCTTTAGCTATACTTATCTGATCAGAGACA
66 AGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
**
4134540 AGTGATAAGTGAT
1 AGTGGCAAGTGAT
4134553 CATATGTAAG
Statistics
Matches: 290, Mismatches: 29, Indels: 28
0.84 0.08 0.08
Matches are distributed among these distances:
102 182 0.63
103 1 0.00
104 2 0.01
105 1 0.00
106 2 0.01
107 6 0.02
109 4 0.01
111 6 0.02
112 2 0.01
113 1 0.00
114 2 0.01
115 1 0.00
116 80 0.28
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (102 bp):
AGTGGCAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAGTGACAAGTGACAAGTGATA
AGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
Found at i:4134381 original size:7 final size:7
Alignment explanation
Indices: 4134366--4134404 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
4134356 TTATCTTATC
4134366 AGTGACA
1 AGTGACA
*
4134373 AGTGGCA
1 AGTGACA
*
4134380 AGTGATA
1 AGTGACA
4134387 AGTGACA
1 AGTGACA
*
4134394 AGTGATA
1 AGTGACA
4134401 AGTG
1 AGTG
4134405 GTAGCTTTAG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.38, C:0.08, G:0.33, T:0.21
Consensus pattern (7 bp):
AGTGACA
Found at i:4134389 original size:14 final size:14
Alignment explanation
Indices: 4134366--4134405 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
4134356 TTATCTTATC
*
4134366 AGTGACAAGTGGCA
1 AGTGATAAGTGGCA
*
4134380 AGTGATAAGTGACA
1 AGTGATAAGTGGCA
4134394 AGTGATAAGTGG
1 AGTGATAAGTGG
4134406 TAGCTTTAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.38, C:0.07, G:0.35, T:0.20
Consensus pattern (14 bp):
AGTGATAAGTGGCA
Found at i:4134390 original size:65 final size:65
Alignment explanation
Indices: 4134315--4134456 Score: 248
Period size: 65 Copynumber: 2.2 Consensus size: 65
4134305 TTATCTGATC
* * *
4134315 AGTGACAAGTGACAAGTGATCAGTGGTAGCTTTAGCTACACTTATCTTATCAGTGACAAGTGGCA
1 AGTGATAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGGCA
*
4134380 AGTGATAAGTGACAAGTGATAAGTGGTAGCTTTAGTTACACTTATCTGATCAGTGACAAGTGGCA
1 AGTGATAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGGCA
4134445 AGTGATAAGTGA
1 AGTGATAAGTGA
4134457 TAGCTTCAGC
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
65 73 1.00
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.28
Consensus pattern (65 bp):
AGTGATAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGGCA
Found at i:4134397 original size:116 final size:116
Alignment explanation
Indices: 4134277--4134503 Score: 391
Period size: 116 Copynumber: 2.0 Consensus size: 116
4134267 GACAAGTGGT
* *
4134277 AAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGACAAGTGATCAGTGGT
1 AAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGACAAGTGATAAGTGAT
* * *
4134342 AGCTTTAGCTACACTTATCTTATCAGTGACAAGTGGCAAGTGATAAGTGAC
66 AGCTTCAGCTACACTTATCTGATCAGTGACAAGTGACAAGTGATAAGTGAC
* *
4134393 AAGTGATAAGTGGTAGCTTTAGTTACACTTATCTGATCAGTGACAAGTGGCAAGTGATAAGTGAT
1 AAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGACAAGTGATAAGTGAT
4134458 AGCTTCAGCTACACTTATCTGATCAGTGACAAGTGACAAGTGATAA
66 AGCTTCAGCTACACTTATCTGATCAGTGACAAGTGACAAGTGATAA
4134504 CTGGTAGCTT
Statistics
Matches: 104, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
116 104 1.00
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (116 bp):
AAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGACAAGTGATAAGTGAT
AGCTTCAGCTACACTTATCTGATCAGTGACAAGTGACAAGTGATAAGTGAC
Found at i:4134427 original size:167 final size:167
Alignment explanation
Indices: 4134213--4134552 Score: 518
Period size: 167 Copynumber: 2.0 Consensus size: 167
4134203 TTATCTGATC
* * * * *
4134213 AGTGACAAGTGGCGAGTGATAATTGATAGCTTCAACTACACTTATCTGATCAGTGACAAGTGGTA
1 AGTGATAAGTGACAAGTGATAAGTGATAGCTTCAACTACACTTATCTGATCAGTGACAAGTGGCA
* * * *
4134278 AGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGACAAGTGATCAGTGGTA
66 AGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAGTGACAAGTGACAAGTGATAACTGGTA
* * *
4134343 GCTTTAGCTACACTTATCTTATCAGTGACAAGTGGCA
131 GCTTTAGCTACACTTATCTGATCAGAGACAAGTGACA
* * **
4134380 AGTGATAAGTGACAAGTGATAAGTGGTAGCTTTAGTTACACTTATCTGATCAGTGACAAGTGGCA
1 AGTGATAAGTGACAAGTGATAAGTGATAGCTTCAACTACACTTATCTGATCAGTGACAAGTGGCA
4134445 AGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAGTGACAAGTGACAAGTGATAACTGGTA
66 AGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAGTGACAAGTGACAAGTGATAACTGGTA
* *
4134510 GCTTTAGCTATACTTATCTGATCAGAGACAAGTGATA
131 GCTTTAGCTACACTTATCTGATCAGAGACAAGTGACA
4134547 AGTGAT
1 AGTGAT
4134553 CATATGTAAG
Statistics
Matches: 155, Mismatches: 18, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
167 155 1.00
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (167 bp):
AGTGATAAGTGACAAGTGATAAGTGATAGCTTCAACTACACTTATCTGATCAGTGACAAGTGGCA
AGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAGTGACAAGTGACAAGTGATAACTGGTA
GCTTTAGCTACACTTATCTGATCAGAGACAAGTGACA
Found at i:4134491 original size:218 final size:218
Alignment explanation
Indices: 4134162--4134554 Score: 678
Period size: 218 Copynumber: 1.8 Consensus size: 218
4134152 TTATCTGATC
*
4134162 AGTGACAAGTGACAAGTGATAAGTGGTAGCTTTAGCCACACTTATCTGATCAGTGACAAGTGGCG
1 AGTGACAAGTGACAAGTGATAAGTGGTAGCTTTAGCCACACTTATCTGATCAGTGACAAGTGGCA
* ** *
4134227 AGTGATAATTGATAGCTTCAACTACACTTATCTGATCAGTGACAAGTGGTAAGTGATAAGTGGTA
66 AGTGATAAGTGATAGCTTCAACTACACTTATCTGATCAGTGACAAGTGACAAGTGATAACTGGTA
*
4134292 GCTTTAGCTACACTTATCTGATCAGTGACAAGTGACAAGTGATCAGTGGTAGCTTTAGCTACACT
131 GCTTTAGCTACACTTATCTGATCAGAGACAAGTGACAAGTGATCAGTGGTAGCTTTAGCTACACT
4134357 TATCTTATCAGTGACAAGTGGCA
196 TATCTTATCAGTGACAAGTGGCA
* **
4134380 AGTGATAAGTGACAAGTGATAAGTGGTAGCTTTAGTTACACTTATCTGATCAGTGACAAGTGGCA
1 AGTGACAAGTGACAAGTGATAAGTGGTAGCTTTAGCCACACTTATCTGATCAGTGACAAGTGGCA
*
4134445 AGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAGTGACAAGTGACAAGTGATAACTGGTA
66 AGTGATAAGTGATAGCTTCAACTACACTTATCTGATCAGTGACAAGTGACAAGTGATAACTGGTA
* *
4134510 GCTTTAGCTATACTTATCTGATCAGAGACAAGTGATAAGTGATCA
131 GCTTTAGCTACACTTATCTGATCAGAGACAAGTGACAAGTGATCA
4134555 TATGTAAGAC
Statistics
Matches: 163, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
218 163 1.00
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.29
Consensus pattern (218 bp):
AGTGACAAGTGACAAGTGATAAGTGGTAGCTTTAGCCACACTTATCTGATCAGTGACAAGTGGCA
AGTGATAAGTGATAGCTTCAACTACACTTATCTGATCAGTGACAAGTGACAAGTGATAACTGGTA
GCTTTAGCTACACTTATCTGATCAGAGACAAGTGACAAGTGATCAGTGGTAGCTTTAGCTACACT
TATCTTATCAGTGACAAGTGGCA
Found at i:4135682 original size:37 final size:37
Alignment explanation
Indices: 4135614--4135686 Score: 103
Period size: 37 Copynumber: 2.0 Consensus size: 37
4135604 GGGTCGTTAG
* **
4135614 TTTTTTATGATTTTTATAAAAGTTTACAATTTTTTAT
1 TTTTTTACGATTTTTATAAAAAATTACAATTTTTTAT
4135651 TTTTTTACGATTTTTATAAAAAATT-CTAATTTTTTA
1 TTTTTTACGATTTTTATAAAAAATTAC-AATTTTTTA
4135687 AAATTTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
36 1 0.03
37 31 0.97
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.60
Consensus pattern (37 bp):
TTTTTTACGATTTTTATAAAAAATTACAATTTTTTAT
Found at i:4135684 original size:29 final size:30
Alignment explanation
Indices: 4135651--4135723 Score: 87
Period size: 29 Copynumber: 2.5 Consensus size: 30
4135641 AATTTTTTAT
** *
4135651 TTTTTTACGATTTTTATAAAAAATT-CTAA
1 TTTTTTAAAATTTTTATAAAAAATTAATAA
*
4135680 TTTTTTAAAATTTTTATTAAAAATTAATAA
1 TTTTTTAAAATTTTTATAAAAAATTAATAA
4135710 TTTTTCT-AAATTTT
1 TTTTT-TAAAATTTT
4135724 ATTATTTATT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
29 22 0.58
30 15 0.39
31 1 0.03
ACGTcount: A:0.38, C:0.04, G:0.01, T:0.56
Consensus pattern (30 bp):
TTTTTTAAAATTTTTATAAAAAATTAATAA
Found at i:4135929 original size:68 final size:68
Alignment explanation
Indices: 4135789--4135916 Score: 163
Period size: 67 Copynumber: 1.9 Consensus size: 68
4135779 TTTGAAAAAA
* * *
4135789 TTTGAGGGTCTTTTTTTATGCATGTTGAAAATTCAAGTACCCAATTGAGTAGAAAAAATAAGCAA
1 TTTGAGGGTCCTTTTTGATGCATGTTGAAAATTCAAGTACCCAATTGAGTAGAAAAAAAAAGCAA
4135854 GGG
66 GGG
* * *
4135857 TTTGAGGG-CCTTTTTGATGCAT-TTTAAAAGTTCAAGTGCTCAATTGAGT-GCAAAAAAAAA
1 TTTGAGGGTCCTTTTTGATGCATGTTGAAAA-TTCAAGTACCCAATTGAGTAG-AAAAAAAAA
4135917 AGGAGGGGTT
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
66 7 0.13
67 37 0.71
68 8 0.15
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.33
Consensus pattern (68 bp):
TTTGAGGGTCCTTTTTGATGCATGTTGAAAATTCAAGTACCCAATTGAGTAGAAAAAAAAAGCAA
GGG
Found at i:4143657 original size:31 final size:32
Alignment explanation
Indices: 4143616--4143688 Score: 105
Period size: 31 Copynumber: 2.3 Consensus size: 32
4143606 TTTCTTTTTT
*
4143616 GAGTTAAATTTGGACC-TTAACCTTTTAAAA-A
1 GAGTCAAATTT-GACCATTAACCTTTTAAAATA
*
4143647 GAGTCAAATTTGACCATTAACTTTTTAAAATA
1 GAGTCAAATTTGACCATTAACCTTTTAAAATA
4143679 GAGTCAAATT
1 GAGTCAAATT
4143689 GATTTTTTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
30 4 0.11
31 23 0.61
32 11 0.29
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.36
Consensus pattern (32 bp):
GAGTCAAATTTGACCATTAACCTTTTAAAATA
Found at i:4149262 original size:24 final size:24
Alignment explanation
Indices: 4149222--4149278 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
4149212 GTGTTAAAAT
*
4149222 AATTATATTGATCTTTTAATACAA
1 AATTATATTCATCTTTTAATACAA
* *
4149246 AATTATATGTCAT-TTTTCATTCAA
1 AATTATAT-TCATCTTTTAATACAA
*
4149270 AATCATATT
1 AATTATATT
4149279 TAAAAAATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
23 1 0.04
24 24 0.86
25 3 0.11
ACGTcount: A:0.39, C:0.11, G:0.04, T:0.47
Consensus pattern (24 bp):
AATTATATTCATCTTTTAATACAA
Found at i:4154005 original size:20 final size:20
Alignment explanation
Indices: 4153980--4154017 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
4153970 TACTTTATAT
* *
4153980 TAAAATTAATATATAAAAAA
1 TAAAATAAAAATATAAAAAA
4154000 TAAAATAAAAATATAAAA
1 TAAAATAAAAATATAAAA
4154018 TATATCATCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (20 bp):
TAAAATAAAAATATAAAAAA
Found at i:4154018 original size:7 final size:7
Alignment explanation
Indices: 4153980--4154021 Score: 52
Period size: 7 Copynumber: 6.3 Consensus size: 7
4153970 TACTTTATAT
4153980 TAAAAT-
1 TAAAATA
*
4153986 TAATATA
1 TAAAATA
*
4153993 TAAAAAA
1 TAAAATA
4154000 TAAAATA
1 TAAAATA
4154007 -AAAATA
1 TAAAATA
4154013 TAAAATA
1 TAAAATA
4154020 TA
1 TA
4154022 TCATCTACTC
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
6 11 0.37
7 19 0.63
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
TAAAATA
Found at i:4159772 original size:47 final size:47
Alignment explanation
Indices: 4159703--4159794 Score: 166
Period size: 47 Copynumber: 2.0 Consensus size: 47
4159693 CCTCCTGGAA
* *
4159703 CCTGCAAATACTCCGAGTATCATATACGGCTATGTGCTGAACACAGC
1 CCTGCAAATACTCAGAGTATCATATACGGATATGTGCTGAACACAGC
4159750 CCTGCAAATACTCAGAGTATCATATACGGATATGTGCTGAACACA
1 CCTGCAAATACTCAGAGTATCATATACGGATATGTGCTGAACACA
4159795 TGTATAAGAT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (47 bp):
CCTGCAAATACTCAGAGTATCATATACGGATATGTGCTGAACACAGC
Found at i:4162326 original size:4 final size:4
Alignment explanation
Indices: 4162317--4162370 Score: 108
Period size: 4 Copynumber: 13.5 Consensus size: 4
4162307 GCATTTGATT
4162317 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
4162365 TGTA TG
1 TGTA TG
4162371 ATTTCAACAC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 50 1.00
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (4 bp):
TGTA
Found at i:4167605 original size:30 final size:30
Alignment explanation
Indices: 4167569--4167683 Score: 160
Period size: 30 Copynumber: 3.8 Consensus size: 30
4167559 ATCCATATTT
*
4167569 ATGGAAAATTAAAGATATGGGTATCAAATA
1 ATGGAAAATCAAAGATATGGGTATCAAATA
* *
4167599 ATGGAAAGTCAAAGATATGGATATCAAATA
1 ATGGAAAATCAAAGATATGGGTATCAAATA
* *
4167629 TTGGAAAGTCAAAGATATGGGTATCAAAT-
1 ATGGAAAATCAAAGATATGGGTATCAAATA
*
4167658 ATTGAAAAGTCAAAGATATGGGTATC
1 ATGGAAAA-TCAAAGATATGGGTATC
4167684 GAGATATTGG
Statistics
Matches: 76, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
29 5 0.07
30 71 0.93
ACGTcount: A:0.46, C:0.06, G:0.22, T:0.26
Consensus pattern (30 bp):
ATGGAAAATCAAAGATATGGGTATCAAATA
Found at i:4167625 original size:15 final size:15
Alignment explanation
Indices: 4167579--4167683 Score: 72
Period size: 15 Copynumber: 7.0 Consensus size: 15
4167569 ATGGAAAATT
*
4167579 AAAGATATGGGTATC
1 AAAGATATGGATATC
* *
4167594 AAATA-ATGGAAAGTC
1 AAAGATATGGATA-TC
4167609 AAAGATATGGATATC
1 AAAGATATGGATATC
* *
4167624 AAATAT-TGGAAAGTC
1 AAAGATATGGATA-TC
*
4167639 AAAGATATGGGTATC
1 AAAGATATGGATATC
* * *
4167654 AAATAT-TGAAAAGTC
1 AAAGATATGGATA-TC
*
4167669 AAAGATATGGGTATC
1 AAAGATATGGATATC
4167684 GAGATATTGG
Statistics
Matches: 66, Mismatches: 18, Indels: 12
0.69 0.19 0.12
Matches are distributed among these distances:
14 13 0.20
15 40 0.61
16 13 0.20
ACGTcount: A:0.46, C:0.07, G:0.22, T:0.26
Consensus pattern (15 bp):
AAAGATATGGATATC
Found at i:4167643 original size:60 final size:61
Alignment explanation
Indices: 4167570--4167693 Score: 187
Period size: 60 Copynumber: 2.0 Consensus size: 61
4167560 TCCATATTTA
* *
4167570 TGGAAAATTAAAGATATGGGTATCAAATAATGGAAAGTCAAAGATATGGATATC-AAATAT
1 TGGAAAATCAAAGATATGGGTATCAAATAATGAAAAGTCAAAGATATGGATATCGAAATAT
* * * *
4167630 TGGAAAGTCAAAGATATGGGTATCAAATATTGAAAAGTCAAAGATATGGGTATCGAGATAT
1 TGGAAAATCAAAGATATGGGTATCAAATAATGAAAAGTCAAAGATATGGATATCGAAATAT
4167691 TGG
1 TGG
4167694 CATAATAAAA
Statistics
Matches: 57, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
60 49 0.86
61 8 0.14
ACGTcount: A:0.44, C:0.06, G:0.23, T:0.27
Consensus pattern (61 bp):
TGGAAAATCAAAGATATGGGTATCAAATAATGAAAAGTCAAAGATATGGATATCGAAATAT
Found at i:4168411 original size:62 final size:60
Alignment explanation
Indices: 4168319--4168558 Score: 255
Period size: 62 Copynumber: 4.0 Consensus size: 60
4168309 AAGCAAATCA
* * **
4168319 AGCAGGAGTTGTAGAGAGACATGAAGAGGCAGCAAAGCAGTTGTTGGAAAAAAAAATAATAGC
1 AGCAGG-GTTGCAGAGAGACATGAAAAGGCAGCAAAGCAGTTG-CCG-AAAAAAAATAATAGC
* * *
4168382 AGCAGGGTTGCAGAGAGACGTGAAAAGGCAGCAAAACAGTTGCCG-AAAAAAATAACAGC
1 AGCAGGGTTGCAGAGAGACATGAAAAGGCAGCAAAGCAGTTGCCGAAAAAAAATAATAGC
* * * * *
4168441 AGCAGGGGTTGCAAAGAGACGTGAAGAGGTAGCAATGCAGTTGCCGAAAAAAAAATAATAGC
1 AGCA-GGGTTGCAGAGAGACATGAAAAGGCAGCAAAGCAGTTGCCG-AAAAAAAATAATAGC
4168503 AGCA-GG--GC--AGAGACATG--AA-GCAGCAAAGCAGTTGCCGGAAAAAAAATAATAGC
1 AGCAGGGTTGCAGAGAGACATGAAAAGGCAGCAAAGCAGTTGCC-GAAAAAAAATAATAGC
4168556 AGC
1 AGC
4168559 GGGGAAAAGA
Statistics
Matches: 156, Mismatches: 17, Indels: 18
0.82 0.09 0.09
Matches are distributed among these distances:
53 33 0.21
54 2 0.01
56 8 0.05
58 2 0.01
59 17 0.11
60 38 0.24
61 1 0.01
62 49 0.31
63 6 0.04
ACGTcount: A:0.44, C:0.14, G:0.30, T:0.12
Consensus pattern (60 bp):
AGCAGGGTTGCAGAGAGACATGAAAAGGCAGCAAAGCAGTTGCCGAAAAAAAATAATAGC
Found at i:4168491 original size:59 final size:59
Alignment explanation
Indices: 4168368--4168509 Score: 194
Period size: 60 Copynumber: 2.4 Consensus size: 59
4168358 GTTGTTGGAA
* *
4168368 AAAAAAATAATAGCAGCAGGGTTGCAGAGAGACGTGAAAAGGCAGCAAAACAGTTGCCG
1 AAAAAAATAACAGCAGCAGGGTTGCAAAGAGACGTGAAAAGGCAGCAAAACAGTTGCCG
* * **
4168427 AAAAAAATAACAGCAGCAGGGGTTGCAAAGAGACGTGAAGAGGTAGCAATGCAGTTGCCG
1 AAAAAAATAACAGCAGCA-GGGTTGCAAAGAGACGTGAAAAGGCAGCAAAACAGTTGCCG
*
4168487 AAAAAAAAATAATAGCAGCAGGG
1 --AAAAAAATAACAGCAGCAGGG
4168510 CAGAGACATG
Statistics
Matches: 73, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
59 17 0.23
60 36 0.49
61 3 0.04
62 17 0.23
ACGTcount: A:0.45, C:0.14, G:0.29, T:0.12
Consensus pattern (59 bp):
AAAAAAATAACAGCAGCAGGGTTGCAAAGAGACGTGAAAAGGCAGCAAAACAGTTGCCG
Found at i:4168575 original size:53 final size:58
Alignment explanation
Indices: 4168335--4168574 Score: 230
Period size: 53 Copynumber: 4.2 Consensus size: 58
4168325 AGTTGTAGAG
* ** *
4168335 AGACATGAAGAGGCAGCAAAGCAGTTGTTGGAAAAAAAAATAATAGCAGCAGGGTTGCAGAG
1 AGACGTGAA-AGGCAGCAAAGCAGTTGCCGG-AAAAAAAATAATAGCAGCAGGG-TGCA-AA
* *
4168397 AGACGTGAAAAGGCAGCAAAACAGTTGCC-G-AAAAAAATAACAGCAGCAGGGGTTGCAAA
1 AGACGTG-AAAGGCAGCAAAGCAGTTGCCGGAAAAAAAATAATAGCAGCA-GGG-TGCAAA
* * * *
4168456 GAGACGTGAAGAGGTAGCAATGCAGTTGCCGAAAAAAAAATAATAGCAGCA-GG-GC-AG
1 -AGACGTGAA-AGGCAGCAAAGCAGTTGCCGGAAAAAAAATAATAGCAGCAGGGTGCAAA
*
4168513 AGACATG-AA-GCAGCAAAGCAGTTGCCGGAAAAAAAATAATAGCAGC-GGG-G-AAA
1 AGACGTGAAAGGCAGCAAAGCAGTTGCCGGAAAAAAAATAATAGCAGCAGGGTGCAAA
4168566 AGACGTGAA
1 AGACGTGAA
4168575 GATAAATTTT
Statistics
Matches: 151, Mismatches: 18, Indels: 26
0.77 0.09 0.13
Matches are distributed among these distances:
53 44 0.29
54 2 0.01
55 1 0.01
56 6 0.04
57 1 0.01
58 2 0.01
59 20 0.13
60 33 0.22
61 1 0.01
62 39 0.26
63 2 0.01
ACGTcount: A:0.45, C:0.14, G:0.30, T:0.12
Consensus pattern (58 bp):
AGACGTGAAAGGCAGCAAAGCAGTTGCCGGAAAAAAAATAATAGCAGCAGGGTGCAAA
Found at i:4168754 original size:65 final size:65
Alignment explanation
Indices: 4168631--4168762 Score: 194
Period size: 65 Copynumber: 2.0 Consensus size: 65
4168621 AGATTTATGG
* * * *
4168631 TTAAAAAATCTAATTAAATGAGGTGTAAATGACATGTAAAATTTAGTTGATATATCATTAAATGA
1 TTAAAAAATCTAATTAAATGAAGTGTAAATGACATGTAAAAATTAGTTAACATATCATTAAATGA
* *
4168696 TTAAAAAATCTAATTAAATGAAGTGTAAATGACATGTAAAAATTA-TCTAACATGTCATTAATTG
1 TTAAAAAATCTAATTAAATGAAGTGTAAATGACATGTAAAAATTAGT-TAACATATCATTAAATG
4168760 A
65 A
4168761 TT
1 TT
4168763 GGGAAGAGAC
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
64 1 0.02
65 59 0.98
ACGTcount: A:0.46, C:0.06, G:0.12, T:0.36
Consensus pattern (65 bp):
TTAAAAAATCTAATTAAATGAAGTGTAAATGACATGTAAAAATTAGTTAACATATCATTAAATGA
Found at i:4171315 original size:45 final size:45
Alignment explanation
Indices: 4171253--4171351 Score: 189
Period size: 45 Copynumber: 2.2 Consensus size: 45
4171243 TTACTCATTT
4171253 TATAACTTAGTTTTCTACTTAGCCGGTTTTATTGGTCAACAAATTA
1 TATAA-TTAGTTTTCTACTTAGCCGGTTTTATTGGTCAACAAATTA
4171299 TATAATTAGTTTTCTACTTAGCCGGTTTTATTGGTCAACAAATTA
1 TATAATTAGTTTTCTACTTAGCCGGTTTTATTGGTCAACAAATTA
4171344 TATAATTA
1 TATAATTA
4171352 AGGTCAAAAT
Statistics
Matches: 53, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
45 48 0.91
46 5 0.09
ACGTcount: A:0.30, C:0.13, G:0.12, T:0.44
Consensus pattern (45 bp):
TATAATTAGTTTTCTACTTAGCCGGTTTTATTGGTCAACAAATTA
Found at i:4194476 original size:60 final size:61
Alignment explanation
Indices: 4194411--4194534 Score: 232
Period size: 62 Copynumber: 2.0 Consensus size: 61
4194401 AAAAACAAGC
4194411 GTAATTCAATTCAACCTTGAAATG-AAAAAAAATATATATATAGATGGAAAAAGAGGAGAG
1 GTAATTCAATTCAACCTTGAAATGAAAAAAAAATATATATATAGATGGAAAAAGAGGAGAG
4194471 GTAATTCAATTCAACCTTGAAATGAAAAAAAAAATATATATATAGATGGAAAAAGAGGAGAG
1 GTAATTCAATTCAACCTTGAAATG-AAAAAAAAATATATATATAGATGGAAAAAGAGGAGAG
4194533 GT
1 GT
4194535 TAGACGTAAA
Statistics
Matches: 62, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
60 24 0.39
62 38 0.61
ACGTcount: A:0.52, C:0.06, G:0.19, T:0.23
Consensus pattern (61 bp):
GTAATTCAATTCAACCTTGAAATGAAAAAAAAATATATATATAGATGGAAAAAGAGGAGAG
Found at i:4195681 original size:23 final size:22
Alignment explanation
Indices: 4195646--4195688 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
4195636 GAGATCATCC
*
4195646 TTAAATAAATAAAATTTAAAAA
1 TTAAACAAATAAAATTTAAAAA
*
4195668 TTAAACAACATAAATTTTAAA
1 TTAAACAA-ATAAAATTTAAA
4195689 TGTAATTTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.33
Consensus pattern (22 bp):
TTAAACAAATAAAATTTAAAAA
Found at i:4198324 original size:21 final size:21
Alignment explanation
Indices: 4198298--4198338 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
4198288 CTTTTATCAT
4198298 ATGACAGTCACTTGTTGATTA
1 ATGACAGTCACTTGTTGATTA
4198319 ATGACAGTCACTTGTTGATT
1 ATGACAGTCACTTGTTGATT
4198339 TGAGGACTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.27, C:0.15, G:0.20, T:0.39
Consensus pattern (21 bp):
ATGACAGTCACTTGTTGATTA
Found at i:4220819 original size:18 final size:19
Alignment explanation
Indices: 4220791--4220832 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 19
4220781 AATAAACATC
4220791 AAAAAATTATTTTAAAAAT
1 AAAAAATTATTTTAAAAAT
*
4220810 AAAAAA-TATTTTAAAATT
1 AAAAAATTATTTTAAAAAT
4220828 AAAAA
1 AAAAA
4220833 TAAAAAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 16 0.73
19 6 0.27
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
AAAAAATTATTTTAAAAAT
Found at i:4225807 original size:70 final size:70
Alignment explanation
Indices: 4225721--4225858 Score: 267
Period size: 70 Copynumber: 2.0 Consensus size: 70
4225711 TTAAGTAAAC
*
4225721 ATGGAATAGTGTTCAACTTGGCCTGCATGGAAATGAAAGATGGGGAACAACCTGAGTATGCAAAT
1 ATGGAATAGTGTTCAACTTCGCCTGCATGGAAATGAAAGATGGGGAACAACCTGAGTATGCAAAT
4225786 TGTGA
66 TGTGA
4225791 ATGGAATAGTGTTCAACTTCGCCTGCATGGAAATGAAAGATGGGGAACAACCTGAGTATGCAAAT
1 ATGGAATAGTGTTCAACTTCGCCTGCATGGAAATGAAAGATGGGGAACAACCTGAGTATGCAAAT
4225856 TGT
66 TGT
4225859 TCACCCGAGG
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
70 67 1.00
ACGTcount: A:0.34, C:0.14, G:0.28, T:0.25
Consensus pattern (70 bp):
ATGGAATAGTGTTCAACTTCGCCTGCATGGAAATGAAAGATGGGGAACAACCTGAGTATGCAAAT
TGTGA
Found at i:4236257 original size:28 final size:28
Alignment explanation
Indices: 4236217--4236273 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
4236207 ACTAATTCAA
4236217 ATCTTGTTAACTTGTTCCCCTATAAACT
1 ATCTTGTTAACTTGTTCCCCTATAAACT
4236245 ATCTTGTTAACTTGTTCCCCTATAAACT
1 ATCTTGTTAACTTGTTCCCCTATAAACT
4236273 A
1 A
4236274 ATTCAAATCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.26, C:0.25, G:0.07, T:0.42
Consensus pattern (28 bp):
ATCTTGTTAACTTGTTCCCCTATAAACT
Found at i:4238056 original size:31 final size:31
Alignment explanation
Indices: 4237997--4238056 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
4237987 TACATCATTA
* * *
4237997 GTCATTAAATTATTGATAAATGTTCATTTTG
1 GTCACTAAATTATTCAAAAATGTTCATTTTG
4238028 GTCACTAAATTATTCAAAAAT-TTCCATTT
1 GTCACTAAATTATTCAAAAATGTT-CATTT
4238057 AAATCATTGG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 2 0.08
31 23 0.92
ACGTcount: A:0.35, C:0.12, G:0.08, T:0.45
Consensus pattern (31 bp):
GTCACTAAATTATTCAAAAATGTTCATTTTG
Found at i:4238318 original size:32 final size:31
Alignment explanation
Indices: 4238282--4238343 Score: 97
Period size: 32 Copynumber: 2.0 Consensus size: 31
4238272 AACCTACCAC
* *
4238282 TGATTTAAATAATTTTTTTTGATATATTTCAG
1 TGATTTAAATAAATTTTTTTGA-ATAATTCAG
4238314 TGATTTAAATAAATTTTTTTGAATAATTCA
1 TGATTTAAATAAATTTTTTTGAATAATTCA
4238344 ATGACTAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
31 7 0.25
32 21 0.75
ACGTcount: A:0.35, C:0.03, G:0.08, T:0.53
Consensus pattern (31 bp):
TGATTTAAATAAATTTTTTTGAATAATTCAG
Found at i:4257100 original size:71 final size:71
Alignment explanation
Indices: 4256984--4257128 Score: 177
Period size: 71 Copynumber: 2.0 Consensus size: 71
4256974 CTTAAATTGA
* * * *
4256984 GAAGTTTAGCTATTGTCTATGAGATCGTGATGCCAAGCCCTGGATATCACGATACCCA-CTTGAC
1 GAAGTTTAGCTATTGTCTATGAGATCGCGATACCAAGCCCTGGATATCACGACACCCACCTAG-C
4257048 ATATTTT
65 ATATTTT
* * * **
4257055 GAAGTTTGGCTGTTGTCT-TCGAGATCGCGATACCAAGTCCTGGATATCGTGACACCCACCTAGC
1 GAAGTTTAGCTATTGTCTAT-GAGATCGCGATACCAAGCCCTGGATATCACGACACCCACCTAGC
4257119 ATATTTT
65 ATATTTT
4257126 GAA
1 GAA
4257129 ATTTTTCAGT
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
70 1 0.02
71 59 0.94
72 3 0.05
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (71 bp):
GAAGTTTAGCTATTGTCTATGAGATCGCGATACCAAGCCCTGGATATCACGACACCCACCTAGCA
TATTTT
Found at i:4258815 original size:21 final size:21
Alignment explanation
Indices: 4258784--4258842 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
4258774 AGTGCTAAAC
*
4258784 GGAAACCCATAAGGGTTGAAT
1 GGAAACCCATAAGGGTTGAAA
* * * *
4258805 GGAAGCTCATAAGAGCTGAAA
1 GGAAACCCATAAGGGTTGAAA
4258826 GGAAACCCATAAGGGTT
1 GGAAACCCATAAGGGTT
4258843 AAACTAAAGC
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.39, C:0.15, G:0.29, T:0.17
Consensus pattern (21 bp):
GGAAACCCATAAGGGTTGAAA
Found at i:4258853 original size:42 final size:43
Alignment explanation
Indices: 4258780--4258897 Score: 127
Period size: 42 Copynumber: 2.8 Consensus size: 43
4258770 CACAAGTGCT
* * * *
4258780 AAACGGAAACCCATAAGGGTTGAA-TGGAAGCTCATAAGAGCTG
1 AAACGGAAACCCATAAGGGTTAAACTGAAAGCTCAAAAGAGC-A
4258823 AAA-GGAAACCCATAAGGGTTAAACT-AAAGCTCAAAAGAGCA
1 AAACGGAAACCCATAAGGGTTAAACTGAAAGCTCAAAAGAGCA
** * *
4258864 AAACTAAAACCCATTAGGGTTAAACGGAAA-CTCA
1 AAACGGAAACCCATAAGGGTTAAACTGAAAGCTCA
4258898 TATGAGTTAA
Statistics
Matches: 64, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
41 3 0.05
42 54 0.84
43 7 0.11
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.15
Consensus pattern (43 bp):
AAACGGAAACCCATAAGGGTTAAACTGAAAGCTCAAAAGAGCA
Found at i:4258888 original size:21 final size:21
Alignment explanation
Indices: 4258828--4258888 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 21
4258818 AGCTGAAAGG
4258828 AAACCCATAAGGGTTAAACTA
1 AAACCCATAAGGGTTAAACTA
* * * * **
4258849 AAGCTCAAAAGAGCAAAACTA
1 AAACCCATAAGGGTTAAACTA
*
4258870 AAACCCATTAGGGTTAAAC
1 AAACCCATAAGGGTTAAAC
4258889 GGAAACTCAT
Statistics
Matches: 27, Mismatches: 13, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.49, C:0.20, G:0.15, T:0.16
Consensus pattern (21 bp):
AAACCCATAAGGGTTAAACTA
Found at i:4259410 original size:21 final size:19
Alignment explanation
Indices: 4259384--4259423 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 19
4259374 TTAGTCCCTC
4259384 AATAATTATTCTATCAATTGA
1 AATAATT-TT-TATCAATTGA
*
4259405 AATAATTTTTCTCAATTGA
1 AATAATTTTTATCAATTGA
4259424 CAATTTATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 9 0.50
20 2 0.11
21 7 0.39
ACGTcount: A:0.40, C:0.10, G:0.05, T:0.45
Consensus pattern (19 bp):
AATAATTTTTATCAATTGA
Found at i:4261405 original size:16 final size:16
Alignment explanation
Indices: 4261384--4261420 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
4261374 TTGGTTCGCT
4261384 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
4261400 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
4261416 GTAAT
1 GTAAT
4261421 AGGTAATTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.38, C:0.05, G:0.35, T:0.22
Consensus pattern (16 bp):
GTAATGGAATAGAGGC
Found at i:4261489 original size:44 final size:46
Alignment explanation
Indices: 4261400--4261490 Score: 159
Period size: 46 Copynumber: 2.0 Consensus size: 46
4261390 GAATAGAGGC
*
4261400 GTAATGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAAT
4261446 GTAATGGAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAAT
4261490 G
1 G
4261491 GAATAGAGGT
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
44 20 0.45
45 3 0.07
46 21 0.48
ACGTcount: A:0.26, C:0.04, G:0.31, T:0.38
Consensus pattern (46 bp):
GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAAT
Found at i:4261491 original size:39 final size:44
Alignment explanation
Indices: 4261400--4261507 Score: 145
Period size: 46 Copynumber: 2.5 Consensus size: 44
4261390 GAATAGAGGC
*
4261400 GTAATGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTT--AT
4261446 GTAATGGAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGG-T-T
1 GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTAT
*
4261486 G-AATGGAATAGAGGTGTAATAG
1 GTAATGGAATAGAGGCGTAATAG
4261508 CATAAGGAAA
Statistics
Matches: 59, Mismatches: 2, Indels: 8
0.86 0.03 0.12
Matches are distributed among these distances:
39 18 0.31
40 3 0.05
43 1 0.02
44 13 0.22
45 3 0.05
46 21 0.36
ACGTcount: A:0.29, C:0.04, G:0.31, T:0.36
Consensus pattern (44 bp):
GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTAT
Found at i:4261669 original size:15 final size:15
Alignment explanation
Indices: 4261649--4261687 Score: 60
Period size: 17 Copynumber: 2.5 Consensus size: 15
4261639 CATAATTGTT
4261649 ATAAAATATAATTTA
1 ATAAAATATAATTTA
4261664 ATAAAATATATAATTTA
1 AT-AAA-ATATAATTTA
4261681 ATAAAAT
1 ATAAAAT
4261688 TGTTAATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 4 0.18
16 6 0.27
17 12 0.55
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
ATAAAATATAATTTA
Found at i:4261694 original size:17 final size:17
Alignment explanation
Indices: 4261654--4261687 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
4261644 TTGTTATAAA
4261654 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
4261671 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
4261688 TGTTAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:4261759 original size:20 final size:21
Alignment explanation
Indices: 4261720--4261759 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
4261710 AATTTACTAA
*
4261720 TAAAATCATAATATATAATAC
1 TAAAATCATAATATAAAATAC
*
4261741 TAAAAT-ATAATTTAAAATA
1 TAAAATCATAATATAAAATA
4261760 ATTATTATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (21 bp):
TAAAATCATAATATAAAATAC
Found at i:4261801 original size:54 final size:54
Alignment explanation
Indices: 4261611--4261894 Score: 136
Period size: 56 Copynumber: 5.1 Consensus size: 54
4261601 TATTAATATA
* * * * *
4261611 AATAATAAATAATTTAATCATATTTTAACATAATTGTTATAAAATATAATTTAAT
1 AATAATAAATAATTAAAT-ATAATTTAAAATAATTATTATTAAATATAATTTAAT
* * * * **
4261666 AA-AATATATAATTTAATAAAATTGTTAATAA-ATATTCTTATATAAATTTACTAATAAAAT
1 AATAATAAATAATTAAATATAA-T-TTAA-AATA-ATTATTAT-TAAA--TA-TAATTTAAT
* *
4261726 CATAATATATAATACTAAA-ATATAATTTAAAATAATTATTATTAAATATAATTTAAT
1 AATAATAAATAAT--TAAATAT--AATTTAAAATAATTATTATTAAATATAATTTAAT
* * ** * * *
4261783 AATAATAAATAATTAAATAAAATTCT--TATTCTTATATGAATTTACTAAAATTATAAT
1 AATAATAAATAATTAAATATAATT-TAAAATAATTAT-T--ATTAAATATAATT-TAAT
* *
4261840 ATATAAT-ACT-ATAAAATATAATTT-AAATAATTATTATTAAATATAATTT-AT
1 A-ATAATAAATAATTAAATATAATTTAAAATAATTATTATTAAATATAATTTAAT
4261891 AATA
1 AATA
4261895 TACTTTATTA
Statistics
Matches: 175, Mismatches: 32, Indels: 49
0.68 0.12 0.19
Matches are distributed among these distances:
50 3 0.02
51 3 0.02
52 1 0.01
53 18 0.10
54 20 0.11
55 14 0.08
56 36 0.21
57 28 0.16
58 7 0.04
59 2 0.01
60 12 0.07
61 19 0.11
62 6 0.03
63 4 0.02
64 2 0.01
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.43
Consensus pattern (54 bp):
AATAATAAATAATTAAATATAATTTAAAATAATTATTATTAAATATAATTTAAT
Found at i:4264536 original size:23 final size:22
Alignment explanation
Indices: 4264492--4264536 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
4264482 ATAAAAAATC
*
4264492 TATTTAAAAAAAGGTCAAATTT
1 TATTTAAAAAAAGGTAAAATTT
4264514 TATTTAAAATAAAGG-AAATATTT
1 TATTTAAAA-AAAGGTAAA-ATTT
4264537 CCACTTTGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.51, C:0.02, G:0.09, T:0.38
Consensus pattern (22 bp):
TATTTAAAAAAAGGTAAAATTT
Found at i:4265397 original size:13 final size:13
Alignment explanation
Indices: 4265379--4265403 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4265369 AACATTCGGC
4265379 CGGTGGGAATAAT
1 CGGTGGGAATAAT
4265392 CGGTGGGAATAA
1 CGGTGGGAATAA
4265404 ACAAATAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.08, G:0.40, T:0.20
Consensus pattern (13 bp):
CGGTGGGAATAAT
Found at i:4266737 original size:29 final size:26
Alignment explanation
Indices: 4266685--4266738 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
4266675 TTTAAAATAC
*
4266685 TTTTAAAATATTTTTATTTTTATTAT
1 TTTTAAAATATTTTTATGTTTATTAT
4266711 TTTTAAAATAATTTTTTAATGTTTATTA
1 TTTTAAAAT-A-TTTTT-ATGTTTATTA
4266739 AAAAATGAGC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 9 0.38
27 1 0.04
28 5 0.21
29 9 0.38
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (26 bp):
TTTTAAAATATTTTTATGTTTATTAT
Found at i:4270378 original size:5 final size:5
Alignment explanation
Indices: 4270368--4270393 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
4270358 TCCACACACC
4270368 AGAAA AGAAA AGAAA AGAAA AGAAA A
1 AGAAA AGAAA AGAAA AGAAA AGAAA A
4270394 AGTAAATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:4280994 original size:20 final size:20
Alignment explanation
Indices: 4280969--4281018 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
4280959 TGGCTTAAAA
4280969 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
4280989 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
4281006 GTGGTAGTGGATT
1 TTGGTAGTGGATT
4281019 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:4285633 original size:20 final size:20
Alignment explanation
Indices: 4285608--4285657 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
4285598 TGGCTTAAAA
4285608 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
4285628 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
4285645 GTGGTAGTGGATT
1 TTGGTAGTGGATT
4285658 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:4289655 original size:42 final size:42
Alignment explanation
Indices: 4289581--4289762 Score: 195
Period size: 42 Copynumber: 4.3 Consensus size: 42
4289571 GGTCGAAGGC
* * * * *
4289581 TAAACTGAAGCACATAAGTGCTAAAC-AGAAACCCGTAAGGGT
1 TAAACTGAAGCTCAAAAGAGCTGAACGA-AAACCCATAAGGGT
* * * *
4289623 TGAACGGAAGCTCATAAGAGTTGAACGAAAACCCATAAGGGT
1 TAAACTGAAGCTCAAAAGAGCTGAACGAAAACCCATAAGGGT
* * * * *
4289665 TAAATTGAAGCTTAAAATAGCTGAACAAAAACCCATTAGGGT
1 TAAACTGAAGCTCAAAAGAGCTGAACGAAAACCCATAAGGGT
* *
4289707 TAAACTGAAGCTCAAAAGAGCTGAACGAAAACCCATTAGGAT
1 TAAACTGAAGCTCAAAAGAGCTGAACGAAAACCCATAAGGGT
*
4289749 TAAACTGAAACTCA
1 TAAACTGAAGCTCA
4289763 TATGAGTTAA
Statistics
Matches: 117, Mismatches: 22, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
42 116 0.99
43 1 0.01
ACGTcount: A:0.44, C:0.18, G:0.20, T:0.19
Consensus pattern (42 bp):
TAAACTGAAGCTCAAAAGAGCTGAACGAAAACCCATAAGGGT
Found at i:4289659 original size:21 final size:21
Alignment explanation
Indices: 4289609--4289661 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
4289599 TGCTAAACAG
* * *
4289609 AAACCCGTAAGGGTTGAACGG
1 AAACCCATAAGAGTTGAACGA
* *
4289630 AAGCTCATAAGAGTTGAACGA
1 AAACCCATAAGAGTTGAACGA
4289651 AAACCCATAAG
1 AAACCCATAAG
4289662 GGTTAAATTG
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.42, C:0.19, G:0.25, T:0.15
Consensus pattern (21 bp):
AAACCCATAAGAGTTGAACGA
Found at i:4289732 original size:84 final size:84
Alignment explanation
Indices: 4289604--4289757 Score: 218
Period size: 84 Copynumber: 1.8 Consensus size: 84
4289594 ATAAGTGCTA
* * * * * *
4289604 AACAGAAACCCGTAAGGGTTGAACGGAAGCTCATAAGAGTTGAACGAAAACCCATAAGGGTTAAA
1 AACAAAAACCCATAAGGGTTAAACGGAAGCTCAAAAGAGCTGAACGAAAACCCATAAGGATTAAA
*
4289669 TTGAAGCTTAAAATAGCTG
66 CTGAAGCTTAAAATAGCTG
* * *
4289688 AACAAAAACCCATTAGGGTTAAACTGAAGCTCAAAAGAGCTGAACGAAAACCCATTAGGATTAAA
1 AACAAAAACCCATAAGGGTTAAACGGAAGCTCAAAAGAGCTGAACGAAAACCCATAAGGATTAAA
4289753 CTGAA
66 CTGAA
4289758 ACTCATATGA
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
84 60 1.00
ACGTcount: A:0.44, C:0.17, G:0.21, T:0.18
Consensus pattern (84 bp):
AACAAAAACCCATAAGGGTTAAACGGAAGCTCAAAAGAGCTGAACGAAAACCCATAAGGATTAAA
CTGAAGCTTAAAATAGCTG
Found at i:4289987 original size:45 final size:45
Alignment explanation
Indices: 4289931--4290023 Score: 159
Period size: 45 Copynumber: 2.1 Consensus size: 45
4289921 ATTCAATTTC
*
4289931 ATAATTTAACAATATTCCATTTTTCAACAACATGCTAAATACATA
1 ATAATTTAACAATATTCCATTTTTCAACAACATACTAAATACATA
* *
4289976 ATAATTTAACAATATTCTATTTTTCAACAATATACTAAATACATA
1 ATAATTTAACAATATTCCATTTTTCAACAACATACTAAATACATA
4290021 ATA
1 ATA
4290024 TCATTCATCA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.46, C:0.15, G:0.01, T:0.38
Consensus pattern (45 bp):
ATAATTTAACAATATTCCATTTTTCAACAACATACTAAATACATA
Found at i:4291820 original size:17 final size:16
Alignment explanation
Indices: 4291793--4291832 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
4291783 CTTATATACT
4291793 AAATAAATTAATAATA
1 AAATAAATTAATAATA
* *
4291809 AAATATAATTAAAAATC
1 AAATA-AATTAATAATA
4291826 AAATAAA
1 AAATAAA
4291833 AATATTAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.28
Consensus pattern (16 bp):
AAATAAATTAATAATA
Found at i:4292151 original size:30 final size:29
Alignment explanation
Indices: 4292108--4292164 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
4292098 TTTTTCATAT
* * *
4292108 TTACACTTTAACCCCTTTAAATTTTGAGGA
1 TTACACTTCAA-CCCGTCAAATTTTGAGGA
*
4292138 TTACAGTTCAACCCGTCAAATTTTGAG
1 TTACACTTCAACCCGTCAAATTTTGAG
4292165 TATTTACTCT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 14 0.61
30 9 0.39
ACGTcount: A:0.30, C:0.21, G:0.12, T:0.37
Consensus pattern (29 bp):
TTACACTTCAACCCGTCAAATTTTGAGGA
Found at i:4297121 original size:17 final size:17
Alignment explanation
Indices: 4297101--4297140 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
4297091 TAATTTTTAG
4297101 AAAAAATA-AAAATATAT
1 AAAAAATAGAAAATA-AT
*
4297118 AAAAATTAGAAAATAAT
1 AAAAAATAGAAAATAAT
4297135 AAAAAA
1 AAAAAA
4297141 AATATTTTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.20
Consensus pattern (17 bp):
AAAAAATAGAAAATAAT
Found at i:4298637 original size:34 final size:33
Alignment explanation
Indices: 4298594--4298664 Score: 115
Period size: 34 Copynumber: 2.1 Consensus size: 33
4298584 AAAATATAAG
*
4298594 ATTAGTAGTTAAATCTATAATTAACTTTTTAATT
1 ATTAGTAGTTAAATCAATAATTAAC-TTTTAATT
*
4298628 ATTAGTAGTTACATCAATAATTAACTTTTAATT
1 ATTAGTAGTTAAATCAATAATTAACTTTTAATT
4298661 ATTA
1 ATTA
4298665 TAAATTAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
33 12 0.34
34 23 0.66
ACGTcount: A:0.39, C:0.07, G:0.06, T:0.48
Consensus pattern (33 bp):
ATTAGTAGTTAAATCAATAATTAACTTTTAATT
Found at i:4298854 original size:5 final size:5
Alignment explanation
Indices: 4298844--4298877 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
4298834 AAGGGCGAAG
*
4298844 GTTTT GTTTT GTTTT GTTTT -TTTT TTTTT GTTTT
1 GTTTT GTTTT GTTTT GTTTT GTTTT GTTTT GTTTT
4298878 TAAAGTATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (5 bp):
GTTTT
Found at i:4298872 original size:14 final size:14
Alignment explanation
Indices: 4298844--4298878 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
4298834 AAGGGCGAAG
4298844 GTTTTGTTTTGTTTT
1 GTTTT-TTTTGTTTT
*
4298859 GTTTTTTTTTTTTT
1 GTTTTTTTTGTTTT
4298873 GTTTTT
1 GTTTTT
4298879 AAAGTATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 14 0.74
15 5 0.26
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (14 bp):
GTTTTTTTTGTTTT
Found at i:4310434 original size:29 final size:29
Alignment explanation
Indices: 4310398--4310457 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
4310388 TTCTGATTAC
4310398 AAGATGCGATGAGTTCTTCGAAGCACAAT
1 AAGATGCGATGAGTTCTTCGAAGCACAAT
4310427 AAGATGCGATGAGTTCTTCGAAGCACAAT
1 AAGATGCGATGAGTTCTTCGAAGCACAAT
4310456 AA
1 AA
4310458 TCCCTGAGTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.23
Consensus pattern (29 bp):
AAGATGCGATGAGTTCTTCGAAGCACAAT
Found at i:4313493 original size:388 final size:388
Alignment explanation
Indices: 4312777--4313555 Score: 1531
Period size: 388 Copynumber: 2.0 Consensus size: 388
4312767 CTTTCATTAC
4312777 CAACTTGTAGAGAACAGAACATAAACTAATGGGCCTAAAGTGACTAAAGTCCTCAGGACTCTCTT
1 CAACTTGTAGAGAACAGAACATAAACTAATGGGCCTAAAGTGACTAAAGTCCTCAGGACTCTCTT
4312842 TTTTAGGAATCAACATAATCAACGTATTATTCAATTCTGGCTCAATCATACGTCAGAAAAAAATC
66 TTTTAGGAATCAACATAATCAACGTATTATTCAATTCTGGCTCAATCATACGTCAGAAAAAAATC
4312907 TTGAACCCACTGGCACACATCATTCCCAAGGATATCCCACTGATTTTGAAAAAAATGAGCATGGA
131 TTGAACCCACTGGCACACATCATTCCCAAGGATATCCCACTGATTTTGAAAAAAATGAGCATGGA
*
4312972 AACTATCACTTCTAGGAGCTTTCAAAGGAGCCATGTCAAACAATGCACTTTTAATCTCCTCATTA
196 AACTATCACTTCTAGGAGCTTTCAAAGGAGCCATGTCAAACAATGCACTTTTAATCTCCCCATTA
4313037 ATGATAGTAGCCTCCAAAAAAATGATCTTTGAAGAATTAAAGCTAGGAAAACCAATATTTGGAAT
261 ATGATAGTAGCCTCCAAAAAAATGATCTTTGAAGAATTAAAGCTAGGAAAACCAATATTTGGAAT
*
4313102 ATCCCTCAAGACAGGGGGAGCCTCTCCATAAAGTTCTTCAAAGAAATCCACTGCCTTAGCTTG
326 ATCCCTCAAGACAGGGGGAGCCTCTCCATAAAGTTCTTCAAAGAAATCCACCGCCTTAGCTTG
4313165 CAACTTGTAGAGAACAGAACATAAACTAATGGGCCTAAAGTGACTAAAGTCCTCAGGACTCTCTT
1 CAACTTGTAGAGAACAGAACATAAACTAATGGGCCTAAAGTGACTAAAGTCCTCAGGACTCTCTT
*
4313230 TTTTAGGAATCAACATAATCAACGTATTATTCAATTCTGGCTCAATCATACGTCAGCAAAAAATC
66 TTTTAGGAATCAACATAATCAACGTATTATTCAATTCTGGCTCAATCATACGTCAGAAAAAAATC
4313295 TTGAACCCACTGGCACACATCATTCCCAAGGATATCCCACTGATTTTGAAAAAAATGAGCATGGA
131 TTGAACCCACTGGCACACATCATTCCCAAGGATATCCCACTGATTTTGAAAAAAATGAGCATGGA
4313360 AACTATCACTTCTAGGAGCTTTCAAAGGAGCCATGTCAAACAATGCACTTTTAATCTCCCCATTA
196 AACTATCACTTCTAGGAGCTTTCAAAGGAGCCATGTCAAACAATGCACTTTTAATCTCCCCATTA
4313425 ATGATAGTAGCCTCCAAAAAAATGATCTTTGAAGAATTAAAGCTAGGAAAACCAATATTTGGAAT
261 ATGATAGTAGCCTCCAAAAAAATGATCTTTGAAGAATTAAAGCTAGGAAAACCAATATTTGGAAT
4313490 ATCCCTCAAGACAGGGGGAGCCTCTCCATAAAGTTCTTCAAAGAAATCCACCGCCTTAGCTTG
326 ATCCCTCAAGACAGGGGGAGCCTCTCCATAAAGTTCTTCAAAGAAATCCACCGCCTTAGCTTG
4313553 CAA
1 CAA
4313556 GATGTCATGA
Statistics
Matches: 388, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
388 388 1.00
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.26
Consensus pattern (388 bp):
CAACTTGTAGAGAACAGAACATAAACTAATGGGCCTAAAGTGACTAAAGTCCTCAGGACTCTCTT
TTTTAGGAATCAACATAATCAACGTATTATTCAATTCTGGCTCAATCATACGTCAGAAAAAAATC
TTGAACCCACTGGCACACATCATTCCCAAGGATATCCCACTGATTTTGAAAAAAATGAGCATGGA
AACTATCACTTCTAGGAGCTTTCAAAGGAGCCATGTCAAACAATGCACTTTTAATCTCCCCATTA
ATGATAGTAGCCTCCAAAAAAATGATCTTTGAAGAATTAAAGCTAGGAAAACCAATATTTGGAAT
ATCCCTCAAGACAGGGGGAGCCTCTCCATAAAGTTCTTCAAAGAAATCCACCGCCTTAGCTTG
Done.