Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 197 of 199
Found at i:57337252 original size:39 final size:40
Alignment explanation
Indices: 57337178--57337257 Score: 103
Period size: 41 Copynumber: 2.0 Consensus size: 40
57337168 TACATATATT
*
57337178 TAAAAAATAATAATTAAATATGAAAAGAAATAATAAAAAAA
1 TAAAAAATAATAATTAAAAAT-AAAAGAAATAATAAAAAAA
57337219 TAAAAAACTAATTAATTAAAAAT-AAAG-AA-AATAAAAAAA
1 TAAAAAA-TAA-TAATTAAAAATAAAAGAAATAATAAAAAAA
57337258 GCTAATTTGA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
39 10 0.28
40 2 0.06
41 11 0.31
42 3 0.08
43 10 0.28
ACGTcount: A:0.74, C:0.01, G:0.04, T:0.21
Consensus pattern (40 bp):
TAAAAAATAATAATTAAAAATAAAAGAAATAATAAAAAAA
Found at i:57337802 original size:19 final size:19
Alignment explanation
Indices: 57337778--57337833 Score: 76
Period size: 21 Copynumber: 2.8 Consensus size: 19
57337768 AATCACATCT
57337778 TCTAAGATTACATATCATA
1 TCTAAGATTACATATCATA
*
57337797 TCTAAGATTGCATATATCATA
1 TCTAAGATT--ACATATCATA
*
57337818 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
57337834 CTCGAAGATT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
19 14 0.44
21 18 0.56
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.38
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:57337815 original size:21 final size:21
Alignment explanation
Indices: 57337789--57337832 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
57337779 CTAAGATTAC
57337789 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
57337810 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
57337831 AT
1 AT
57337833 CCTCGAAGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.14, G:0.09, T:0.39
Consensus pattern (21 bp):
ATATCATATCTAAGATTGCAT
Found at i:57339684 original size:54 final size:54
Alignment explanation
Indices: 57339625--57339741 Score: 145
Period size: 49 Copynumber: 2.2 Consensus size: 54
57339615 GTAATCTAAT
* *
57339625 TATTTATTTTCAATACATAAGATAATATTTATTTTAAAACAAATCC-AAAAATAA
1 TATTTATTTTC-ATACATAAGATAATATTTACTTTAAAACAAACCCAAAAAATAA
* * *
57339679 TATTTA--TT--TACATTAGATAATATTTACTTTGAAGCAAACCCAAAAAATAA
1 TATTTATTTTCATACATAAGATAATATTTACTTTAAAACAAACCCAAAAAATAA
57339729 TATTTATTTTCAT
1 TATTTATTTTCAT
57339742 TTAAAAAAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
49 28 0.53
50 14 0.26
52 4 0.08
54 7 0.13
ACGTcount: A:0.45, C:0.10, G:0.03, T:0.41
Consensus pattern (54 bp):
TATTTATTTTCATACATAAGATAATATTTACTTTAAAACAAACCCAAAAAATAA
Found at i:57339697 original size:49 final size:50
Alignment explanation
Indices: 57339638--57339742 Score: 149
Period size: 49 Copynumber: 2.1 Consensus size: 50
57339628 TTATTTTCAA
* * *
57339638 TACATAAGATAATATTTATTTTAAAACAAATCC-AAAAATAATATTTATT
1 TACATTAGATAATATTTACTTTAAAACAAACCCAAAAAATAATATTTATT
* *
57339687 TACATTAGATAATATTTACTTTGAAGCAAACCCAAAAAATAATATTTATT
1 TACATTAGATAATATTTACTTTAAAACAAACCCAAAAAATAATATTTATT
*
57339737 TTCATT
1 TACATT
57339743 TAAAAAAAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
49 28 0.57
50 21 0.43
ACGTcount: A:0.47, C:0.10, G:0.04, T:0.39
Consensus pattern (50 bp):
TACATTAGATAATATTTACTTTAAAACAAACCCAAAAAATAATATTTATT
Found at i:57341048 original size:27 final size:26
Alignment explanation
Indices: 57341018--57341073 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
57341008 TTACAAAAAA
57341018 AAAATCTAAATAATTTTATAAAATTCT
1 AAAATCTAAAT-ATTTTATAAAATTCT
* * * *
57341045 AAAATTTATATATTTTTTTAAATTCT
1 AAAATCTAAATATTTTATAAAATTCT
57341071 AAA
1 AAA
57341074 GAATATATAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
26 16 0.64
27 9 0.36
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.46
Consensus pattern (26 bp):
AAAATCTAAATATTTTATAAAATTCT
Found at i:57342174 original size:16 final size:16
Alignment explanation
Indices: 57342153--57342191 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
57342143 AATTAAATTG
57342153 TAATTTTTTATTTTAA
1 TAATTTTTTATTTTAA
* *
57342169 TAA-TTTATATTTTTA
1 TAATTTTTTATTTTAA
57342184 TAATTTTT
1 TAATTTTT
57342192 AAAAGATTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 2
0.79 0.12 0.08
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (16 bp):
TAATTTTTTATTTTAA
Found at i:57343767 original size:26 final size:25
Alignment explanation
Indices: 57343675--57343802 Score: 89
Period size: 26 Copynumber: 4.9 Consensus size: 25
57343665 TTTTAAAGAA
* *
57343675 AAAATTATAGGAAACTTTTAAAATGATTT
1 AAAATTAT--GAAAATTTTAAAA--AATT
*
57343704 AAAATTAT-AAAATTATTTAAAAATT
1 AAAATTATGAAAATT-TTAAAAAATT
* *
57343729 CAATATT-TTAAAATTTTTAAAAAATT
1 -AAAATTATGAAAA-TTTTAAAAAATT
**
57343755 AAAATTATGAAAATTCAAAAAATATT
1 AAAATTATGAAAATTTTAAAAA-ATT
* *
57343781 AAAATTATTAAAAATTTAAAAA
1 AAAATTATGAAAATTTTAAAAA
57343803 CATATAATTT
Statistics
Matches: 80, Mismatches: 13, Indels: 15
0.74 0.12 0.14
Matches are distributed among these distances:
25 16 0.20
26 49 0.61
27 7 0.09
29 8 0.10
ACGTcount: A:0.57, C:0.02, G:0.03, T:0.38
Consensus pattern (25 bp):
AAAATTATGAAAATTTTAAAAAATT
Found at i:57343799 original size:17 final size:17
Alignment explanation
Indices: 57343691--57343801 Score: 70
Period size: 17 Copynumber: 6.4 Consensus size: 17
57343681 ATAGGAAACT
* *
57343691 TTTAAAATGATTTAAAA
1 TTTAAAATTATTAAAAA
57343708 TTATAAAATTATTTAAAAA
1 TT-TAAAATTA-TTAAAAA
* * *
57343727 TTCAATATT-TTAAAATT
1 TTTAAAATTATTAAAA-A
*
57343744 TTTAAAA-AATT-AAAA
1 TTTAAAATTATTAAAAA
57343759 TTATGAAAATTCA--AAAAA
1 TT-T-AAAATT-ATTAAAAA
57343777 TATTAAAATTATTAAAAA
1 T-TTAAAATTATTAAAAA
57343795 TTTAAAA
1 TTTAAAA
57343802 ACATATAATT
Statistics
Matches: 72, Mismatches: 10, Indels: 24
0.68 0.09 0.23
Matches are distributed among these distances:
15 2 0.03
16 11 0.15
17 25 0.35
18 24 0.33
19 10 0.14
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (17 bp):
TTTAAAATTATTAAAAA
Found at i:57343855 original size:37 final size:37
Alignment explanation
Indices: 57343755--57343856 Score: 93
Period size: 37 Copynumber: 2.8 Consensus size: 37
57343745 TTAAAAAATT
* *
57343755 AAAATTATGAAAAT-TCAAAAAATATTAAAATTATTA
1 AAAATTATAAAAATATAAAAAAATATTAAAATTATTA
* **** *
57343791 AAAATT-TAAAAACATATAATTTTTATTAAAATTGTTA
1 AAAATTATAAAAATATA-AAAAAATATTAAAATTATTA
57343828 AAAATTAT-AAAATATAAAAAGAATATTAA
1 AAAATTATAAAAATATAAAAA-AATATTAA
57343857 TTATATTTTC
Statistics
Matches: 49, Mismatches: 13, Indels: 7
0.71 0.19 0.10
Matches are distributed among these distances:
35 5 0.10
36 9 0.18
37 34 0.69
38 1 0.02
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (37 bp):
AAAATTATAAAAATATAAAAAAATATTAAAATTATTA
Found at i:57348721 original size:25 final size:24
Alignment explanation
Indices: 57348676--57348727 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 24
57348666 GTCATTAGGG
* *
57348676 TTACCGATTCCAGCTCTTATGAGC
1 TTACCGATACCAGCTCATATGAGC
57348700 TTACCGATACTCAGCTCATATGAGC
1 TTACCGATAC-CAGCTCATATGAGC
57348725 TTA
1 TTA
57348728 TCGTTATTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 9 0.36
25 16 0.64
ACGTcount: A:0.25, C:0.27, G:0.15, T:0.33
Consensus pattern (24 bp):
TTACCGATACCAGCTCATATGAGC
Found at i:57349007 original size:31 final size:31
Alignment explanation
Indices: 57348948--57349007 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
57348938 TATACATGAA
*
57348948 ATATATAGAAATGATGGTACATGATATATTG
1 ATATATAGAAATGATGATACATGATATATTG
* *
57348979 ATATATTGAAATGGATGATATATG-TATAT
1 ATATATAGAAAT-GATGATACATGATATAT
57349008 GATGAAACGG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 16 0.64
32 9 0.36
ACGTcount: A:0.42, C:0.02, G:0.18, T:0.38
Consensus pattern (31 bp):
ATATATAGAAATGATGATACATGATATATTG
Found at i:57352384 original size:30 final size:29
Alignment explanation
Indices: 57352325--57352395 Score: 101
Period size: 30 Copynumber: 2.4 Consensus size: 29
57352315 AAAATAATAT
*
57352325 TTACATTTT-GGCCCCACTATTTTTAAAA
1 TTACATTTTAGCCCCCACTATTTTTAAAA
57352353 TTACATTTTAGCCCCTCACT-TTTTCTAAAA
1 TTACATTTTAGCCCC-CACTATTTT-TAAAA
57352383 TTACATTTTAGCC
1 TTACATTTTAGCC
57352396 TCGGGAGTTT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 9 0.23
29 8 0.21
30 22 0.56
ACGTcount: A:0.27, C:0.24, G:0.06, T:0.44
Consensus pattern (29 bp):
TTACATTTTAGCCCCCACTATTTTTAAAA
Found at i:57352995 original size:32 final size:32
Alignment explanation
Indices: 57352932--57353033 Score: 102
Period size: 32 Copynumber: 3.2 Consensus size: 32
57352922 GAAAAGAAAT
* * *
57352932 AAAG-AAAAAGAAAAAACAAGAG-AAAGGAGA
1 AAAGAAAAAAGAAGAGAGAAGAGAAAAGGAGA
*
57352962 AAAGAAAAAAGAAGAGAGGAGAGAAAAGGAGA
1 AAAGAAAAAAGAAGAGAGAAGAGAAAAGGAGA
* *
57352994 AACGAAGAAAGAAGAGAGAAGGAGAAGAGAGGA-A
1 AAAGAAAAAAGAAGAGAGAA-GAGAA-A-AGGAGA
57353028 AAAGAA
1 AAAGAA
57353034 CACTAGCGGC
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
30 4 0.07
31 14 0.24
32 25 0.42
33 5 0.08
34 7 0.12
35 4 0.07
ACGTcount: A:0.67, C:0.02, G:0.31, T:0.00
Consensus pattern (32 bp):
AAAGAAAAAAGAAGAGAGAAGAGAAAAGGAGA
Found at i:57353009 original size:25 final size:25
Alignment explanation
Indices: 57352958--57353032 Score: 73
Period size: 25 Copynumber: 3.1 Consensus size: 25
57352948 CAAGAGAAAG
* * *
57352958 GAGAAAA-GAAAAAAGAAGAGAGGA
1 GAGAAAAGGAGAAAAGAAGAAAGAA
*
57352982 GAGAAAAGGAGAAACGAAGAAAGAA
1 GAGAAAAGGAGAAAAGAAGAAAGAA
* * *
57353007 GAGAGAAGGAGAAGAGAGGAAA-AA
1 GAGAAAAGGAGAAAAGAAGAAAGAA
57353031 GA
1 GA
57353033 ACACTAGCGG
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
24 11 0.26
25 31 0.74
ACGTcount: A:0.63, C:0.01, G:0.36, T:0.00
Consensus pattern (25 bp):
GAGAAAAGGAGAAAAGAAGAAAGAA
Found at i:57353135 original size:16 final size:16
Alignment explanation
Indices: 57353112--57353150 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
57353102 AGAGAAAAAG
*
57353112 AAAAGAAAGAAAGGAA
1 AAAAGAAAAAAAGGAA
* *
57353128 AGAAGAAAAAAAGTAA
1 AAAAGAAAAAAAGGAA
57353144 AAAAGAA
1 AAAAGAA
57353151 GAATAGTTGG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.03
Consensus pattern (16 bp):
AAAAGAAAAAAAGGAA
Found at i:57355762 original size:29 final size:29
Alignment explanation
Indices: 57355710--57355791 Score: 96
Period size: 29 Copynumber: 2.8 Consensus size: 29
57355700 AGCTTACAAA
*
57355710 AAAAAATTCAAAATAATT-TTTA-TTTTTT
1 AAAAAATTCAAAA-AATTATATATTTTTTT
57355738 ATAAAAATTCAAAAAATTATATATTTTTTT
1 A-AAAAATTCAAAAAATTATATATTTTTTT
*
57355768 AAAAAATTCTAAATAATATATATA
1 AAAAAATTC-AAAAAAT-TATATA
57355792 GAAAGTTAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
28 5 0.11
29 23 0.49
30 13 0.28
31 6 0.13
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (29 bp):
AAAAAATTCAAAAAATTATATATTTTTTT
Found at i:57364315 original size:31 final size:32
Alignment explanation
Indices: 57364273--57364332 Score: 95
Period size: 31 Copynumber: 1.9 Consensus size: 32
57364263 CTTAACAACC
*
57364273 TAGTGACTTAAATG-AAAACTTTTGAATAAAT
1 TAGTAACTTAAATGAAAAACTTTTGAATAAAT
*
57364304 TAGTAACTTAAATGAAAAATTTTTGAATA
1 TAGTAACTTAAATGAAAAACTTTTGAATA
57364333 GCTCAATGAC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 13 0.50
32 13 0.50
ACGTcount: A:0.47, C:0.05, G:0.12, T:0.37
Consensus pattern (32 bp):
TAGTAACTTAAATGAAAAACTTTTGAATAAAT
Found at i:57365359 original size:6 final size:6
Alignment explanation
Indices: 57365350--57365380 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
57365340 GCTCAGTCGA
57365350 AAGCTC AAGCTC AAGCTC AAGCTC AAGCTC A
1 AAGCTC AAGCTC AAGCTC AAGCTC AAGCTC A
57365381 TGCCCAACTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.35, C:0.32, G:0.16, T:0.16
Consensus pattern (6 bp):
AAGCTC
Found at i:57365395 original size:18 final size:18
Alignment explanation
Indices: 57365350--57365387 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
57365340 GCTCAGTCGA
*
57365350 AAGCTCAAGCTCAAGCTC
1 AAGCTCAAGCTCAAGCCC
*
57365368 AAGCTCAAGCTCATGCCC
1 AAGCTCAAGCTCAAGCCC
57365386 AA
1 AA
57365388 CTCCAAGCAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.34, C:0.34, G:0.16, T:0.16
Consensus pattern (18 bp):
AAGCTCAAGCTCAAGCCC
Found at i:57371318 original size:18 final size:19
Alignment explanation
Indices: 57371290--57371327 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
57371280 TTTATAATAC
*
57371290 TTTATATTATTATGTTATT
1 TTTATATTATTATGTAATT
57371309 TTTATA-TATTATGTAATT
1 TTTATATTATTATGTAATT
57371327 T
1 T
57371328 AGGACACATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (19 bp):
TTTATATTATTATGTAATT
Found at i:57383715 original size:106 final size:107
Alignment explanation
Indices: 57383410--57383716 Score: 440
Period size: 107 Copynumber: 2.9 Consensus size: 107
57383400 TGGATTGAGA
* * * * **
57383410 TTTAAGAGGATATTTGGCTATTTAGTCAAATGAGAAATTGAAACCCAGCATGTTAGGGCACGTTT
1 TTTAATAGGATATTTGGCTATTTGGTCGAACGAGAAATTGAAACCCAGCACATTAGGGCACGTTT
*
57383475 TCTCGAATTTCCAAACGCAAAATATTG-CCTTACTTTGAATT
66 TCTCGAATTTCCAAACGCAAAATATTGTCCTTACTTTGAAAT
* * * *
57383516 TTTAATAGGATATTTGGCTATTTGGTTGAACGAAAAAATCGAAACCCAGCACATTAGGGCACATT
1 TTTAATAGGATATTTGGCTATTTGGTCGAACG-AGAAATTGAAACCCAGCACATTAGGGCACGTT
***
57383581 TTCTCGAATTTCCAAAATTAAAATATTGTCC-TACTTTGAAAT
65 TTCTCGAATTTCCAAACGCAAAATATTGTCCTTACTTTGAAAT
*
57383623 TTTAGA-AGGATATTTGGCTATTTGGTCGAACGAGAAATTGAAACCCAGCACATTAGGACACGTT
1 TTTA-ATAGGATATTTGGCTATTTGGTCGAACGAGAAATTGAAACCCAGCACATTAGGGCACGTT
57383687 TTCTCGAATTTCCAAACGCAAAATATTGTC
65 TTCTCGAATTTCCAAACGCAAAATATTGTC
57383717 TTATTTAGAA
Statistics
Matches: 176, Mismatches: 22, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
106 82 0.47
107 91 0.52
108 3 0.02
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.33
Consensus pattern (107 bp):
TTTAATAGGATATTTGGCTATTTGGTCGAACGAGAAATTGAAACCCAGCACATTAGGGCACGTTT
TCTCGAATTTCCAAACGCAAAATATTGTCCTTACTTTGAAAT
Found at i:57383799 original size:20 final size:21
Alignment explanation
Indices: 57383756--57383800 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
57383746 GTATGATGTT
*
57383756 AATATGCATAATGGAACAATA
1 AATATGCATAATGAAACAATA
57383777 AATATG-ATAATGTAAACAA-A
1 AATATGCATAATG-AAACAATA
57383797 AATA
1 AATA
57383801 ATATGAGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.58, C:0.07, G:0.11, T:0.24
Consensus pattern (21 bp):
AATATGCATAATGAAACAATA
Found at i:57383830 original size:21 final size:21
Alignment explanation
Indices: 57383790--57383830 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
57383780 ATGATAATGT
*
57383790 AAACAAAAATAATATGAGAAA
1 AAACAAAAATAATATAAGAAA
57383811 AAACAAAAAATAATA-AAGAA
1 AAAC-AAAAATAATATAAGAA
57383831 CAAATCAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.76, C:0.05, G:0.07, T:0.12
Consensus pattern (21 bp):
AAACAAAAATAATATAAGAAA
Found at i:57385952 original size:44 final size:44
Alignment explanation
Indices: 57385899--57386195 Score: 253
Period size: 44 Copynumber: 6.8 Consensus size: 44
57385889 TTATCGTTTT
* *
57385899 AATCCGCTCCACTACAACTTCAGGGAGACAAGATTAATAGCTTC
1 AATCTGCTCCACTACAACTTCAGGGAGATAAGATTAATAGCTTC
* * ** *
57385943 AATCAGCTCCACTGCAACTTCAGGGAGATAAGATTGGTATCTTC
1 AATCTGCTCCACTACAACTTCAGGGAGATAAGATTAATAGCTTC
* * *
57385987 AACCTGCTCCACTACAACTTTAGGGAGATAAGGCTT-AT--CTTC
1 AATCTGCTCCACTACAACTTCAGGGAGATAA-GATTAATAGCTTC
* * * * *
57386029 AGTCTGCTCCACTTCAAC-TCTAGGGAGATAAGACTTATTATGGTGC
1 AATCTGCTCCACTACAACTTC-AGGGAGATAAGA-TTAATA-GCTTC
* * * * * * *
57386075 GATCTGCTCTACTGCAACTTCAGAGAGATAAGATTCATCA-TTTT
1 AATCTGCTCCACTACAACTTCAGGGAGATAAGATTAAT-AGCTTC
* * * * *
57386119 AATCCGCTCCATTGCAACTTCAGTGAGATAGGATTAATAGCTTC
1 AATCTGCTCCACTACAACTTCAGGGAGATAAGATTAATAGCTTC
* *
57386163 AATTTGCTCCACTATAACTTCAGGGAGATAAGA
1 AATCTGCTCCACTACAACTTCAGGGAGATAAGA
57386196 CTAGATGCGA
Statistics
Matches: 197, Mismatches: 46, Indels: 20
0.75 0.17 0.08
Matches are distributed among these distances:
41 2 0.01
42 31 0.16
43 2 0.01
44 126 0.64
45 6 0.03
46 28 0.14
47 2 0.01
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (44 bp):
AATCTGCTCCACTACAACTTCAGGGAGATAAGATTAATAGCTTC
Found at i:57386004 original size:88 final size:86
Alignment explanation
Indices: 57385899--57386234 Score: 282
Period size: 88 Copynumber: 3.8 Consensus size: 86
57385889 TTATCGTTTT
* *
57385899 AATCCGCTCCACTACAACTTCAGGGAGACAAGATTAATAGCTTCAATCAGCTCCACTGCAACTTC
1 AATCTGCTCCACTACAACTTCAGGGAGATAAGATT-ATA-CTTCAATCAGCTCCACTGCAACTTC
**
57385964 AGGGAGATAAGATTGGTATCTTC
64 AGGGAGATAAGATTAATATCTTC
* * * * * *
57385987 AACCTGCTCCACTACAACTTTAGGGAGATAAGGCTTAT-CTTCAGTCTGCTCCACTTCAAC-TCT
1 AATCTGCTCCACTACAACTTCAGGGAGATAA-GATTATACTTCAATCAGCTCCACTGCAACTTC-
* * *
57386050 AGGGAGATAAGACTTATTATGGTGC
64 AGGGAGATAAGA-TTAATAT-CTTC
* * * * * * * *
57386075 GATCTGCTCTACTGCAACTTCAGAGAGATAAGATTCATCATTTTAATCCGCTCCATTGCAACTTC
1 AATCTGCTCCACTACAACTTCAGGGAGATAAGATT-AT-ACTTCAATCAGCTCCACTGCAACTTC
* * *
57386140 AGTGAGATAGGATTAATAGCTTC
64 AGGGAGATAAGATTAATATCTTC
* * * * * * * *
57386163 AATTTGCTCCACTATAACTTCAGGGAGATAAGACTAGA-TGCGATCTGCTCTACTGCAACTTCAG
1 AATCTGCTCCACTACAACTTCAGGGAGATAAGATTATACTTCAATCAGCTCCACTGCAACTTCAG
*
57386227 AGAGATAA
66 GGAGATAA
57386235 TATCTGTAGT
Statistics
Matches: 193, Mismatches: 47, Indels: 19
0.75 0.18 0.07
Matches are distributed among these distances:
85 28 0.15
86 32 0.17
87 9 0.05
88 88 0.46
89 8 0.04
90 26 0.13
91 2 0.01
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.28
Consensus pattern (86 bp):
AATCTGCTCCACTACAACTTCAGGGAGATAAGATTATACTTCAATCAGCTCCACTGCAACTTCAG
GGAGATAAGATTAATATCTTC
Found at i:57386039 original size:42 final size:42
Alignment explanation
Indices: 57385899--57386234 Score: 223
Period size: 44 Copynumber: 7.7 Consensus size: 42
57385889 TTATCGTTTT
* *
57385899 AATCCGCTCCACTACAACTTCAGGGAGACAAGA-TTAATAGCTTC
1 AATCTGCTCCACTACAACTTCAGGGAGATAAGACTT-AT--CTTC
* * *
57385943 AATCAGCTCCACTGCAACTTCAGGGAGATAAGATTGGTATCTTC
1 AATCTGCTCCACTACAACTTCAGGGAGATAAGACT--TATCTTC
* * *
57385987 AACCTGCTCCACTACAACTTTAGGGAGATAAGGCTTATCTTC
1 AATCTGCTCCACTACAACTTCAGGGAGATAAGACTTATCTTC
* * *
57386029 AGTCTGCTCCACTTCAAC-TCTAGGGAGATAAGACTTATTATGGTGC
1 AATCTGCTCCACTACAACTTC-AGGGAGATAAGACTTA-TCT--T-C
* * * * *
57386075 GATCTGCTCTACTGCAACTTCAGAGAGATAAGA-TTCATCATTTT
1 AATCTGCTCCACTACAACTTCAGGGAGATAAGACTT-ATC--TTC
* * * * *
57386119 AATCCGCTCCATTGCAACTTCAGTGAGATAGGA-TTAATAGCTTC
1 AATCTGCTCCACTACAACTTCAGGGAGATAAGACTT-AT--CTTC
* * ** *
57386163 AATTTGCTCCACTATAACTTCAGGGAGATAAGAC-TAGATGC
1 AATCTGCTCCACTACAACTTCAGGGAGATAAGACTTATCTTC
* * * *
57386204 GATCTGCTCTACTGCAACTTCAGAGAGATAA
1 AATCTGCTCCACTACAACTTCAGGGAGATAA
57386235 TATCTGTAGT
Statistics
Matches: 231, Mismatches: 46, Indels: 33
0.75 0.15 0.11
Matches are distributed among these distances:
41 28 0.12
42 37 0.16
43 3 0.01
44 123 0.53
45 6 0.03
46 30 0.13
47 4 0.02
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.28
Consensus pattern (42 bp):
AATCTGCTCCACTACAACTTCAGGGAGATAAGACTTATCTTC
Found at i:57386344 original size:130 final size:129
Alignment explanation
Indices: 57385899--57386379 Score: 399
Period size: 130 Copynumber: 3.7 Consensus size: 129
57385889 TTATCGTTTT
* * * * * * *
57385899 AATCCGCTCCACTACAACTTCAGGGAGACAAGATTA-ATAGCTTCAATCAGCTCCACTGCAACTT
1 AATCTGCTCCACTACAACTTCAAGGAGATAAGACTAGAT-G---CGATCTGCTCTACTGCAACTT
* * * * * * *
57385963 CAGGGAGATAAGAT-TGGTA-TCTTCAACCTGCTCCACTACAACTTTAGGGAGATAAGGCTT-AT
62 CAGAGAGATAAGATCT-GTAGT-TTTAACCCGCTCCACTGCAACTTCAGTGAGAT-AGGATTAAT
57386025 --CTTC
124 AGCTTC
* * * *
57386029 AGTCTGCTCCACTTCAAC-TCTAGGGAGATAAGACTTATTATGGTGCGATCTGCTCTACTGCAAC
1 AATCTGCTCCACTACAACTTC-AAGGAGATAAGAC----TA-GATGCGATCTGCTCTACTGCAAC
* * *
57386093 TTCAGAGAGATAAGATTCAT-CA-TTTTAATCCGCTCCATTGCAACTTCAGTGAGATAGGATTAA
60 TTCAGAGAGATAAGA-TC-TGTAGTTTTAACCCGCTCCACTGCAACTTCAGTGAGATAGGATTAA
57386156 TAGCTTC
123 TAGCTTC
* * *
57386163 AATTTGCTCCACTATAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTACTGCAACTTCAGA
1 AATCTGCTCCACTACAACTTCAAGGAGATAAGACTAGATGCGATCTGCTCTACTGCAACTTCAGA
* * ** ** *
57386228 GAGATAATATCTGTAGTTTTAACCCGCTCCACTGTAACTTTTGTAGAGATAGGATTGGCT-TCTT
66 GAGATAAGATCTGTAGTTTTAACCCGCTCCACTGCAACTTCAGT-GAGATAGGATT-AATAGCTT
57386292 C
129 C
** * * *
57386293 TGTCTGCTCCACTGCAACTTCAAGGAGATAAGATTGGATGCGATCTGCTCTACTGCAACTTCAGA
1 AATCTGCTCCACTACAACTTCAAGGAGATAAGACTAGATGCGATCTGCTCTACTGCAACTTCAGA
57386358 GAGATAAGATCTGT-GATTTTAA
66 GAGATAAGATCTGTAG-TTTTAA
57386380 TCTGTTTTAC
Statistics
Matches: 289, Mismatches: 43, Indels: 38
0.78 0.12 0.10
Matches are distributed among these distances:
127 1 0.00
128 3 0.01
129 62 0.21
130 119 0.41
131 6 0.02
132 57 0.20
133 3 0.01
134 33 0.11
135 4 0.01
136 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (129 bp):
AATCTGCTCCACTACAACTTCAAGGAGATAAGACTAGATGCGATCTGCTCTACTGCAACTTCAGA
GAGATAAGATCTGTAGTTTTAACCCGCTCCACTGCAACTTCAGTGAGATAGGATTAATAGCTTC
Found at i:57386510 original size:44 final size:43
Alignment explanation
Indices: 57386462--57386671 Score: 144
Period size: 44 Copynumber: 4.8 Consensus size: 43
57386452 AGATTCGTCG
*
57386462 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTGCAA
1 TCTTCGATCTACTCCACTACTGCTTAGGGAGATAGGATCT-CAA
* * * * *
57386506 TCTTCAACCTACTCCACTGCTGCTCAGGGGGATAGGA-CT-AA
1 TCTTCGATCTACTCCACTACTGCTTAGGGAGATAGGATCTCAA
** * * * *
57386547 TGGCTTAAAT-TAGCTTCC-CTACTACCTT-GAGAAGATAAGAT-TCATCG
1 T--CTTCGATCTA-C-TCCACTACT-GCTTAG-GGAGATAGGATCTCA--A
57386594 TCTTCGATCTACTCCACTACTGCTTAGGGAGATAGGATCTACAA
1 TCTTCGATCTACTCCACTACTGCTTAGGGAGATAGGATCT-CAA
* * * *
57386638 TCTTCGACCTACTCCACTGCTGCTCAGAGAGATA
1 TCTTCGATCTACTCCACTACTGCTTAGGGAGATA
57386672 AGGCTGGTGG
Statistics
Matches: 126, Mismatches: 25, Indels: 30
0.70 0.14 0.17
Matches are distributed among these distances:
41 3 0.02
42 2 0.02
43 13 0.10
44 89 0.71
45 14 0.11
46 4 0.03
47 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.29
Consensus pattern (43 bp):
TCTTCGATCTACTCCACTACTGCTTAGGGAGATAGGATCTCAA
Found at i:57386532 original size:132 final size:132
Alignment explanation
Indices: 57386396--57386895 Score: 668
Period size: 132 Copynumber: 3.8 Consensus size: 132
57386386 TTACTACAAT
* * * **
57386396 CTCAGGGAGAT-AGGATTTGTGGCTTAAATATGTTTCCCTACTACCTTGGAAAGATAAGATTCGT
1 CTCAGGGAGATAAGG-CTTGTGGCTTAAATCTGCTTCCCTACTACCTTGGAAAGATAAGATTCAC
* * *
57386460 CGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTGCAATCTTCAACCTACTCCACTG
65 CGTCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCGACCTACTCCACTG
57386525 CTG
130 CTG
* **
57386528 CTCAGGGGGAT-AGGACTAATGGCTTAAAT-TAGCTTCCCTACTACCTT-GAGAAGATAAGATTC
1 CTCAGGGAGATAAGG-CTTGTGGCTTAAATCT-GCTTCCCTACTACCTTGGA-AAGATAAGATTC
* * *
57386590 ATCGTCTTCGATCTACTCCACTACTGCTTAGGGAGATAGGATCTACAATCTTCGACCTACTCCAC
63 ACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCGACCTACTCCAC
57386655 TGCTG
128 TGCTG
* * * * * **
57386660 CTCAGAGAGATAAGGCTGGTGGCTTAAATCTGTTTCCCTACTACATTGGGAAGATAAGACCCACC
1 CTCAGGGAGATAAGGCTTGTGGCTTAAATCTGCTTCCCTACTACCTTGGAAAGATAAGATTCACC
* *
57386725 GTCTTCGATTTGCTCCACTACTGCTTAGGGAGACAAGATCTACAATCTTCGACCTACTCCACTGC
66 GTCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCGACCTACTCCACTGC
57386790 TG
131 TG
* * * *
57386792 CTCAAGAAGATAAGGC-TGATAGCTTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCAC
1 CTCAGGGAGATAAGGCTTG-TGGCTTAAATCTGCTTCCCTACTACCTTGGAAAGATAAGATTCAC
*
57386856 CGTCTTCAATCTGCTCCACTACTGCTTAGGGAGACAGGAT
65 CGTCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGGAT
57386896 TAGGGGTGAG
Statistics
Matches: 327, Mismatches: 35, Indels: 12
0.87 0.09 0.03
Matches are distributed among these distances:
131 4 0.01
132 318 0.97
133 5 0.02
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (132 bp):
CTCAGGGAGATAAGGCTTGTGGCTTAAATCTGCTTCCCTACTACCTTGGAAAGATAAGATTCACC
GTCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCGACCTACTCCACTGC
TG
Found at i:57386922 original size:5 final size:5
Alignment explanation
Indices: 57386912--57386937 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
57386902 TGAGCATTCG
57386912 ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA A
57386938 AATTTTCGAG
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:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:57388047 original size:9 final size:9
Alignment explanation
Indices: 57388030--57388060 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
57388020 TCGAGTTGAT
57388030 TCGAATAAC
1 TCGAATAAC
*
57388039 TCGATTAAC
1 TCGAATAAC
57388048 TCGAATAAC
1 TCGAATAAC
57388057 TCGA
1 TCGA
57388061 TTCGTTTAAC
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:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:57388635 original size:57 final size:57
Alignment explanation
Indices: 57388565--57388735 Score: 141
Period size: 57 Copynumber: 3.1 Consensus size: 57
57388555 CCAAAATAGC
*
57388565 AAATTTTGCTAAGACGAACTGAATAAGATGAAAAAGATTATCACAATGGACAACATG
1 AAATTTTACTAAGACGAACTGAATAAGATGAAAAAGATTATCACAATGGACAACATG
* * * * *
57388622 AAATTTTATTAAGAGCAAAGCTCG---AA-ATGAATAA-ATTAATCA-AA---ATAGC---
1 AAATTTTACTAAGA-CGAA-CT-GAATAAGATGAAAAAGATT-ATCACAATGGACAACATG
* *
57388671 AAATTTTGCTAAGACGAACTGAATAAGATGAAAAAGATTATCACAATGGACAAGATG
1 AAATTTTACTAAGACGAACTGAATAAGATGAAAAAGATTATCACAATGGACAACATG
*
57388728 GAATTTTA
1 AAATTTTA
57388736 TTGAGAGCAA
Statistics
Matches: 83, Mismatches: 15, Indels: 32
0.64 0.12 0.25
Matches are distributed among these distances:
46 1 0.01
47 2 0.02
48 3 0.04
49 14 0.17
50 11 0.13
51 5 0.06
52 3 0.04
54 2 0.02
55 5 0.06
56 11 0.13
57 20 0.24
58 3 0.04
59 2 0.02
60 1 0.01
ACGTcount: A:0.48, C:0.11, G:0.16, T:0.25
Consensus pattern (57 bp):
AAATTTTACTAAGACGAACTGAATAAGATGAAAAAGATTATCACAATGGACAACATG
Found at i:57388671 original size:106 final size:106
Alignment explanation
Indices: 57388486--57388812 Score: 546
Period size: 106 Copynumber: 3.1 Consensus size: 106
57388476 AGTTATTTCA
* * **
57388486 ATGAAAAATATTATCACAATGGACAAGATAAAATTTTATTGAGAATAAAGCTCGAAATGAATAAA
1 ATGAAAAAGATTATCACAATGGACAAGATGAAATTTTATTGAGAGCAAAGCTCGAAATGAATAAA
*
57388551 TTAACCAAAATAGCAAATTTTGCTAAGACGAACTGAATAAG
66 TTAATCAAAATAGCAAATTTTGCTAAGACGAACTGAATAAG
* *
57388592 ATGAAAAAGATTATCACAATGGACAACATGAAATTTTATTAAGAGCAAAGCTCGAAATGAATAAA
1 ATGAAAAAGATTATCACAATGGACAAGATGAAATTTTATTGAGAGCAAAGCTCGAAATGAATAAA
57388657 TTAATCAAAATAGCAAATTTTGCTAAGACGAACTGAATAAG
66 TTAATCAAAATAGCAAATTTTGCTAAGACGAACTGAATAAG
*
57388698 ATGAAAAAGATTATCACAATGGACAAGATGGAATTTTATTGAGAGCAAAGCTCGAAATGAATAAA
1 ATGAAAAAGATTATCACAATGGACAAGATGAAATTTTATTGAGAGCAAAGCTCGAAATGAATAAA
* *
57388763 TTAATCAAAATAGAAAATTTTGCTAAGATCCGAAATGAATAAG
66 TTAATCAAAATAGCAAATTTTGCTAAGA--CGAACTGAATAAG
57388806 ATGAAAA
1 ATGAAAA
57388813 CAAGTACCCA
Statistics
Matches: 207, Mismatches: 12, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
106 188 0.91
108 19 0.09
ACGTcount: A:0.50, C:0.10, G:0.16, T:0.25
Consensus pattern (106 bp):
ATGAAAAAGATTATCACAATGGACAAGATGAAATTTTATTGAGAGCAAAGCTCGAAATGAATAAA
TTAATCAAAATAGCAAATTTTGCTAAGACGAACTGAATAAG
Found at i:57389100 original size:20 final size:20
Alignment explanation
Indices: 57389072--57389121 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
57389062 CACCTTAGCC
*
57389072 TCTCCTTTTCCTTTTTCTTT
1 TCTCTTTTTCCTTTTTCTTT
**
57389092 TCTCTTTTTTGTTTTTCTTT
1 TCTCTTTTTCCTTTTTCTTT
*
57389112 TCTTTTTTTC
1 TCTCTTTTTC
57389122 GTCTTTTTTT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.00, C:0.22, G:0.02, T:0.76
Consensus pattern (20 bp):
TCTCTTTTTCCTTTTTCTTT
Found at i:57393912 original size:107 final size:106
Alignment explanation
Indices: 57393728--57394087 Score: 535
Period size: 106 Copynumber: 3.4 Consensus size: 106
57393718 GAGATTTAAG
* * * *
57393728 AGGATATTTGGTTATTTGGTCAAACGAGAAATCGAAACCCAACACGTTAGGGCATGTTTTCTCGA
1 AGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAACACATTAGGGCACGTTTTCTCGA
* *
57393793 ATTTCCAGACGCAAAATATTGCCTTACTTTGAAATTTTA-A
66 ATTTCTAAACGCAAAATATTGCCTTACTTTGAAATTTTAGA
* *
57393833 TAGGATATTTGGCTATTTGGTTGAACGAAAAAATCGAAACCCAACACATTAGGGCACGTTTTCTC
1 -AGGATATTTGGCTATTTGGTCGAACG-AGAAATCGAAACCCAACACATTAGGGCACGTTTTCTC
* * *
57393898 GAATTTCTAAACGCAAAATATTGCTTTATTTTTAAATTTTAGA
64 GAATTTCTAAACGCAAAATATTGCCTTACTTTGAAATTTTAGA
* * *
57393941 AGGATATTTGGCTATTTGGTCGAACGAGAAATTGAAACCCAGCACATTAGGACACGTTTTCTCGA
1 AGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAACACATTAGGGCACGTTTTCTCGA
* *
57394006 ATTT-TCAAACTCAAAATATTGTCTTACTTTGAAATTTTAGA
66 ATTTCT-AAACGCAAAATATTGCCTTACTTTGAAATTTTAGA
57394047 AGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCA
1 AGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCA
57394088 GTAAAAAAAT
Statistics
Matches: 229, Mismatches: 22, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
105 1 0.00
106 132 0.58
107 95 0.41
108 1 0.00
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (106 bp):
AGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAACACATTAGGGCACGTTTTCTCGA
ATTTCTAAACGCAAAATATTGCCTTACTTTGAAATTTTAGA
Found at i:57394204 original size:4 final size:4
Alignment explanation
Indices: 57394197--57394236 Score: 53
Period size: 4 Copynumber: 9.2 Consensus size: 4
57394187 TTATGGACAT
57394197 ATAA ATAA ATAA ATAA ATAA ATAA ATGAA CATAA AGTAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA AT-AA -ATAA A-TAA A
57394237 ACAATAATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
4 23 0.70
5 8 0.24
6 2 0.06
ACGTcount: A:0.70, C:0.03, G:0.05, T:0.23
Consensus pattern (4 bp):
ATAA
Found at i:57394265 original size:22 final size:21
Alignment explanation
Indices: 57394197--57394269 Score: 53
Period size: 22 Copynumber: 3.4 Consensus size: 21
57394187 TTATGGACAT
*
57394197 ATAAATAAATAAA-TAAATA-A
1 ATAAAAAAATAAAGTAAA-ACA
*
57394217 ATAAATGAACATAAAGTAAAACA
1 ATAAA--AAAATAAAGTAAAACA
*
57394240 ATAATAAAAATAAAG-AAAATA
1 ATAA-AAAAATAAAGTAAAACA
57394261 GATAAAAAA
1 -ATAAAAAA
57394270 TTATAAAATA
Statistics
Matches: 43, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
20 5 0.12
21 9 0.21
22 19 0.44
23 9 0.21
24 1 0.02
ACGTcount: A:0.73, C:0.03, G:0.05, T:0.19
Consensus pattern (21 bp):
ATAAAAAAATAAAGTAAAACA
Found at i:57394293 original size:19 final size:18
Alignment explanation
Indices: 57394239--57394293 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 18
57394229 AAAGTAAAAC
* *
57394239 AATAATAAAAATAAAGAA
1 AATAATAAAAATATATAA
57394257 AATAGATAAAAA-ATTATAA
1 AATA-ATAAAAATA-TATAA
57394276 AATATATAAAAATATATA
1 AATA-ATAAAAATATATA
57394294 TATGTACATA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
18 5 0.16
19 25 0.81
20 1 0.03
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.25
Consensus pattern (18 bp):
AATAATAAAAATATATAA
Found at i:57394319 original size:23 final size:22
Alignment explanation
Indices: 57394279--57394322 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
57394269 ATTATAAAAT
*
57394279 ATATAAAAATATATATATGTAC
1 ATATAAAAAAATATATATGTAC
57394301 ATATAAGAAAAATATATATGTA
1 ATATAA-AAAAATATATATGTA
57394323 TGTGAATTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.57, C:0.02, G:0.07, T:0.34
Consensus pattern (22 bp):
ATATAAAAAAATATATATGTAC
Found at i:57394492 original size:12 final size:12
Alignment explanation
Indices: 57394475--57394507 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
57394465 AATGGGCAAC
57394475 CAATAATAATAA
1 CAATAATAATAA
57394487 CAATAATAATAA
1 CAATAATAATAA
*
57394499 CCATAATAA
1 CAATAATAA
57394508 AACCTAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.64, C:0.12, G:0.00, T:0.24
Consensus pattern (12 bp):
CAATAATAATAA
Found at i:57409990 original size:17 final size:17
Alignment explanation
Indices: 57409960--57409992 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
57409950 CGTCGATATG
57409960 TTTATATTTAATAATTT
1 TTTATATTTAATAATTT
57409977 TTTAT-TTTATATAATT
1 TTTATATTTA-ATAATT
57409993 AATTTAAGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTATATTTAATAATTT
Found at i:57416390 original size:36 final size:36
Alignment explanation
Indices: 57416342--57416414 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
57416332 TAAATTCGCC
*
57416342 TAAGTCAGCCTATGTAACACCCCTTACCCTACTTGA
1 TAAGTCAACCTATGTAACACCCCTTACCCTACTTGA
*
57416378 TAAGTCAACCTATGTAACACCCCTTACTCTACTTGA
1 TAAGTCAACCTATGTAACACCCCTTACCCTACTTGA
57416414 T
1 T
57416415 CGTTGGGTCT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.29, C:0.32, G:0.10, T:0.30
Consensus pattern (36 bp):
TAAGTCAACCTATGTAACACCCCTTACCCTACTTGA
Found at i:57428575 original size:27 final size:27
Alignment explanation
Indices: 57428531--57428594 Score: 96
Period size: 27 Copynumber: 2.4 Consensus size: 27
57428521 ACATACAAAA
57428531 GAAATTTCAAATCTAATTACCAAATTAT
1 GAAA-TTCAAATCTAATTACCAAATTAT
57428559 GAAATTCAACATC-AATTACCAAATTAT
1 GAAATTCAA-ATCTAATTACCAAATTAT
57428586 -AAATTCAAA
1 GAAATTCAAA
57428595 CTTAATCCCA
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
25 1 0.03
26 8 0.23
27 19 0.54
28 7 0.20
ACGTcount: A:0.50, C:0.16, G:0.03, T:0.31
Consensus pattern (27 bp):
GAAATTCAAATCTAATTACCAAATTAT
Found at i:57431563 original size:21 final size:21
Alignment explanation
Indices: 57431538--57431586 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
57431528 TAAGAAAATG
57431538 AAAAT-ATATAAAATTATCATA
1 AAAATAAT-TAAAATTATCATA
* *
57431559 AAAATAATTAATATTATCATT
1 AAAATAATTAAAATTATCATA
57431580 AAAATAA
1 AAAATAA
57431587 ATATTTTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 23 0.92
22 2 0.08
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (21 bp):
AAAATAATTAAAATTATCATA
Found at i:57431616 original size:25 final size:26
Alignment explanation
Indices: 57431571--57431621 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
57431561 AATAATTAAT
57431571 ATTATCATTAAAATAAATATT-TTTA
1 ATTATCATTAAAATAAATATTATTTA
*
57431596 ATTATCATTAAGAA-AATTATTATTTA
1 ATTATCATTAA-AATAAATATTATTTA
57431622 TCTTAATATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 17 0.74
26 6 0.26
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (26 bp):
ATTATCATTAAAATAAATATTATTTA
Found at i:57434674 original size:26 final size:26
Alignment explanation
Indices: 57434639--57434689 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
57434629 AATGTGAAAG
*
57434639 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
57434665 GGGGTTGCTAAGTGCTGATTCCCCG
1 GGGGTTGCTAAGTGCTGATTCCCCG
57434690 GTTCATTGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.12, C:0.24, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:57434799 original size:105 final size:105
Alignment explanation
Indices: 57434560--57434930 Score: 553
Period size: 103 Copynumber: 3.6 Consensus size: 105
57434550 ATTACATATA
* *
57434560 GAGGGGTTGCTAAGTGCTGATTCCCCTACTT-ATTGGTGGTTGCTAAGTGC-TGAGTCCACCGTA
1 GAGGGGTTGCTAAGTGCTGATTCCCC-AGTTCATTGGTGG-TGCTAAGTGCGTGA-TCCACCATA
*
57434623 T-TTTTAAATGTG-AAAGGGGGTTGCTATGTGCTGATT-CCCC
63 TCTTTGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* *
57434663 GAGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTATGTGCGTGATCCACCATATCT
1 GAGGGGTTGCTAAGTGCTGATTCCCCAGTTCATTGGTGGTGCTAAGTGCGTGATCCACCATATCT
57434728 TTGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 TTGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* *
57434768 AAGGGGTTGCTAAGTGCTGATTCCCCAGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCGTATC
1 GAGGGGTTGCTAAGTGCTGATTCCCCAGTTCATTGGTGGTGCTAAGTGCG-TGATCCACCATATC
57434832 TTTGAAA--TGAAAAGGGGGTTGCTATGTGCTGATTCCCCC
65 TTTGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* *
57434871 GAGGGGTTGCTAAGTGCTGATTCCCC-GATTCAGTGGTGGTGCTAAGTGCGAGATCCACCA
1 GAGGGGTTGCTAAGTGCTGATTCCCCAG-TTCATTGGTGGTGCTAAGTGCGTGATCCACCA
57434931 ATAACGGTTA
Statistics
Matches: 247, Mismatches: 13, Indels: 16
0.89 0.05 0.06
Matches are distributed among these distances:
102 21 0.09
103 132 0.53
104 24 0.10
105 69 0.28
106 1 0.00
ACGTcount: A:0.19, C:0.20, G:0.30, T:0.31
Consensus pattern (105 bp):
GAGGGGTTGCTAAGTGCTGATTCCCCAGTTCATTGGTGGTGCTAAGTGCGTGATCCACCATATCT
TTGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCC
Found at i:57439902 original size:9 final size:9
Alignment explanation
Indices: 57439888--57439921 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
57439878 ATTTTCAAAT
*
57439888 TCGAATAAC
1 TCGAATAAA
*
57439897 TCGAATAAT
1 TCGAATAAA
57439906 TCGAATAAA
1 TCGAATAAA
57439915 TCGAATA
1 TCGAATA
57439922 TAAACTATAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.47, C:0.15, G:0.12, T:0.26
Consensus pattern (9 bp):
TCGAATAAA
Found at i:57439908 original size:18 final size:18
Alignment explanation
Indices: 57439885--57439921 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
57439875 TGAATTTTCA
*
57439885 AATTCGAATAACTCGAAT
1 AATTCGAATAAATCGAAT
57439903 AATTCGAATAAATCGAAT
1 AATTCGAATAAATCGAAT
57439921 A
1 A
57439922 TAAACTATAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.49, C:0.14, G:0.11, T:0.27
Consensus pattern (18 bp):
AATTCGAATAAATCGAAT
Found at i:57440806 original size:72 final size:72
Alignment explanation
Indices: 57440689--57440952 Score: 332
Period size: 72 Copynumber: 3.7 Consensus size: 72
57440679 GTTACTCAGC
* * * *
57440689 TTGATCTTTCAGAAAATCAATTAAACGACCAAATTCCCTTGTCTATAGGGCAGTTGTCATCTTTG
1 TTGATGTTTCAAAAAATCAATTAAACGGCCAAATTCCATTGTCTATAGGGCAGTTGTCATCTTTG
57440754 GAGGAGT
66 GAGGAGT
* * * * *
57440761 TTGATGTTTCAAAAAATAAATTAAATGGTCAAATTCCATTTTCTATAGAGG-AGTTATCATCTTT
1 TTGATGTTTCAAAAAATCAATTAAACGGCCAAATTCCATTGTCTATAG-GGCAGTTGTCATCTTT
* **
57440825 GAAGTTGT
65 GGAGGAGT
* * * *
57440833 TTGATGTTTCAAAAAATCAGTTAAACGGCCAAATTCCCTTGTCTATAAGGCAGTTGTCATATTTG
1 TTGATGTTTCAAAAAATCAATTAAACGGCCAAATTCCATTGTCTATAGGGCAGTTGTCATCTTTG
57440898 GAGGAGT
66 GAGGAGT
* * * *
57440905 TTGATGTTTCAGAAAATCAATTAAATGGTCAAATTCCATTGCCTATAG
1 TTGATGTTTCAAAAAATCAATTAAACGGCCAAATTCCATTGTCTATAG
57440953 TCCAATAATA
Statistics
Matches: 159, Mismatches: 31, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
71 2 0.01
72 155 0.97
73 2 0.01
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.36
Consensus pattern (72 bp):
TTGATGTTTCAAAAAATCAATTAAACGGCCAAATTCCATTGTCTATAGGGCAGTTGTCATCTTTG
GAGGAGT
Found at i:57440951 original size:144 final size:144
Alignment explanation
Indices: 57440689--57440952 Score: 438
Period size: 144 Copynumber: 1.8 Consensus size: 144
57440679 GTTACTCAGC
* * *
57440689 TTGATCTTTCAGAAAATCAATTAAACGACCAAATTCCCTTGTCTATAGGGCAGTTGTCATCTTTG
1 TTGATCTTTCAAAAAATCAATTAAACGACCAAATTCCCTTGTCTATAAGGCAGTTGTCATATTTG
**
57440754 GAGGAGTTTGATGTTTCAAAAAATAAATTAAATGGTCAAATTCCATTTTCTATAGAGGAGTTATC
66 GAGGAGTTTGATGTTTCAAAAAATAAATTAAATGGTCAAATTCCATTGCCTATAGAGGAGTTATC
57440819 ATCTTTGAAGTTGT
131 ATCTTTGAAGTTGT
* * *
57440833 TTGATGTTTCAAAAAATCAGTTAAACGGCCAAATTCCCTTGTCTATAAGGCAGTTGTCATATTTG
1 TTGATCTTTCAAAAAATCAATTAAACGACCAAATTCCCTTGTCTATAAGGCAGTTGTCATATTTG
* *
57440898 GAGGAGTTTGATGTTTCAGAAAATCAATTAAATGGTCAAATTCCATTGCCTATAG
66 GAGGAGTTTGATGTTTCAAAAAATAAATTAAATGGTCAAATTCCATTGCCTATAG
57440953 TCCAATAATA
Statistics
Matches: 110, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
144 110 1.00
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.36
Consensus pattern (144 bp):
TTGATCTTTCAAAAAATCAATTAAACGACCAAATTCCCTTGTCTATAAGGCAGTTGTCATATTTG
GAGGAGTTTGATGTTTCAAAAAATAAATTAAATGGTCAAATTCCATTGCCTATAGAGGAGTTATC
ATCTTTGAAGTTGT
Found at i:57445363 original size:44 final size:44
Alignment explanation
Indices: 57445291--57445452 Score: 164
Period size: 44 Copynumber: 3.7 Consensus size: 44
57445281 GATTTGGCAA
** * * *
57445291 CTTGTCTGTGAATTTGGTGGTTTCATCCAAAACCTACATGGTAG
1 CTTGTCTGCAAATTTGGTGGCTTAATCCACAACCTACATGGTAG
*
57445335 CTTGTCTGCAAATTTGGTAGCTTAATCCACAACCTACATGGTAG
1 CTTGTCTGCAAATTTGGTGGCTTAATCCACAACCTACATGGTAG
* * *** * * **
57445379 CTTATATATTAATTTGGTTG-TTTATCCACAACCTACATGACAG
1 CTTGTCTGCAAATTTGGTGGCTTAATCCACAACCTACATGGTAG
* *
57445422 TTTGTCTGCAAATTTGGTGGCTTAGTCCACA
1 CTTGTCTGCAAATTTGGTGGCTTAATCCACA
57445453 TATATATTGG
Statistics
Matches: 93, Mismatches: 24, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
43 33 0.35
44 60 0.65
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (44 bp):
CTTGTCTGCAAATTTGGTGGCTTAATCCACAACCTACATGGTAG
Found at i:57447824 original size:76 final size:76
Alignment explanation
Indices: 57447734--57447929 Score: 347
Period size: 76 Copynumber: 2.6 Consensus size: 76
57447724 GATATTGTAA
** *
57447734 GTATCCCCTTCTGTCTTCCTTTTTTGGTAGCTTGCATGTGGTTATGTCGAATTGGGAATTTTTAT
1 GTATCCCCTTCTGTCTTCCCCTTCTGGTAGCTTGCATGTGGTTATGTCGAATTGGGAATTTTTAT
57447799 TGTTCTTTCTG
66 TGTTCTTTCTG
*
57447810 GTATCCCCTTCTGTCTTCCCCTTCTGGTAGCTTGCATGTGGTTATGTTGAATTGGGAATTTTTAT
1 GTATCCCCTTCTGTCTTCCCCTTCTGGTAGCTTGCATGTGGTTATGTCGAATTGGGAATTTTTAT
57447875 TGTTCTTTCTG
66 TGTTCTTTCTG
*
57447886 GTATCCCTTTCTGTCTTCCCCTTCTGGTAGCTTGCATGTGGTTA
1 GTATCCCCTTCTGTCTTCCCCTTCTGGTAGCTTGCATGTGGTTA
57447930 AGTCCTTTCA
Statistics
Matches: 115, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
76 115 1.00
ACGTcount: A:0.11, C:0.20, G:0.21, T:0.47
Consensus pattern (76 bp):
GTATCCCCTTCTGTCTTCCCCTTCTGGTAGCTTGCATGTGGTTATGTCGAATTGGGAATTTTTAT
TGTTCTTTCTG
Found at i:57451492 original size:27 final size:28
Alignment explanation
Indices: 57451462--57451567 Score: 106
Period size: 32 Copynumber: 3.5 Consensus size: 28
57451452 TGTCTTGAAT
57451462 TTGTTAGATATTG-ATTATGTTTTAAGC
1 TTGTTAGATATTGAATTATGTTTTAAGC
*
57451489 TTGTTAGATATTGAATTTATTATGTTTCAAGC
1 TTGTTAGATATTG-A---ATTATGTTTTAAGC
*
57451521 TTGTTGGATATTGAATTTATTGTGTTTTAAGC
1 TTGTTAGATATTGAA-TTA---TGTTTTAAGC
*
57451553 TTGTTGGATATTGAA
1 TTGTTAGATATTGAA
57451568 ATGATTGACA
Statistics
Matches: 67, Mismatches: 3, Indels: 13
0.81 0.04 0.16
Matches are distributed among these distances:
27 13 0.19
28 1 0.01
29 3 0.04
31 1 0.01
32 49 0.73
ACGTcount: A:0.25, C:0.04, G:0.20, T:0.51
Consensus pattern (28 bp):
TTGTTAGATATTGAATTATGTTTTAAGC
Found at i:57451514 original size:32 final size:32
Alignment explanation
Indices: 57451475--57451567 Score: 159
Period size: 32 Copynumber: 2.9 Consensus size: 32
57451465 TTAGATATTG
*
57451475 ATTATGTTTTAAGCTTGTTAGATATTGAATTT
1 ATTATGTTTTAAGCTTGTTGGATATTGAATTT
*
57451507 ATTATGTTTCAAGCTTGTTGGATATTGAATTT
1 ATTATGTTTTAAGCTTGTTGGATATTGAATTT
*
57451539 ATTGTGTTTTAAGCTTGTTGGATATTGAA
1 ATTATGTTTTAAGCTTGTTGGATATTGAA
57451568 ATGATTGACA
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 57 1.00
ACGTcount: A:0.26, C:0.04, G:0.19, T:0.51
Consensus pattern (32 bp):
ATTATGTTTTAAGCTTGTTGGATATTGAATTT
Found at i:57451525 original size:59 final size:62
Alignment explanation
Indices: 57451430--57451569 Score: 171
Period size: 59 Copynumber: 2.3 Consensus size: 62
57451420 CCATTTTAGT
* * *
57451430 TTGTTGGATTTTGAAATTATTATGTCTTGAATTTGTTAGATATTG-A-TTA-TGTTTTAAGC
1 TTGTTGGATATTGAAATTATTATGTCTTCAACTTGTTAGATATTGAATTTATTGTTTTAAGC
* * *
57451489 TTGTTAGATATTGAATTTATTATGT-TTCAAGCTTGTTGGATATTGAATTTATTGTGTTTTAAGC
1 TTGTTGGATATTGAAATTATTATGTCTTCAA-CTTGTTAGATATTGAATTTA-T-TGTTTTAAGC
57451553 TTGTTGGATATTGAAAT
1 TTGTTGGATATTGAAAT
57451570 GATTGACAAT
Statistics
Matches: 67, Mismatches: 8, Indels: 7
0.82 0.10 0.09
Matches are distributed among these distances:
58 4 0.06
59 34 0.51
60 1 0.01
61 3 0.04
64 25 0.37
ACGTcount: A:0.26, C:0.04, G:0.19, T:0.51
Consensus pattern (62 bp):
TTGTTGGATATTGAAATTATTATGTCTTCAACTTGTTAGATATTGAATTTATTGTTTTAAGC
Found at i:57452906 original size:20 final size:20
Alignment explanation
Indices: 57452879--57452925 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
57452869 CATCCAAACA
57452879 CCAGAAAAGTAAATCATTTT
1 CCAGAAAAGTAAATCATTTT
* *
57452899 CTAGAAAAGTAAATTATTTT
1 CCAGAAAAGTAAATCATTTT
57452919 CCAGAAA
1 CCAGAAA
57452926 TCATTTTCCG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.47, C:0.13, G:0.11, T:0.30
Consensus pattern (20 bp):
CCAGAAAAGTAAATCATTTT
Found at i:57455203 original size:18 final size:18
Alignment explanation
Indices: 57455180--57455223 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
57455170 CAAAATGAAT
*
57455180 GAAATGAATAGAAATAAA
1 GAAATGAATAGAAACAAA
57455198 GAAATGAATAGAAACAAA
1 GAAATGAATAGAAACAAA
57455216 GAAATGAA
1 GAAATGAA
57455224 AAGTATTCAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.66, C:0.02, G:0.18, T:0.14
Consensus pattern (18 bp):
GAAATGAATAGAAACAAA
Found at i:57465693 original size:24 final size:20
Alignment explanation
Indices: 57465639--57465682 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
57465629 TTAAACCTCT
57465639 TAGGACTCTCATTTTATAGA
1 TAGGACTCTCATTTTATAGA
*
57465659 TAGGACTCTCATTTTGTAGA
1 TAGGACTCTCATTTTATAGA
57465679 TAGG
1 TAGG
57465683 CACTAATCTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.27, C:0.14, G:0.20, T:0.39
Consensus pattern (20 bp):
TAGGACTCTCATTTTATAGA
Found at i:57466881 original size:19 final size:19
Alignment explanation
Indices: 57466857--57466895 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
57466847 ATTGAATGAA
57466857 AAAGAAAGAAAATAAGTTG
1 AAAGAAAGAAAATAAGTTG
*
57466876 AAAGAAAGAATATAAGTTG
1 AAAGAAAGAAAATAAGTTG
57466895 A
1 A
57466896 GTAGATATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.21, T:0.18
Consensus pattern (19 bp):
AAAGAAAGAAAATAAGTTG
Found at i:57468152 original size:12 final size:12
Alignment explanation
Indices: 57468135--57468167 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
57468125 ACATTTTTAA
57468135 AAAAAATTATAT
1 AAAAAATTATAT
*
57468147 AAAAAATGATAT
1 AAAAAATTATAT
57468159 AAAAAATTA
1 AAAAAATTA
57468168 ATACAGATGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (12 bp):
AAAAAATTATAT
Found at i:57478602 original size:109 final size:109
Alignment explanation
Indices: 57478408--57478715 Score: 460
Period size: 109 Copynumber: 2.9 Consensus size: 109
57478398 TAAATTCAAT
* * *
57478408 AGGATATTTGGCAATTTGGTTAAACGAG--AAATCGAAACCCAGTACCTTAGGGCACG-TTCCTC
1 AGGATATTTAGCAATTTGGTTGAACGAGAAAAATCGAAACCCAGTACCTTAGGGCACGTTTTCTC
* *
57478470 GAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTGAA
66 GAATTTCCAAACGCAAAATATTGCCTTATTTTGAAATTTTTAAA
* * * * *
57478514 AGGATATTTAGCTATTTGGTTGAATGAGAAAAATCTATACCCAGTACCTTAGGGCATGTTTTCTC
1 AGGATATTTAGCAATTTGGTTGAACGAGAAAAATCGAAACCCAGTACCTTAGGGCACGTTTTCTC
*
57478579 GAATTTCCAAACACAAAATATTGCCTTATTTTGAAATTTTTAAA
66 GAATTTCCAAACGCAAAATATTGCCTTATTTTGAAATTTTTAAA
* * *
57478623 ATGATATTTAGCCATTTGGTTGAACGAGAAAAATCGACACCCAGTACCTTAGGGCACGTTTTCTC
1 AGGATATTTAGCAATTTGGTTGAACGAGAAAAATCGAAACCCAGTACCTTAGGGCACGTTTTCTC
*
57478688 GAATTTCCAAACGCTAAATATTGCCTTA
66 GAATTTCCAAACGCAAAATATTGCCTTA
57478716 ATCGAAAATG
Statistics
Matches: 180, Mismatches: 19, Indels: 3
0.89 0.09 0.01
Matches are distributed among these distances:
106 24 0.13
108 25 0.14
109 131 0.73
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Consensus pattern (109 bp):
AGGATATTTAGCAATTTGGTTGAACGAGAAAAATCGAAACCCAGTACCTTAGGGCACGTTTTCTC
GAATTTCCAAACGCAAAATATTGCCTTATTTTGAAATTTTTAAA
Found at i:57479252 original size:17 final size:17
Alignment explanation
Indices: 57479230--57479264 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
57479220 AAATGGGTAC
57479230 AAGTGTATA-AATTAAAA
1 AAGTGTATATAA-TAAAA
57479247 AAGTGTATATAATAAAA
1 AAGTGTATATAATAAAA
57479264 A
1 A
57479265 TAGTAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 15 0.88
18 2 0.12
ACGTcount: A:0.60, C:0.00, G:0.11, T:0.29
Consensus pattern (17 bp):
AAGTGTATATAATAAAA
Found at i:57480711 original size:80 final size:80
Alignment explanation
Indices: 57480608--57480767 Score: 311
Period size: 80 Copynumber: 2.0 Consensus size: 80
57480598 GCAAAGACCA
*
57480608 AGAAAGGCCAATTTTGCCCGGTCTTGCCGAATCTTGACTTCTTTTAGTGCTTCTTTTCTTCAAAT
1 AGAAAGGCCAATTTTGCCCGGTCTTGCCGAATCTTGACTTCTTCTAGTGCTTCTTTTCTTCAAAT
57480673 AGCCTCCTTCCAGTC
66 AGCCTCCTTCCAGTC
57480688 AGAAAGGCCAATTTTGCCCGGTCTTGCCGAATCTTGACTTCTTCTAGTGCTTCTTTTCTTCAAAT
1 AGAAAGGCCAATTTTGCCCGGTCTTGCCGAATCTTGACTTCTTCTAGTGCTTCTTTTCTTCAAAT
57480753 AGCCTCCTTCCAGTC
66 AGCCTCCTTCCAGTC
57480768 CACTATGTCT
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
80 79 1.00
ACGTcount: A:0.19, C:0.28, G:0.16, T:0.37
Consensus pattern (80 bp):
AGAAAGGCCAATTTTGCCCGGTCTTGCCGAATCTTGACTTCTTCTAGTGCTTCTTTTCTTCAAAT
AGCCTCCTTCCAGTC
Found at i:57481444 original size:87 final size:88
Alignment explanation
Indices: 57481254--57481703 Score: 529
Period size: 87 Copynumber: 5.2 Consensus size: 88
57481244 CAGGGAGATC
* * * * *
57481254 AGATCTGCAATTCTTCAACCAGCTCCACTACAACCGA-GAGAGGTAAGG-TTTGTCTTCGACCTG
1 AGATCTGCTA-TCTTCAACCAGCTCCACTGCAACCGATGAGAGGCAAGGCTTTGTTTTCGATCTG
* * **
57481317 CTTCACTGTCAACGCAGGAAGATA
65 CTTCGCTGTTAACGCAGGAAGGCA
* * * * * ** * * *
57481341 AAATCAGTTGTCTTCAACCAACTCTTCTACACCCGA-GAGAGGCAAGGCTTTGTTTTTGATCTGC
1 AGATCTGCTATCTTCAACCAGCTCCACTGCAACCGATGAGAGGCAAGGCTTTGTTTTCGATCTGC
*
57481405 TTCGCTGTTAACGTAGGAAGGCA
66 TTCGCTGTTAACGCAGGAAGGCA
* *
57481428 AGATCTGCTATCTTCAACCAGCTCCACTGCAACCGATG-GAAGCAAGGCTTTGTTTTCAATCTGC
1 AGATCTGCTATCTTCAACCAGCTCCACTGCAACCGATGAGAGGCAAGGCTTTGTTTTCGATCTGC
*
57481492 TTTGCTGTTAACGCAGGAAGGCA
66 TTCGCTGTTAACGCAGGAAGGCA
* * * *
57481515 AGATCTGATATCTTCAACCAGCTCCACTGCAACCGATG-GAGGCAAGGCTTTGTTTTTCAAACTA
1 AGATCTGCTATCTTCAACCAGCTCCACTGCAACCGATGAGAGGCAAGGCTTTG-TTTTCGATCTG
*
57481579 CTTCGCTGTTAATGCAGGAAGGCA
65 CTTCGCTGTTAACGCAGGAAGGCA
* * *
57481603 AGATCTACT-TCTTTAACCAGCTCCACTGCAACCAATGA-AGGCAAGGC-TTGTTTTCGATCTGC
1 AGATCTGCTATCTTCAACCAGCTCCACTGCAACCGATGAGAGGCAAGGCTTTGTTTTCGATCTGC
*
57481665 TTCGCTGTTAACGCAGGAAGGTA
66 TTCGCTGTTAACGCAGGAAGGCA
*
57481688 AGATCTGCTGTCTTCA
1 AGATCTGCTATCTTCA
57481704 CTGATCTGTT
Statistics
Matches: 309, Mismatches: 49, Indels: 11
0.84 0.13 0.03
Matches are distributed among these distances:
85 38 0.12
86 40 0.13
87 192 0.62
88 39 0.13
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (88 bp):
AGATCTGCTATCTTCAACCAGCTCCACTGCAACCGATGAGAGGCAAGGCTTTGTTTTCGATCTGC
TTCGCTGTTAACGCAGGAAGGCA
Found at i:57481486 original size:42 final size:42
Alignment explanation
Indices: 57481440--57481570 Score: 106
Period size: 42 Copynumber: 3.0 Consensus size: 42
57481430 ATCTGCTATC
57481440 TTCAACCAGCTCCACTGCAACCGATGGAAGCAAGGCTTTGTT
1 TTCAACCAGCTCCACTGCAACCGATGGAAGCAAGGCTTTGTT
* * *** * * *
57481482 TTCAATCTGCTTTGCTGTTAA-CGCA-GGAAGGCAA-GATCTGATAT
1 TTCAACCAGCTCCACTG-CAACCG-ATGGAA-GCAAGGCTTTG-T-T
*
57481526 CTTCAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTT
1 -TTCAACCAGCTCCACTGCAACCGATGGAAGCAAGGCTTTGTT
57481569 TT
1 TT
57481571 TCAAACTACT
Statistics
Matches: 63, Mismatches: 17, Indels: 18
0.64 0.17 0.18
Matches are distributed among these distances:
42 24 0.38
43 9 0.14
44 9 0.14
45 21 0.33
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.27
Consensus pattern (42 bp):
TTCAACCAGCTCCACTGCAACCGATGGAAGCAAGGCTTTGTT
Found at i:57482778 original size:21 final size:21
Alignment explanation
Indices: 57482752--57482798 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
57482742 GGTACAGCAG
57482752 GATCACCACATGCCCCAATCT
1 GATCACCACATGCCCCAATCT
** *
57482773 GATCACTTCATGCCCCATTCT
1 GATCACCACATGCCCCAATCT
57482794 GATCA
1 GATCA
57482799 ATATTTGAGC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.26, C:0.38, G:0.11, T:0.26
Consensus pattern (21 bp):
GATCACCACATGCCCCAATCT
Found at i:57486430 original size:19 final size:20
Alignment explanation
Indices: 57486401--57486449 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
57486391 CACTTCGTGA
* *
57486401 AAATCTAATGCATATG-ATG
1 AAATGTAATGCAAATGCATG
*
57486420 CAATGTAATGCAAATGCATG
1 AAATGTAATGCAAATGCATG
57486440 AAATG-AATGC
1 AAATGTAATGC
57486450 CTAAAGAGAC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.43, C:0.12, G:0.18, T:0.27
Consensus pattern (20 bp):
AAATGTAATGCAAATGCATG
Found at i:57488015 original size:109 final size:109
Alignment explanation
Indices: 57487821--57488128 Score: 460
Period size: 109 Copynumber: 2.9 Consensus size: 109
57487811 TAAATTCAAT
* * *
57487821 AGGATATTTGGCAATTTGGTTAAACGAG--AAATCGAAACCCAGTACCTTAGGGCACG-TTCCTC
1 AGGATATTTAGCAATTTGGTTGAACGAGAAAAATCGAAACCCAGTACCTTAGGGCACGTTTTCTC
* *
57487883 GAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTGAA
66 GAATTTCCAAACGCAAAATATTGCCTTATTTTGAAATTTTTAAA
* * * * *
57487927 AGGATATTTAGCTATTTGGTTGAATGAGAAAAATCTATACCCAGTACCTTAGGGCATGTTTTCTC
1 AGGATATTTAGCAATTTGGTTGAACGAGAAAAATCGAAACCCAGTACCTTAGGGCACGTTTTCTC
*
57487992 GAATTTCCAAACACAAAATATTGCCTTATTTTGAAATTTTTAAA
66 GAATTTCCAAACGCAAAATATTGCCTTATTTTGAAATTTTTAAA
* * *
57488036 ATGATATTTAGCCATTTGGTTGAACGAGAAAAATCGACACCCAGTACCTTAGGGCACGTTTTCTC
1 AGGATATTTAGCAATTTGGTTGAACGAGAAAAATCGAAACCCAGTACCTTAGGGCACGTTTTCTC
*
57488101 GAATTTCCAAACGCTAAATATTGCCTTA
66 GAATTTCCAAACGCAAAATATTGCCTTA
57488129 ATCGAAAATG
Statistics
Matches: 180, Mismatches: 19, Indels: 3
0.89 0.09 0.01
Matches are distributed among these distances:
106 24 0.13
108 25 0.14
109 131 0.73
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Consensus pattern (109 bp):
AGGATATTTAGCAATTTGGTTGAACGAGAAAAATCGAAACCCAGTACCTTAGGGCACGTTTTCTC
GAATTTCCAAACGCAAAATATTGCCTTATTTTGAAATTTTTAAA
Found at i:57488665 original size:17 final size:17
Alignment explanation
Indices: 57488643--57488677 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
57488633 AAATGGGTAC
57488643 AAGTGTATA-AATTAAAA
1 AAGTGTATATAA-TAAAA
57488660 AAGTGTATATAATAAAA
1 AAGTGTATATAATAAAA
57488677 A
1 A
57488678 TAGTAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 15 0.88
18 2 0.12
ACGTcount: A:0.60, C:0.00, G:0.11, T:0.29
Consensus pattern (17 bp):
AAGTGTATATAATAAAA
Found at i:57499631 original size:24 final size:22
Alignment explanation
Indices: 57499585--57499631 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 22
57499575 AGATAAATTG
*
57499585 TAAAAATATACATGAATTTTAA
1 TAAAAATATACATAAATTTTAA
57499607 TAAAAATATACAAATAAATTTTAA
1 TAAAAATATAC--ATAAATTTTAA
57499631 T
1 T
57499632 TTTATGTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 11 0.50
24 11 0.50
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.36
Consensus pattern (22 bp):
TAAAAATATACATAAATTTTAA
Found at i:57504156 original size:24 final size:24
Alignment explanation
Indices: 57504128--57504179 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
57504118 TTAGTAAGTC
* *
57504128 AAATAAACTATGCTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
57504152 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
57504176 AAAT
1 AAAT
57504180 CTTCTACAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:57508730 original size:82 final size:82
Alignment explanation
Indices: 57508593--57508746 Score: 299
Period size: 82 Copynumber: 1.9 Consensus size: 82
57508583 CTCCAGTGGT
57508593 CAATCTTTTCAAAGTATCCCATGAAACGTTCCTGTCCTGGACATATGGGGAACCATAGAATCCTG
1 CAATCTTTTCAAAGTATCCCATGAAACGTTCCTGTCCTGGACATATGGGGAACCATAGAATCCTG
57508658 TGAATCTTTATTGTAGC
66 TGAATCTTTATTGTAGC
*
57508675 CAATCTTTTCAAAGTATCCCATGAAATGTTCCTGTCCTGGACATATGGGGAACCATAGAATCCTG
1 CAATCTTTTCAAAGTATCCCATGAAACGTTCCTGTCCTGGACATATGGGGAACCATAGAATCCTG
57508740 TGAATCT
66 TGAATCT
57508747 CCATTTCACA
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 71 1.00
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (82 bp):
CAATCTTTTCAAAGTATCCCATGAAACGTTCCTGTCCTGGACATATGGGGAACCATAGAATCCTG
TGAATCTTTATTGTAGC
Found at i:57510275 original size:25 final size:25
Alignment explanation
Indices: 57510239--57510288 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
57510229 CTAAAACCTA
57510239 AGAACCCATGCCAGAGACGGCAGAC
1 AGAACCCATGCCAGAGACGGCAGAC
*
57510264 AGAACCCGTGCCAGAGACGGCAGAC
1 AGAACCCATGCCAGAGACGGCAGAC
57510289 TTTTTTTGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.34, C:0.32, G:0.30, T:0.04
Consensus pattern (25 bp):
AGAACCCATGCCAGAGACGGCAGAC
Found at i:57517305 original size:17 final size:17
Alignment explanation
Indices: 57517283--57517320 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
57517273 TTAAAAACAA
57517283 CATAACTCTTGACCTTT
1 CATAACTCTTGACCTTT
57517300 CATAACTCTTGACCTTT
1 CATAACTCTTGACCTTT
57517317 CATA
1 CATA
57517321 TAACATAACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.26, C:0.29, G:0.05, T:0.39
Consensus pattern (17 bp):
CATAACTCTTGACCTTT
Found at i:57520882 original size:73 final size:72
Alignment explanation
Indices: 57520763--57521004 Score: 315
Period size: 73 Copynumber: 3.3 Consensus size: 72
57520753 TGCTCGGCGC
* * * *
57520763 TTTAGCGGCGTTTTTGAGAAAGCACCGCAATGAACATAAGCCAAAACGACGTCATTTTGTGAGCT
1 TTTAGCGGCGTTTTTAAGAAAGC-TCGCAAAGAACCTAAGCCAAAACGACGTCATTTTGTGAGCT
57520828 TTGGGGGA
65 TTGGGGGA
* *
57520836 TTTAGCGGCGTTTTTAAAAAAGCGTCGCAAAGAACCTAAGCCAAAACGACGTCGTTTTGTGAGCT
1 TTTAGCGGCGTTTTTAAGAAAGC-TCGCAAAGAACCTAAGCCAAAACGACGTCATTTTGTGAGCT
57520901 TTGGGGGA
65 TTGGGGGA
* * * * * *
57520909 TTTAGCGGCGTTTTTGAGGAAGCTCCGCAAAGAACCTAAGCCAAAATGACGCCGA-TTTATAAGC
1 TTTAGCGGCGTTTTTAAGAAAGCT-CGCAAAGAACCTAAGCCAAAACGACGTC-ATTTTGTGAGC
*
57520973 TTTCGGGGA
64 TTTGGGGGA
*
57520982 TTTAGCGGCGTTTTTAGGAAAGC
1 TTTAGCGGCGTTTTTAAGAAAGC
57521005 GCCGCTAATG
Statistics
Matches: 148, Mismatches: 19, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
72 1 0.01
73 147 0.99
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.26
Consensus pattern (72 bp):
TTTAGCGGCGTTTTTAAGAAAGCTCGCAAAGAACCTAAGCCAAAACGACGTCATTTTGTGAGCTT
TGGGGGA
Found at i:57521237 original size:114 final size:113
Alignment explanation
Indices: 57520909--57521237 Score: 412
Period size: 114 Copynumber: 2.9 Consensus size: 113
57520899 CTTTGGGGGA
* * * * * * *
57520909 TTTAGCGGCGTTTTTGAGGAAGCTCCGCAAAGAACCTAAGCCAAAATGACGCCGATTTATAAGCT
1 TTTAGC-GAGTTTTTGAGAAAGCGCCGCAAAGAACCTAAGCCAAAACGACGCCGTTTTGTGAGCT
* *
57520974 TTCGGGGATTTAGCGGCGTTTTTAGGAAAGCGCCGCTAATGCTCAGGGC
65 TTCGGGGATTTAGCGGCGTTTTTATGAAAGCGCCGCTAATGCTCAAGGC
* * * * *
57521023 TTTAGCGACGTTTTTGAGAAAGCGCCGTAAAAAACTTAAGCCAAAACAACGCCATTTTGTGAGCT
1 TTTAGCGA-GTTTTTGAGAAAGCGCCGCAAAGAACCTAAGCCAAAACGACGCCGTTTTGTGAGCT
*
57521088 TTCGGGGATTTAGCGGCGTTTTTATGAAAGTGCCGCTAATGCTCAAGGC
65 TTCGGGGATTTAGCGGCGTTTTTATGAAAGCGCCGCTAATGCTCAAGGC
*
57521137 TTTAGCG-GTAATTTTCGA-AAAGCGCCGCAAAGAACCTAAGCCAAAACGACGTCGTTTTGTGAG
1 TTTAGCGAGT--TTTT-GAGAAAGCGCCGCAAAGAACCTAAGCCAAAACGACGCCGTTTTGTGAG
* * *
57521200 CTTTGGGGGATTTAGTGGCGTTTTCGATG-AAGCGCCGC
63 CTTTCGGGGATTTAGCGGCGTTTT-TATGAAAGCGCCGC
57521238 AAAAAACCTA
Statistics
Matches: 185, Mismatches: 25, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
112 2 0.01
113 1 0.01
114 177 0.96
115 5 0.03
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (113 bp):
TTTAGCGAGTTTTTGAGAAAGCGCCGCAAAGAACCTAAGCCAAAACGACGCCGTTTTGTGAGCTT
TCGGGGATTTAGCGGCGTTTTTATGAAAGCGCCGCTAATGCTCAAGGC
Found at i:57521244 original size:187 final size:189
Alignment explanation
Indices: 57521023--57521498 Score: 557
Period size: 187 Copynumber: 2.5 Consensus size: 189
57521013 TGCTCAGGGC
* * * * * * *
57521023 TTTAGCGACGTTTTTG-AGAAAGCGCCGTAAAAAACTTAAGCCAAAACAACGCCATTTTGTGAGC
1 TTTAGCGGCGTTTTCGAAGAAAGCGCCGCAAAAAACCTAAGCCAAAACGACGCCGTTTTATGAGC
* * *
57521087 TTTCGGGGATTTAGCGGCGTTTTTATGAAAGTGCCGCTAATGCTCAAGGCTTTAGC-G-GTAATT
66 TTTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAAGGCTTTAACGGCGT-ATT
* * * * * * *
57521150 TTCGAAAAGCGCCGCAAAGAACCTAAGCCAAAACGACGTCG-TTTTGTGAGCTTTGGGGGA
130 TTAG-AAAGCACAGCAAAAAACCTAAGCCAAAACAACGCCGTTTTTGTGAGCTTTCGGGGA
* * * *
57521210 TTTAGTGGCGTTTTCGATG-AAGCGCCGCAAAAAACCTAAGGCAAAACGACGCTGTTTTATGAGC
1 TTTAGCGGCGTTTTCGAAGAAAGCGCCGCAAAAAACCTAAGCCAAAACGACGCCGTTTTATGAGC
* * * * *
57521274 TTTCGAGGATTTAGCGGTGTTTTTAAGAAAGCGCCGCTAATGCTTAGGGCTTTAACGGCGTTTTT
66 TTTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAAGGCTTTAACGGCGTATTT
*
57521339 TAGAAAGCACAGCAAAAAACCTAGGCCAAAACAACGCCGTTTTTGTGAGCTTTCGGGGA
131 TAGAAAGCACAGCAAAAAACCTAAGCCAAAACAACGCCGTTTTTGTGAGCTTTCGGGGA
** * * * *
57521398 TTTAGCGGCGTTTTTTAAGAAAGCGCCGCAAAGAACCTAAGCCAAAATGACGTCGTTTTTTGAGC
1 TTTAGCGGCGTTTTCGAAGAAAGCGCCGCAAAAAACCTAAGCCAAAACGACGCCGTTTTATGAGC
* * * * *
57521463 TTTGGGGGATTTAGTGGCGTTTATGAGGAAGCGCCG
66 TTTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCG
57521499 TAAAAAAACC
Statistics
Matches: 240, Mismatches: 44, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
187 130 0.54
188 40 0.17
189 70 0.29
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (189 bp):
TTTAGCGGCGTTTTCGAAGAAAGCGCCGCAAAAAACCTAAGCCAAAACGACGCCGTTTTATGAGC
TTTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAAGGCTTTAACGGCGTATTT
TAGAAAGCACAGCAAAAAACCTAAGCCAAAACAACGCCGTTTTTGTGAGCTTTCGGGGA
Found at i:57521256 original size:73 final size:72
Alignment explanation
Indices: 57521148--57521310 Score: 202
Period size: 73 Copynumber: 2.2 Consensus size: 72
57521138 TTAGCGGTAA
* * * *
57521148 TTTTCGAAAAGCGCCGCAAAGAACCTAAGCCAAAACGACG-TCGTTTTGTGAGCTTTGGGGGATT
1 TTTTCGAAAAGCGCCGCAAAAAACCTAAGCCAAAACGACGCT-GTTTTATGAGCTTTCGAGGATT
*
57521212 TAGTGGCG
65 TAGCGGCG
* *
57521220 TTTTCGATGAAGCGCCGCAAAAAACCTAAGGCAAAACGACGCTGTTTTATGAGCTTTCGAGGATT
1 TTTTCGA-AAAGCGCCGCAAAAAACCTAAGCCAAAACGACGCTGTTTTATGAGCTTTCGAGGATT
*
57521285 TAGCGGTG
65 TAGCGGCG
**
57521293 TTTTTAAGAAAGCGCCGC
1 TTTTCGA-AAAGCGCCGC
57521311 TAATGCTTAG
Statistics
Matches: 77, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
72 7 0.09
73 69 0.90
74 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.26
Consensus pattern (72 bp):
TTTTCGAAAAGCGCCGCAAAAAACCTAAGCCAAAACGACGCTGTTTTATGAGCTTTCGAGGATTT
AGCGGCG
Found at i:57521286 original size:301 final size:303
Alignment explanation
Indices: 57520853--57521426 Score: 900
Period size: 301 Copynumber: 1.9 Consensus size: 303
57520843 GCGTTTTTAA
*
57520853 AAAAGCGTCGCAAAGAACCTAAGCCAAAACGACGTCGTTTTGTGAGCTTTGGGGGATTTAGCGGC
1 AAAAGCGCCGCAAAGAACCTAAGCCAAAACGACGTCGTTTTGTGAGCTTTGGGGGATTTAGCGGC
* * * * *
57520918 GTTTTTGAGGAAGCTCCGCAAAGAACCTAAGCCAAAATGACGCCGATTTATAAGCTTTCGGGGAT
66 GTTTTCGAGGAAGCGCCGCAAAAAACCTAAGCCAAAACGACGCCGATTTATAAGCTTTCGAGGAT
* * *
57520983 TTAGCGGCGTTTTTAGGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGACGTTTTTGAGAAAGCGC
131 TTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAACGACGTTTTTGAGAAAGCAC
* * *
57521048 CGTAAAAAACTTAAGCCAAAACAACGCC-ATTTTGTGAGCTTTCGGGGATTTAGCGGCG-TTTTT
196 AGCAAAAAACCTAAGCCAAAACAACGCCGATTTTGTGAGCTTTCGGGGATTTAGCGGCGTTTTTT
* *
57521111 ATGAAAGTGCCGCTAATGCTCAAGGCTTTAGCGGTAATTTTCG
261 AAGAAAGCGCCGCTAATGCTCAAGGCTTTAGCGGTAATTTTCG
*
57521154 AAAAGCGCCGCAAAGAACCTAAGCCAAAACGACGTCGTTTTGTGAGCTTTGGGGGATTTAGTGGC
1 AAAAGCGCCGCAAAGAACCTAAGCCAAAACGACGTCGTTTTGTGAGCTTTGGGGGATTTAGCGGC
* * * * *
57521219 GTTTTCGATGAAGCGCCGCAAAAAACCTAAGGCAAAACGACGCTGTTTTATGAGCTTTCGAGGAT
66 GTTTTCGAGGAAGCGCCGCAAAAAACCTAAGCCAAAACGACGCCGATTTATAAGCTTTCGAGGAT
* * * *
57521284 TTAGCGGTGTTTTTAAGAAAGCGCCGCTAATGCTTAGGGCTTTAACGGCGTTTTTTAGAAAGCAC
131 TTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAACGACGTTTTTGAGAAAGCAC
* *
57521349 AGCAAAAAACCTAGGCCAAAACAACGCCGTTTTTGTGAGCTTTCGGGGATTTAGCGGCGTTTTTT
196 AGCAAAAAACCTAAGCCAAAACAACGCCGATTTTGTGAGCTTTCGGGGATTTAGCGGCGTTTTTT
57521414 AAGAAAGCGCCGC
261 AAGAAAGCGCCGC
57521427 AAAGAACCTA
Statistics
Matches: 245, Mismatches: 26, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
301 200 0.82
302 29 0.12
303 16 0.07
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (303 bp):
AAAAGCGCCGCAAAGAACCTAAGCCAAAACGACGTCGTTTTGTGAGCTTTGGGGGATTTAGCGGC
GTTTTCGAGGAAGCGCCGCAAAAAACCTAAGCCAAAACGACGCCGATTTATAAGCTTTCGAGGAT
TTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAACGACGTTTTTGAGAAAGCAC
AGCAAAAAACCTAAGCCAAAACAACGCCGATTTTGTGAGCTTTCGGGGATTTAGCGGCGTTTTTT
AAGAAAGCGCCGCTAATGCTCAAGGCTTTAGCGGTAATTTTCG
Found at i:57521472 original size:74 final size:73
Alignment explanation
Indices: 57521324--57521572 Score: 302
Period size: 73 Copynumber: 3.4 Consensus size: 73
57521314 TGCTTAGGGC
* * * * * ** *
57521324 TTTAACGGCGTTTTTTAGAAAGCACAGCAAAAAACCTAGGCCAAAACAACGCCGTTTTTGTGAGC
1 TTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAACCTAAGCCAAAATGACGTCGTTTTT-TGAGC
57521389 TTTCGGGGA
65 TTTCGGGGA
*
57521398 TTTAGCGGCGTTTTTTAAGAAAGCGCCGCAAAGAACCTAAGCCAAAATGACGTCGTTTTTTGAGC
1 TTTAGCGGCG-TTTTTAAGAAAGCGCCGCAAAAAACCTAAGCCAAAATGACGTCGTTTTTTGAGC
*
57521463 TTTGGGGGA
65 TTTCGGGGA
* * * * * * *
57521472 TTTAGTGGCGTTTATGAGGAAGCGCCGTAAAAAAACCT-ATCCAAAATGACGTCGTTTTATGAGC
1 TTTAGCGGCGTTTTTAAGAAAGCGCCG-CAAAAAACCTAAGCCAAAATGACGTCGTTTTTTGAGC
57521536 TTTCGGGGA
65 TTTCGGGGA
*
57521545 TTTAGCGGCGTTTTTAGGAAAGCGCCGC
1 TTTAGCGGCGTTTTTAAGAAAGCGCCGC
57521573 TAATGCTTAG
Statistics
Matches: 148, Mismatches: 25, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
73 68 0.46
74 39 0.26
75 41 0.28
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (73 bp):
TTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAACCTAAGCCAAAATGACGTCGTTTTTTGAGCT
TTCGGGGA
Found at i:57521787 original size:14 final size:14
Alignment explanation
Indices: 57521752--57521804 Score: 61
Period size: 14 Copynumber: 3.8 Consensus size: 14
57521742 TAAATATCAC
57521752 TATAGTTTAGGGTT
1 TATAGTTTAGGGTT
* * *
57521766 TTTGGTTTAGGGTA
1 TATAGTTTAGGGTT
*
57521780 TATAGTTTAGAGTT
1 TATAGTTTAGGGTT
*
57521794 TAAAGTTTAGG
1 TATAGTTTAGG
57521805 TGTTACCATT
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
14 30 1.00
ACGTcount: A:0.25, C:0.00, G:0.28, T:0.47
Consensus pattern (14 bp):
TATAGTTTAGGGTT
Found at i:57521839 original size:22 final size:21
Alignment explanation
Indices: 57521814--57521866 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 21
57521804 GTGTTACCAT
*
57521814 TTTAAGGTTTATTGATTATGGG
1 TTTAAGGTTTATGGATTAT-GG
* *
57521836 TTTAAGGGTTATGGTTTATGG
1 TTTAAGGTTTATGGATTATGG
57521857 TTTAAAGGTT
1 TTT-AAGGTT
57521867 GGGGTTTAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 5 0.19
22 21 0.81
ACGTcount: A:0.23, C:0.00, G:0.28, T:0.49
Consensus pattern (21 bp):
TTTAAGGTTTATGGATTATGG
Found at i:57521860 original size:21 final size:21
Alignment explanation
Indices: 57521814--57521942 Score: 79
Period size: 21 Copynumber: 6.2 Consensus size: 21
57521804 GTGTTACCAT
* * *
57521814 TTTAAGGTTTATTGATTATGGG
1 TTTAAGGGTTATGGTTTAT-GG
57521836 TTTAAGGGTTATGGTTTATGG
1 TTTAAGGGTTATGGTTTATGG
* ** *
57521857 TTTAAAGGTTGGGGTTTAAGG
1 TTTAAGGGTTATGGTTTATGG
**
57521878 TTT-AGAGGTTAT-GTGCAT-G
1 TTTAAG-GGTTATGGTTTATGG
*
57521897 -TTAAGGGTTTATGGTTTTAGGG
1 TTTAAGGG-TTATGG-TTTATGG
* *
57521919 TTT-AGGTTTATGGTTTAGGG
1 TTTAAGGGTTATGGTTTATGG
57521939 TTTA
1 TTTA
57521943 GATTAACTAG
Statistics
Matches: 82, Mismatches: 17, Indels: 17
0.71 0.15 0.15
Matches are distributed among these distances:
18 4 0.05
19 7 0.09
20 15 0.18
21 34 0.41
22 20 0.24
23 2 0.02
ACGTcount: A:0.20, C:0.01, G:0.33, T:0.47
Consensus pattern (21 bp):
TTTAAGGGTTATGGTTTATGG
Found at i:57521922 original size:7 final size:7
Alignment explanation
Indices: 57521900--57521943 Score: 54
Period size: 7 Copynumber: 6.3 Consensus size: 7
57521890 GTGCATGTTA
57521900 AGGGTTT
1 AGGGTTT
*
57521907 ATGGTTTT
1 A-GGGTTT
57521915 AGGGTTT
1 AGGGTTT
57521922 A-GGTTT
1 AGGGTTT
*
57521928 ATGGTTT
1 AGGGTTT
57521935 AGGGTTT
1 AGGGTTT
57521942 AG
1 AG
57521944 ATTAACTAGT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
6 6 0.19
7 20 0.62
8 6 0.19
ACGTcount: A:0.16, C:0.00, G:0.36, T:0.48
Consensus pattern (7 bp):
AGGGTTT
Found at i:57521940 original size:14 final size:14
Alignment explanation
Indices: 57521829--57521943 Score: 58
Period size: 14 Copynumber: 7.8 Consensus size: 14
57521819 GGTTTATTGA
57521829 TTATGGGTTTAAGGG-
1 TTAT-GGTTT-AGGGT
*
57521844 TTATGGTTTATGGT
1 TTATGGTTTAGGGT
* *
57521858 TTAAAGG-TTGGGGT
1 TT-ATGGTTTAGGGT
*
57521872 TTAAGGTTTAGAGG-
1 TTATGGTTTAG-GGT
57521886 TTATGTGCATGTTAAGGGT
1 TTATG-G--T-TT-AGGGT
57521905 TTATGGTTTTAGGGT
1 TTATGG-TTTAGGGT
*
57521920 TTA-GGTTTATGGT
1 TTATGGTTTAGGGT
*
57521933 TTAGGGTTTAG
1 TTATGGTTTAG
57521944 ATTAACTAGT
Statistics
Matches: 80, Mismatches: 9, Indels: 23
0.71 0.08 0.21
Matches are distributed among these distances:
13 17 0.21
14 29 0.36
15 18 0.22
16 2 0.03
17 2 0.03
18 5 0.06
19 7 0.09
ACGTcount: A:0.19, C:0.01, G:0.35, T:0.45
Consensus pattern (14 bp):
TTATGGTTTAGGGT
Found at i:57522289 original size:14 final size:15
Alignment explanation
Indices: 57522232--57522294 Score: 53
Period size: 14 Copynumber: 4.4 Consensus size: 15
57522222 GATTTAAAGG
*
57522232 TTTAGGGGTTA-GTA
1 TTTAGGGGTTAGGGA
*
57522246 GTTAGGGGTTATGGG-
1 TTTAGGGGTTA-GGGA
* *
57522261 -TTAAGAGTTAGGGA
1 TTTAGGGGTTAGGGA
57522275 TTTAGGGGTTA-GGA
1 TTTAGGGGTTAGGGA
57522289 TTTAGG
1 TTTAGG
57522295 AATTTAAGGG
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
13 3 0.08
14 27 0.69
15 8 0.21
16 1 0.03
ACGTcount: A:0.22, C:0.00, G:0.41, T:0.37
Consensus pattern (15 bp):
TTTAGGGGTTAGGGA
Found at i:57522293 original size:22 final size:22
Alignment explanation
Indices: 57522232--57522320 Score: 78
Period size: 22 Copynumber: 4.2 Consensus size: 22
57522222 GATTTAAAGG
*
57522232 TTTAGGGGTTAGTAGTTAGGG-
1 TTTAGGGGTTAGGAGTTAGGGA
* * *
57522253 GTTATGGGTTAAGAGTTAGGGA
1 TTTAGGGGTTAGGAGTTAGGGA
* *
57522275 TTTAGGGGTTAGGATTTAGGAA
1 TTTAGGGGTTAGGAGTTAGGGA
* *
57522297 TTTAAGGG-TCGG-GTTAGGG-
1 TTTAGGGGTTAGGAGTTAGGGA
57522316 TTTAG
1 TTTAG
57522321 ATTAATTACT
Statistics
Matches: 53, Mismatches: 14, Indels: 4
0.75 0.20 0.06
Matches are distributed among these distances:
19 4 0.08
20 5 0.09
21 20 0.38
22 24 0.45
ACGTcount: A:0.22, C:0.01, G:0.40, T:0.36
Consensus pattern (22 bp):
TTTAGGGGTTAGGAGTTAGGGA
Found at i:57522583 original size:29 final size:29
Alignment explanation
Indices: 57522550--57522623 Score: 96
Period size: 30 Copynumber: 2.5 Consensus size: 29
57522540 TATTTTTCGT
57522550 GATTTAAAATTTTAAAATAAATTTT-AAAA
1 GATTTAAAATTTTAAAA-AAATTTTAAAAA
*
57522579 GATTTCAAAATTTTTAAAAAATTTTAAAAA
1 GATTT-AAAATTTTAAAAAAATTTTAAAAA
*
57522609 GAATTTAAACTTTTA
1 G-ATTTAAAATTTTA
57522624 TTTTTATAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
29 12 0.31
30 23 0.59
31 4 0.10
ACGTcount: A:0.51, C:0.03, G:0.04, T:0.42
Consensus pattern (29 bp):
GATTTAAAATTTTAAAAAAATTTTAAAAA
Found at i:57522595 original size:19 final size:19
Alignment explanation
Indices: 57522571--57522607 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
57522561 TTAAAATAAA
*
57522571 TTTTAAAAGATTTCAAAAT
1 TTTTAAAAAATTTCAAAAT
*
57522590 TTTTAAAAAATTTTAAAA
1 TTTTAAAAAATTTCAAAA
57522608 AGAATTTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (19 bp):
TTTTAAAAAATTTCAAAAT
Found at i:57522598 original size:10 final size:10
Alignment explanation
Indices: 57522555--57522608 Score: 56
Period size: 10 Copynumber: 5.3 Consensus size: 10
57522545 TTCGTGATTT
57522555 AAAATTTTAAA
1 AAAATTTT-AA
57522566 ATAAATTTTAA
1 A-AAATTTTAA
* *
57522577 AAGA-TTTCA
1 AAAATTTTAA
*
57522586 AAATTTTTAA
1 AAAATTTTAA
57522596 AAAATTTTAA
1 AAAATTTTAA
57522606 AAA
1 AAA
57522609 GAATTTAAAC
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
9 6 0.17
10 18 0.51
11 4 0.11
12 7 0.20
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (10 bp):
AAAATTTTAA
Found at i:57523148 original size:68 final size:69
Alignment explanation
Indices: 57523071--57523208 Score: 260
Period size: 68 Copynumber: 2.0 Consensus size: 69
57523061 TTTGATACAG
57523071 AAATTTAATTTTTAGCAAAAATTATACAATTAGTGCCG-TTTTTTATAAGCGCCACAAATATTTA
1 AAATTTAATTTTTAGCAAAAATTATACAATTAGTGCCGTTTTTTTATAAGCGCCACAAATATTTA
57523135 CAAT
66 CAAT
*
57523139 AAATTTAATTTTTAGCAAAAATTATACAATTAGTGGCGTTTTTTTATAAGCGCCACAAATATTTA
1 AAATTTAATTTTTAGCAAAAATTATACAATTAGTGCCGTTTTTTTATAAGCGCCACAAATATTTA
57523204 CAAT
66 CAAT
57523208 A
1 A
57523209 CCAAAATGGC
Statistics
Matches: 68, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
68 37 0.54
69 31 0.46
ACGTcount: A:0.40, C:0.12, G:0.09, T:0.38
Consensus pattern (69 bp):
AAATTTAATTTTTAGCAAAAATTATACAATTAGTGCCGTTTTTTTATAAGCGCCACAAATATTTA
CAAT
Found at i:57524694 original size:23 final size:23
Alignment explanation
Indices: 57524668--57524735 Score: 77
Period size: 23 Copynumber: 3.0 Consensus size: 23
57524658 ATATGTTGTT
57524668 AATTGATA-TGTTAAAGTGCTACA
1 AATTGA-AGTGTTAAAGTGCTACA
**
57524691 AATTGAAGTGTTTAAA-TGCTGTA
1 AATTGAAGTG-TTAAAGTGCTACA
*
57524714 ACTTGAAGTGTTAAAGTGCTAC
1 AATTGAAGTGTTAAAGTGCTAC
57524736 TTTCCATTGT
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
22 6 0.16
23 26 0.70
24 5 0.14
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (23 bp):
AATTGAAGTGTTAAAGTGCTACA
Found at i:57525720 original size:42 final size:42
Alignment explanation
Indices: 57525595--57525820 Score: 308
Period size: 42 Copynumber: 5.3 Consensus size: 42
57525585 TTTCCATGAC
* *
57525595 CTTTAGCGGCATTTTTGGGGAAAGCGTCGCTAAAGGTCTTGTT
1 CTTTAGCGGCGTTTTT-GGGAAAGCGCCGCTAAAGGTCTTGTT
* ** *
57525638 CTTTAGCGGCATTTTTGAAAAAAGCGCTGCTAAAGGTCTTGTT
1 CTTTAGCGGCGTTTTTG-GGAAAGCGCCGCTAAAGGTCTTGTT
* * *
57525681 CTTTAGCGACGTTTTTGGAAAAGCGCCGCTAAAGTTCTTGTT
1 CTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAAAGGTCTTGTT
57525723 CTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAAAGGTCTTGTT
1 CTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAAAGGTCTTGTT
* ** **
57525765 CTTTAGCGGCGTTTTTGGGAAAGCGCCACTAAAGGTCACGAC
1 CTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAAAGGTCTTGTT
57525807 CTTTAGCGGCGTTT
1 CTTTAGCGGCGTTT
57525821 ATTTTTAAAA
Statistics
Matches: 165, Mismatches: 17, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
42 113 0.68
43 52 0.32
ACGTcount: A:0.20, C:0.19, G:0.27, T:0.33
Consensus pattern (42 bp):
CTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAAAGGTCTTGTT
Found at i:57526961 original size:24 final size:24
Alignment explanation
Indices: 57526929--57526974 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
57526919 CATTAAAAAC
*
57526929 AACATAACTCTTGACCTTTCATAT
1 AACATAACTCTTGACATTTCATAT
57526953 AACATAACTCTTGACATTTCAT
1 AACATAACTCTTGACATTTCAT
57526975 TTAATTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.35, C:0.24, G:0.04, T:0.37
Consensus pattern (24 bp):
AACATAACTCTTGACATTTCATAT
Found at i:57528793 original size:21 final size:21
Alignment explanation
Indices: 57528762--57528810 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
57528752 ATCATTGATT
*
57528762 TTAATCATATTACTACAA-TA
1 TTAATCTTATTACTACAATTA
*
57528782 TTCAATCTTATTGCTACAATTA
1 TT-AATCTTATTACTACAATTA
57528804 TTAATCT
1 TTAATCT
57528811 CACTGACACT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 2 0.08
21 19 0.76
22 4 0.16
ACGTcount: A:0.37, C:0.16, G:0.02, T:0.45
Consensus pattern (21 bp):
TTAATCTTATTACTACAATTA
Found at i:57530427 original size:6 final size:6
Alignment explanation
Indices: 57530408--57530451 Score: 70
Period size: 6 Copynumber: 7.2 Consensus size: 6
57530398 ATTTTTCAGG
*
57530408 TCATCT TCATTTT TCATTT TCATTT TCATTT TCATTT TCATTT T
1 TCATTT TCA-TTT TCATTT TCATTT TCATTT TCATTT TCATTT T
57530452 GGAGAAAACA
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
6 31 0.86
7 5 0.14
ACGTcount: A:0.16, C:0.18, G:0.00, T:0.66
Consensus pattern (6 bp):
TCATTT
Found at i:57530439 original size:18 final size:19
Alignment explanation
Indices: 57530395--57530451 Score: 73
Period size: 18 Copynumber: 3.1 Consensus size: 19
57530385 AAAACATAAA
** *
57530395 TTCATTTTTCA-GGTCATC
1 TTCATTTTTCATTTTCATT
57530413 TTCATTTTTCATTTTCATT
1 TTCATTTTTCATTTTCATT
57530432 TTCA-TTTTCATTTTCATT
1 TTCATTTTTCATTTTCATT
57530450 TT
1 TT
57530452 GGAGAAAACA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
18 27 0.77
19 8 0.23
ACGTcount: A:0.16, C:0.18, G:0.04, T:0.63
Consensus pattern (19 bp):
TTCATTTTTCATTTTCATT
Found at i:57531847 original size:6 final size:6
Alignment explanation
Indices: 57531794--57531846 Score: 97
Period size: 6 Copynumber: 8.8 Consensus size: 6
57531784 ACTTGCTTGA
*
57531794 CCTCTC CCTCTC CCTCTC CCTCTC CCTCTC CCTCTC CCTCTC CCTCTT
1 CCTCTC CCTCTC CCTCTC CCTCTC CCTCTC CCTCTC CCTCTC CCTCTC
57531842 CCTCT
1 CCTCT
57531847 TTTATAAGCA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 46 1.00
ACGTcount: A:0.00, C:0.64, G:0.00, T:0.36
Consensus pattern (6 bp):
CCTCTC
Found at i:57538790 original size:120 final size:120
Alignment explanation
Indices: 57538644--57538884 Score: 466
Period size: 120 Copynumber: 2.0 Consensus size: 120
57538634 TGGACCTTCA
57538644 TATTTTTTGGGTTTGTTAGGGGGAATTCCAGGGTTGGTGTTTAAAAGGGTGAGGGTTCG-TCAAA
1 TATTTTTTGGGTTTGTTAGGGGGAATTCCAGGGTTGGTGTTTAAAAGGGTGAGGGTT-GATCAAA
57538708 AATGGTTGGTGTTGACTAGTGAAATTGAAGGCTTTGCCTCAAGGCTAAACAAACCT
65 AATGGTTGGTGTTGACTAGTGAAATTGAAGGCTTTGCCTCAAGGCTAAACAAACCT
57538764 TATTTTTTGGGTTTGTTAGGGGGAATTCCAGGGTTGGTGTTTAAAAGGGTGAGGGTTGATCAAAA
1 TATTTTTTGGGTTTGTTAGGGGGAATTCCAGGGTTGGTGTTTAAAAGGGTGAGGGTTGATCAAAA
57538829 ATGGTTGGTGTTGACTAGTGAAATTGAAGGCTTTGCCTCAAGGCTAAACAAACCT
66 ATGGTTGGTGTTGACTAGTGAAATTGAAGGCTTTGCCTCAAGGCTAAACAAACCT
57538884 T
1 T
57538885 TGCCTTTTAA
Statistics
Matches: 120, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
119 1 0.01
120 119 0.99
ACGTcount: A:0.25, C:0.10, G:0.31, T:0.34
Consensus pattern (120 bp):
TATTTTTTGGGTTTGTTAGGGGGAATTCCAGGGTTGGTGTTTAAAAGGGTGAGGGTTGATCAAAA
ATGGTTGGTGTTGACTAGTGAAATTGAAGGCTTTGCCTCAAGGCTAAACAAACCT
Found at i:57541292 original size:21 final size:21
Alignment explanation
Indices: 57541261--57541309 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
57541251 ATCATTGATT
*
57541261 TTAATCATATTACTACAA-TA
1 TTAATCTTATTACTACAATTA
*
57541281 TTCAATCTTATTGCTACAATTA
1 TT-AATCTTATTACTACAATTA
57541303 TTAATCT
1 TTAATCT
57541310 CACTGACACT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 2 0.08
21 19 0.76
22 4 0.16
ACGTcount: A:0.37, C:0.16, G:0.02, T:0.45
Consensus pattern (21 bp):
TTAATCTTATTACTACAATTA
Found at i:57542101 original size:43 final size:43
Alignment explanation
Indices: 57541876--57542126 Score: 147
Period size: 43 Copynumber: 5.9 Consensus size: 43
57541866 CGCTAAAGAC
* ** * * ***
57541876 AACGCCGCTAAAGGTGTTGGTCTATAGCGGCGCTTCTCTAAAA
1 AACGCCGCTAAAGATCATGGTCTTTAGCGGCGCTTTTCCCGAA
* * ** *
57541919 AACGCCGCTGAAGA-CAAAGACCTTTAGCGGCGC--TTCCACTAA
1 AACGCCGCTAAAGATC-ATGGTCTTTAGCGGCGCTTTTCC-CGAA
* * * * *** *
57541961 AGCGCCGCTAAAGATCAGGGTCTTTAGCAGCGTTTTTGTGGGA
1 AACGCCGCTAAAGATCATGGTCTTTAGCGGCGCTTTTCCCGAA
* *
57542004 AACGCCGCTAAAGATTGA-GGTCTTTAGCGGCGC--TT-CGGATAA
1 AACGCCGCTAAAGA-TCATGGTCTTTAGCGGCGCTTTTCCCG--AA
*
57542046 AAGCGCCACTAAAGATCATGGTCTTTAGCGGCGCTTTTCCCGAA
1 AA-CGCCGCTAAAGATCATGGTCTTTAGCGGCGCTTTTCCCGAA
* * * *
57542090 AACGCTGCTAAAGACCATGATCTTTAGTGGCGCTTTT
1 AACGCCGCTAAAGATCATGGTCTTTAGCGGCGCTTTT
57542127 TCCACAAACG
Statistics
Matches: 157, Mismatches: 38, Indels: 26
0.71 0.17 0.12
Matches are distributed among these distances:
40 2 0.01
41 4 0.03
42 31 0.20
43 108 0.69
44 8 0.05
45 2 0.01
46 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.25
Consensus pattern (43 bp):
AACGCCGCTAAAGATCATGGTCTTTAGCGGCGCTTTTCCCGAA
Found at i:57542114 original size:86 final size:84
Alignment explanation
Indices: 57541893--57542124 Score: 225
Period size: 86 Copynumber: 2.7 Consensus size: 84
57541883 CTAAAGGTGT
* * * * * *
57541893 TGGTCTATAGCGGCGCTTCTCTAAAAAACGCCGCTGAAGACAAAGACCTTTAGCGGCGCTTCCAC
1 TGGTCTTTAGCGGCGCTTTTCTAGAAAACGCCGCTAAAGAC-ATGATCTTTAGCGGCGCTTCCAC
*
57541958 TAAAGCGCCGCTAAAGATCA
65 TAAAGCGCCACTAAAGATCA
* * * * * * * *
57541978 GGGTCTTTAGCAGCGTTTTTGTGGGAAACGCCGCTAAAGA-TTGAGGTCTTTAGCGGCGCTTCGG
1 TGGTCTTTAGCGGCGCTTTTCTAGAAAACGCCGCTAAAGACATGA--TCTTTAGCGGCGCTTC-C
57542042 A-TAAAAGCGCCACTAAAGATCA
63 ACT-AAAGCGCCACTAAAGATCA
** * *
57542064 TGGTCTTTAGCGGCGCTTTTCCCGAAAACGCTGCTAAAGACCATGATCTTTAGTGGCGCTT
1 TGGTCTTTAGCGGCGCTTTTCTAGAAAACGCCGCTAAAGA-CATGATCTTTAGCGGCGCTT
57542125 TTTCCACAAA
Statistics
Matches: 116, Mismatches: 25, Indels: 11
0.76 0.16 0.07
Matches are distributed among these distances:
83 2 0.02
85 46 0.40
86 65 0.56
88 3 0.03
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.25
Consensus pattern (84 bp):
TGGTCTTTAGCGGCGCTTTTCTAGAAAACGCCGCTAAAGACATGATCTTTAGCGGCGCTTCCACT
AAAGCGCCACTAAAGATCA
Found at i:57542589 original size:42 final size:42
Alignment explanation
Indices: 57542537--57542629 Score: 125
Period size: 42 Copynumber: 2.2 Consensus size: 42
57542527 TTTGACGTTG
*
57542537 CTCTTCTTCCCTCGCTGCAGCCTCTACTTGC-CTCGCTACAGC
1 CTCTGCTTCCCTCGCTGCAGCCTCTACTT-CTCTCGCTACAGC
* * * *
57542579 CTCTGCTTCCCTCGCTGCAGCTTGTACTTCTCTCGCTGCCGC
1 CTCTGCTTCCCTCGCTGCAGCCTCTACTTCTCTCGCTACAGC
57542621 CTCTGCTTC
1 CTCTGCTTC
57542630 TCTTACTGCC
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
41 1 0.02
42 44 0.98
ACGTcount: A:0.06, C:0.44, G:0.16, T:0.33
Consensus pattern (42 bp):
CTCTGCTTCCCTCGCTGCAGCCTCTACTTCTCTCGCTACAGC
Found at i:57542632 original size:21 final size:21
Alignment explanation
Indices: 57542537--57542629 Score: 105
Period size: 21 Copynumber: 4.4 Consensus size: 21
57542527 TTTGACGTTG
*
57542537 CTCTTCTTCCCTCGCTGCAGC
1 CTCTACTTCCCTCGCTGCAGC
* *
57542558 CTCTACTTGCCTCGCTACAGC
1 CTCTACTTCCCTCGCTGCAGC
*
57542579 CTCTGCTTCCCTCGCTGCAGC
1 CTCTACTTCCCTCGCTGCAGC
* * * *
57542600 TTGTACTTCTCTCGCTGCCGC
1 CTCTACTTCCCTCGCTGCAGC
*
57542621 CTCTGCTTC
1 CTCTACTTC
57542630 TCTTACTGCC
Statistics
Matches: 58, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 58 1.00
ACGTcount: A:0.06, C:0.44, G:0.16, T:0.33
Consensus pattern (21 bp):
CTCTACTTCCCTCGCTGCAGC
Found at i:57542648 original size:21 final size:21
Alignment explanation
Indices: 57542605--57542648 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
57542595 GCAGCTTGTA
* *
57542605 CTTCTCTCGCTGCCGCCTCTG
1 CTTCTCTCACTGCCGCATCTG
* *
57542626 CTTCTCTTACTGCCGCATTTG
1 CTTCTCTCACTGCCGCATCTG
57542647 CT
1 CT
57542649 CTAAGCTGTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.05, C:0.41, G:0.16, T:0.39
Consensus pattern (21 bp):
CTTCTCTCACTGCCGCATCTG
Found at i:57542719 original size:66 final size:66
Alignment explanation
Indices: 57542620--57542766 Score: 215
Period size: 66 Copynumber: 2.2 Consensus size: 66
57542610 CTCGCTGCCG
* ** * *
57542620 CCTCTGCTTCTCTTACTGCCGCATTTGCTCTAAGCTGTTGCTGGAGTTCTTCATA-CTTTCGTTG
1 CCTCAGCTTCTCTCGCTGCCGCATCTGCTCTAAGCTGCTGCTGGAGTTCTTCATATCTTT-GTTG
57542684 AA
65 AA
* *
57542686 CCTCAGCTTCTCTCGCTGCTGCATCTGCTCTAAGCTGCTGCTGGAGTTCTTCATATCTTTTTTGA
1 CCTCAGCTTCTCTCGCTGCCGCATCTGCTCTAAGCTGCTGCTGGAGTTCTTCATATCTTTGTTGA
57542751 A
66 A
57542752 CCTCAGCTTCTCTCG
1 CCTCAGCTTCTCTCG
57542767 ATATTGCCTC
Statistics
Matches: 73, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
66 69 0.95
67 4 0.05
ACGTcount: A:0.13, C:0.30, G:0.18, T:0.39
Consensus pattern (66 bp):
CCTCAGCTTCTCTCGCTGCCGCATCTGCTCTAAGCTGCTGCTGGAGTTCTTCATATCTTTGTTGA
A
Found at i:57544472 original size:34 final size:34
Alignment explanation
Indices: 57544425--57544690 Score: 325
Period size: 34 Copynumber: 8.1 Consensus size: 34
57544415 CGTAATTTAA
* * *
57544425 GTAAGTTATGTATAATATTAATTAACTAACTTAT
1 GTAATTTATGTATAATATTAATTAATTAAGTTAT
* *
57544459 GTAATTTAAGTATAATATTAA-T--GTAAGTTAT
1 GTAATTTATGTATAATATTAATTAATTAAGTTAT
* *
57544490 GTAATTAATGTATAATATTAATTAATTAAGTCAT
1 GTAATTTATGTATAATATTAATTAATTAAGTTAT
*
57544524 GTAATTTATGTATAATATTAA-T--GTAAGTTAT
1 GTAATTTATGTATAATATTAATTAATTAAGTTAT
* *
57544555 GTAATTAATGTATAATATTAATTAATTAAGTCAT
1 GTAATTTATGTATAATATTAATTAATTAAGTTAT
** *
57544589 GTAATTTATGTATAATATTAA-T--GCAAGTTCT
1 GTAATTTATGTATAATATTAATTAATTAAGTTAT
*
57544620 GTAATATATGTATAATATTAATTAATTAAGTTAT
1 GTAATTTATGTATAATATTAATTAATTAAGTTAT
* *
57544654 GTAATTTATGTATAATATTAAATAATCAAGTTAT
1 GTAATTTATGTATAATATTAATTAATTAAGTTAT
57544688 GTA
1 GTA
57544691 TAATATTAAT
Statistics
Matches: 197, Mismatches: 26, Indels: 18
0.82 0.11 0.07
Matches are distributed among these distances:
31 78 0.40
32 3 0.02
33 3 0.02
34 113 0.57
ACGTcount: A:0.42, C:0.03, G:0.11, T:0.45
Consensus pattern (34 bp):
GTAATTTATGTATAATATTAATTAATTAAGTTAT
Found at i:57544508 original size:65 final size:65
Alignment explanation
Indices: 57544432--57544674 Score: 407
Period size: 65 Copynumber: 3.7 Consensus size: 65
57544422 TAAGTAAGTT
* * * *
57544432 ATGTATAATATTAATTAACTAACTTATGTAATTTAAGTATAATATTAATGTAAGTTATGTAATTA
1 ATGTATAATATTAATTAATTAAGTCATGTAATTTATGTATAATATTAATGTAAGTTATGTAATTA
57544497 ATGTATAATATTAATTAATTAAGTCATGTAATTTATGTATAATATTAATGTAAGTTATGTAATTA
1 ATGTATAATATTAATTAATTAAGTCATGTAATTTATGTATAATATTAATGTAAGTTATGTAATTA
* *
57544562 ATGTATAATATTAATTAATTAAGTCATGTAATTTATGTATAATATTAATGCAAGTTCTGTAA-TA
1 ATGTATAATATTAATTAATTAAGTCATGTAATTTATGTATAATATTAATGTAAGTTATGTAATTA
*
57544626 TATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAA
1 -ATGTATAATATTAATTAATTAAGTCATGTAATTTATGTATAATATTAA
57544675 ATAATCAAGT
Statistics
Matches: 170, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
64 2 0.01
65 168 0.99
ACGTcount: A:0.42, C:0.02, G:0.10, T:0.46
Consensus pattern (65 bp):
ATGTATAATATTAATTAATTAAGTCATGTAATTTATGTATAATATTAATGTAAGTTATGTAATTA
Found at i:57544679 original size:21 final size:22
Alignment explanation
Indices: 57544655--57544699 Score: 56
Period size: 25 Copynumber: 2.0 Consensus size: 22
57544645 TTAAGTTATG
57544655 TAAT-TTATGTATAATATTAAA
1 TAATATTATGTATAATATTAAA
57544676 TAATCAAGTTATGTATAATATTAA
1 TAAT--A-TTATGTATAATATTAA
57544700 TTTTTTTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 4 0.20
25 16 0.80
ACGTcount: A:0.47, C:0.02, G:0.07, T:0.44
Consensus pattern (22 bp):
TAATATTATGTATAATATTAAA
Found at i:57545031 original size:43 final size:43
Alignment explanation
Indices: 57544967--57545234 Score: 351
Period size: 43 Copynumber: 6.2 Consensus size: 43
57544957 ACGTCGCTAA
* * *
57544967 CTTTAGCGGCGCTTTTCCTACAAACGCCACTAAAGACCAAGAT
1 CTTTAGCGGCGCTTTTCCTACAAACGCCGCTAAAGACCATGAC
** *
57545010 CTTTAGCAACGCTTCTT-CTACAAACGCCGCTAAAAACCATGAC
1 CTTTAGCGGCGCTT-TTCCTACAAACGCCGCTAAAGACCATGAC
* ** * * *
57545053 CTTTAACAACGCTTCTCCTACAATCGCCGCTAAAGACCATAAC
1 CTTTAGCGGCGCTTTTCCTACAAACGCCGCTAAAGACCATGAC
** * *
57545096 CTTTAGCGGCAATTCTCCTACAAACGTCC-CTAAAAACCATGAC
1 CTTTAGCGGCGCTTTTCCTACAAACG-CCGCTAAAGACCATGAC
*
57545139 CTTTAGCGGCGCTTTTCCTACAAGCGCCGCTAAAGACCATGAC
1 CTTTAGCGGCGCTTTTCCTACAAACGCCGCTAAAGACCATGAC
57545182 CTTTAGCGGCGCTTTTCCTACAAACGCCGCTAAAGACCATGAC
1 CTTTAGCGGCGCTTTTCCTACAAACGCCGCTAAAGACCATGAC
57545225 CTTTAGCGGC
1 CTTTAGCGGC
57545235 ACTTGTAAGA
Statistics
Matches: 196, Mismatches: 25, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
42 3 0.02
43 189 0.96
44 4 0.02
ACGTcount: A:0.29, C:0.32, G:0.15, T:0.24
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTTCCTACAAACGCCGCTAAAGACCATGAC
Found at i:57550428 original size:21 final size:22
Alignment explanation
Indices: 57550399--57550461 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 22
57550389 GGCCTCAAAT
* *
57550399 CTCTAAACCCTA-AATCACTAA
1 CTCTTAACCCTATAACCACTAA
*
57550420 CTCTTAA-CCTATAACCTCTAA
1 CTCTTAACCCTATAACCACTAA
* *
57550441 CCCTTAACCC-CTAACCACTAA
1 CTCTTAACCCTATAACCACTAA
57550462 ATAATCTAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
20 4 0.12
21 28 0.82
22 2 0.06
ACGTcount: A:0.37, C:0.38, G:0.00, T:0.25
Consensus pattern (22 bp):
CTCTTAACCCTATAACCACTAA
Found at i:57551313 original size:40 final size:38
Alignment explanation
Indices: 57551217--57551321 Score: 131
Period size: 40 Copynumber: 2.7 Consensus size: 38
57551207 AGGTTTTTTA
57551217 CTAATGCTCATTTTTAGCGGCGCTTTACTTAAAGTGCCG
1 CTAATGCTCATTTTTAGCGGCG-TTTACTTAAAGTGCCG
*
57551256 CTAATGCTCAATCTTTAGCGGCGTGTTA-TGTAAAGTGCCG
1 CTAATGCTC-ATTTTTAGCGGCGT-TTACT-TAAAGTGCCG
* *
57551296 CTAATGCTCGTTTTTTAGTGGCGTTT
1 CTAATGCTC-ATTTTTAGCGGCGTTT
57551322 TTTTATCCAA
Statistics
Matches: 58, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
39 13 0.22
40 45 0.78
ACGTcount: A:0.19, C:0.20, G:0.23, T:0.38
Consensus pattern (38 bp):
CTAATGCTCATTTTTAGCGGCGTTTACTTAAAGTGCCG
Found at i:57553650 original size:90 final size:90
Alignment explanation
Indices: 57553497--57553831 Score: 433
Period size: 90 Copynumber: 3.8 Consensus size: 90
57553487 CCCAAACCCC
* *
57553497 ACCCCTAAACCCTAAACACTATTTAATATAT-AATTTAAAAAACACTAATTAATCTAAATCCTAA
1 ACCCCTAACCCCTAAACATTATTTAATATATAAATTTAAAAAACACTAATTAATCTAAATCCTAA
57553561 ACCCTAACTCGACCACGAATCACTA
66 ACCCTAACTCGACCACGAATCACTA
*
57553586 ACCCCCAACCCCTAAACATTATTTAATATATAAATTTAAAAAACACTAATTAATCTAAATCCTAA
1 ACCCCTAACCCCTAAACATTATTTAATATATAAATTTAAAAAACACTAATTAATCTAAATCCTAA
*
57553651 ACCCTAACTCGACCCCGAATCACTA
66 ACCCTAACTCGACCACGAATCACTA
*
57553676 ACCCATAACCCCTAAACATTATTTAATATATAAA--TAAAAAACACTAATTAATCTAAATCCTAA
1 ACCCCTAACCCCTAAACATTATTTAATATATAAATTTAAAAAACACTAATTAATCTAAATCCTAA
* *
57553739 ACCCCTAGCT-AACC-C---T-A--A
66 A-CCCTAACTCGACCACGAATCACTA
* * * * *
57553757 ATCCCTAACCCCTAAACATTATTTAATATTATATAATTTAAAATATATTAATTAGTCTAAA-CAC
1 ACCCCTAACCCCTAAACATTATTTAATA-TATA-AATTTAAAAAACACTAATTAATCTAAATC-C
*
57553821 TAAACTCTAAC
63 TAAACCCTAAC
57553832 CTAACACCGA
Statistics
Matches: 223, Mismatches: 16, Indels: 19
0.86 0.06 0.07
Matches are distributed among these distances:
81 27 0.12
82 4 0.02
83 3 0.01
84 7 0.03
85 24 0.11
87 1 0.00
88 33 0.15
89 35 0.16
90 89 0.40
ACGTcount: A:0.45, C:0.25, G:0.02, T:0.28
Consensus pattern (90 bp):
ACCCCTAACCCCTAAACATTATTTAATATATAAATTTAAAAAACACTAATTAATCTAAATCCTAA
ACCCTAACTCGACCACGAATCACTA
Found at i:57554939 original size:113 final size:113
Alignment explanation
Indices: 57554313--57555019 Score: 865
Period size: 114 Copynumber: 6.3 Consensus size: 113
57554303 AGATAAAATG
* * * * *
57554313 TTTTTGCGGCGC-TTTATAAAAAACACCGCTAAAGGCATCAGCATTAGCGGCGCTTATTCAGAAA
1 TTTTTGCGGCGCTTTTA-AAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTT-TACAGAAA
*
57554377 CGCCGCTAAAGACCCCAAAAACTCA-AAAACGGTGCCGTTGGGCTTAAGC
64 CGCCGCTAAAGACCCCAAAAACTCAGAAAACGGTGCCGTTGGGCTTAGGC
* * *
57554426 -TTTTGCGGCGCATTTAAAAAAACGCTGCTAAAGACCTGAGCATTAGCGGCGCTTTACATAAAAC
1 TTTTTGCGGCGCTTTTAAAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTACA-GAAAC
* *
57554490 GCCACTAAAGACCCCAAAAACTCAGAAAACGGTGCCGTTGGGTTTAGGC
65 GCCGCTAAAGACCCCAAAAACTCAGAAAACGGTGCCGTTGGGCTTAGGC
* * * * ***
57554539 TTTTTGCGGCGCTTTTGAAAAAACGCCGCTAAAGACCTCAGCATTAGCGGTGCTTTATAGATGTG
1 TTTTTGCGGCGCTTTTAAAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTACAGAAACG
57554604 CCGCTAAAGACCCCCAAAAACTCAGAAAACGGTGCCGTTGGGCTTAGGC
66 CCGCTAAAGA-CCCCAAAAACTCAGAAAACGGTGCCGTTGGGCTTAGGC
* * * * *
57554653 TTTTTGCGGCGCATTTAAAAAAAAGCCGCTAAAGACCTGAACATTAGCAGCGCTTTACATAAACG
1 TTTTTGCGGCGCTTTTAAAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTACAGAAACG
* * * *
57554718 CCGCGAAAGACCCCGAAAACTCAGAAAACAGTGCCGTTGAGCTTAGGC
66 CCGCTAAAGACCCCAAAAACTCAGAAAACGGTGCCGTTGGGCTTAGGC
* ** * *
57554766 --TTT---GCGCTTTAAAAAAAACGCCGCTAAAGATATGAGCATTAGCGGCACTTTACATAAAAC
1 TTTTTGCGGCGCTTTTAAAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTACA-GAAAC
* ** *
57554826 GCCACTAAAGACCCC-AAAACTCAGAAAACGGTGCCGTTGGATTTAGAC
65 GCCGCTAAAGACCCCAAAAACTCAGAAAACGGTGCCGTTGGGCTTAGGC
* ** * * *
57554874 TTTTTGCGGTGCTTTTAAAGCAACGCCACTAAAGACCTGAGTATTAGCGGCGTTTTTACAGAAAC
1 TTTTTGCGGCGCTTTTAAAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCG-CTTTACAGAAAC
* * * *
57554939 GCCGCTAAAGACCCCAAAAACTTAGAAAACGGTGCCGTTTGTCTTTGGC
65 GCCGCTAAAGACCCCAAAAACTCAGAAAACGGTGCCGTTGGGCTTAGGC
* *
57554988 TTTCTGCGGCGCTTTTATAAAAACGCCGCTAA
1 TTTTTGCGGCGCTTTTAAAAAAACGCCGCTAA
57555020 TGCTTATTTT
Statistics
Matches: 503, Mismatches: 78, Indels: 25
0.83 0.13 0.04
Matches are distributed among these distances:
108 71 0.14
109 17 0.03
110 3 0.01
111 6 0.01
112 71 0.14
113 125 0.25
114 210 0.42
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.23
Consensus pattern (113 bp):
TTTTTGCGGCGCTTTTAAAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTACAGAAACG
CCGCTAAAGACCCCAAAAACTCAGAAAACGGTGCCGTTGGGCTTAGGC
Found at i:57554968 original size:335 final size:337
Alignment explanation
Indices: 57554313--57555019 Score: 944
Period size: 335 Copynumber: 2.1 Consensus size: 337
57554303 AGATAAAATG
* * * *
57554313 TTTTTGCGGCGCTTTATAAAAAACA-CCGCTAAAGGCATCAGCATTAGCGGCGCTTATTCAGAAA
1 TTTTTGCGGCGCTTTA-AAAAAA-AGCCGCTAAAGACATCAACATTAGCAGCGCTTATACAGAAA
* * *
57554377 CGCCGCTAAAGACCCCAAAAACTCAAAAACGGTGCCGTTGGGCTTAAGCTTTTGCGGCGCATTTA
64 CGCCGCGAAAGACCCCAAAAACTCAAAAACAGTGCCGTTGAGCTTAAGCTTTT--GGCGCATTTA
* * *
57554442 AAAAAACGCTGCTAAAGACCTGAGCATTAGCGGCGCTTTACATAAAACGCCACTAAAGACCCCAA
127 AAAAAACGCCGCTAAAGACATGAGCATTAGCGGCACTTTACATAAAACGCCACTAAAGACCCCAA
* * *
57554507 AAACTCAGAAAACGGTGCCGTTGGGTTTAGGCTTTTTGCGGCGCTTTTGAAAAAACGCCGCTAAA
192 AAACTCAGAAAACGGTGCCGTTGGATTTAGACTTTTTGCGGCGCTTTTGAAAAAACGCCACTAAA
* * ***
57554572 GACCTCAGCATTAGCGGTGCTTTATAGATGTGCCGCTAAAGACCCCCAAAAACTCAGAAAACGGT
257 GACCTCAGCATTAGCGGCGCTTTACAGAAACGCCGCTAAAGACCCCCAAAAACTCAGAAAACGGT
57554637 GCCGTTGGGCTTAGGC
322 GCCGTTGGGCTTAGGC
* * *
57554653 TTTTTGCGGCGCATTTAAAAAAAAGCCGCTAAAGACCTGAACATTAGCAGCGCTT-TACATAAAC
1 TTTTTGCGGCGC-TTTAAAAAAAAGCCGCTAAAGACATCAACATTAGCAGCGCTTATACAGAAAC
* *
57554717 GCCGCGAAAGACCCCGAAAACTCAGAAAACAGTGCCGTTGAGCTTAGGC-TTT-GCGC-TTTAAA
65 GCCGCGAAAGACCCCAAAAACTCA-AAAACAGTGCCGTTGAGCTTAAGCTTTTGGCGCATTT-AA
*
57554779 AAAAACGCCGCTAAAGATATGAGCATTAGCGGCACTTTACATAAAACGCCACTAAAGACCCC-AA
128 AAAAACGCCGCTAAAGACATGAGCATTAGCGGCACTTTACATAAAACGCCACTAAAGACCCCAAA
* *
57554843 AACTCAGAAAACGGTGCCGTTGGATTTAGACTTTTTGCGGTGCTTTT-AAAGCAACGCCACTAAA
193 AACTCAGAAAACGGTGCCGTTGGATTTAGACTTTTTGCGGCGCTTTTGAAA-AAACGCCACTAAA
* * * *
57554907 GACCTGAGTATTAGCGGCGTTTTTACAGAAACGCCGCTAAAGA-CCCCAAAAACTTAGAAAACGG
257 GACCTCAGCATTAGCGGCG-CTTTACAGAAACGCCGCTAAAGACCCCCAAAAACTCAGAAAACGG
* * *
57554971 TGCCGTTTGTCTTTGGC
321 TGCCGTTGGGCTTAGGC
* * *
57554988 TTTCTGCGGCGCTTTTATAAAAACGCCGCTAA
1 TTTTTGCGGCGC-TTTAAAAAAAAGCCGCTAA
57555020 TGCTTATTTT
Statistics
Matches: 324, Mismatches: 37, Indels: 17
0.86 0.10 0.04
Matches are distributed among these distances:
334 3 0.01
335 138 0.43
336 82 0.25
339 33 0.10
340 64 0.20
341 4 0.01
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.23
Consensus pattern (337 bp):
TTTTTGCGGCGCTTTAAAAAAAAGCCGCTAAAGACATCAACATTAGCAGCGCTTATACAGAAACG
CCGCGAAAGACCCCAAAAACTCAAAAACAGTGCCGTTGAGCTTAAGCTTTTGGCGCATTTAAAAA
AACGCCGCTAAAGACATGAGCATTAGCGGCACTTTACATAAAACGCCACTAAAGACCCCAAAAAC
TCAGAAAACGGTGCCGTTGGATTTAGACTTTTTGCGGCGCTTTTGAAAAAACGCCACTAAAGACC
TCAGCATTAGCGGCGCTTTACAGAAACGCCGCTAAAGACCCCCAAAAACTCAGAAAACGGTGCCG
TTGGGCTTAGGC
Found at i:57555752 original size:6 final size:6
Alignment explanation
Indices: 57555736--57555768 Score: 57
Period size: 6 Copynumber: 5.3 Consensus size: 6
57555726 TCAGGTCGTC
57555736 TTCATTT TTCATT TTCATT TTCATT TTCATT TT
1 TTCA-TT TTCATT TTCATT TTCATT TTCATT TT
57555769 GGAGAAAACC
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 22 0.85
7 4 0.15
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (6 bp):
TTCATT
Found at i:57555813 original size:63 final size:63
Alignment explanation
Indices: 57555736--57555880 Score: 211
Period size: 63 Copynumber: 2.3 Consensus size: 63
57555726 TCAGGTCGTC
*
57555736 TTCATTT-TTCATTTTCATTTTCATTTTCATTTTGGAGAAAACCACATTAATTTCCAAATGAT
1 TTCATTTCTTCATTTTCATTTTCATTTTCATTTTGGAGAAAACCACAATAATTTCCAAATGAT
* * * *
57555798 TTCATTTCTTCATTTTCATTTTCATTTTCATTTTGGAGAAAACTATAATCATTTTCAAATGAT
1 TTCATTTCTTCATTTTCATTTTCATTTTCATTTTGGAGAAAACCACAATAATTTCCAAATGAT
*
57555861 TTCCCATTTCTCCATTTTCA
1 TT--CATTTCTTCATTTTCA
57555881 CCATTTATAT
Statistics
Matches: 74, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
62 7 0.09
63 52 0.70
65 15 0.20
ACGTcount: A:0.27, C:0.18, G:0.06, T:0.50
Consensus pattern (63 bp):
TTCATTTCTTCATTTTCATTTTCATTTTCATTTTGGAGAAAACCACAATAATTTCCAAATGAT
Found at i:57555817 original size:6 final size:6
Alignment explanation
Indices: 57555806--57555831 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
57555796 ATTTCATTTC
57555806 TTCATT TTCATT TTCATT TTCATT TT
1 TTCATT TTCATT TTCATT TTCATT TT
57555832 GGAGAAAACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.69
Consensus pattern (6 bp):
TTCATT
Done.