Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032245.1 Gossypioides kirkii chromosome KI_2_4
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: 41238926
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 6100 characters in sequence are not A, C, G, or T
File 127 of 132
Found at i:39245914 original size:21 final size:21
Alignment explanation
Indices: 39245890--39245946 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
39245880 CGATCTAAGG
*
39245890 AAAAATAAAAGAAACAGATTT
1 AAAAATAAAAGAAACAGAATT
* *
39245911 AAAAATTAAAGAAAATAGAATT
1 AAAAATAAAAG-AAACAGAATT
39245933 AAAAA-AAATAGAAA
1 AAAAATAAA-AGAAA
39245947 ATAGGGAAGT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
21 15 0.50
22 15 0.50
ACGTcount: A:0.72, C:0.02, G:0.09, T:0.18
Consensus pattern (21 bp):
AAAAATAAAAGAAACAGAATT
Found at i:39245932 original size:15 final size:15
Alignment explanation
Indices: 39245914--39245945 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
39245904 CAGATTTAAA
*
39245914 AATTAAAGAAAATAG
1 AATTAAAAAAAATAG
39245929 AATTAAAAAAAATAG
1 AATTAAAAAAAATAG
39245944 AA
1 AA
39245946 AATAGGGAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.72, C:0.00, G:0.09, T:0.19
Consensus pattern (15 bp):
AATTAAAAAAAATAG
Found at i:39245934 original size:22 final size:22
Alignment explanation
Indices: 39245890--39245950 Score: 72
Period size: 22 Copynumber: 2.8 Consensus size: 22
39245880 CGATCTAAGG
* *
39245890 AAAAATAAAAG-AAACAGATTT
1 AAAAATAAAAGAAAATAGAATT
*
39245911 AAAAATTAAAGAAAATAGAATT
1 AAAAATAAAAGAAAATAGAATT
39245933 AAAAA-AAATAGAAAATAG
1 AAAAATAAA-AGAAAATAG
39245951 GGAAGTCGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
21 12 0.35
22 22 0.65
ACGTcount: A:0.70, C:0.02, G:0.10, T:0.18
Consensus pattern (22 bp):
AAAAATAAAAGAAAATAGAATT
Found at i:39246533 original size:31 final size:30
Alignment explanation
Indices: 39246498--39246560 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
39246488 TTAGTTACTC
39246498 ATGATTTTGGAAAAGAACACAAGATAATAAA
1 ATGA-TTTGGAAAAGAACACAAGATAATAAA
**
39246529 ATGATTTGGGGAAGAACACAAGATAATAAA
1 ATGATTTGGAAAAGAACACAAGATAATAAA
39246559 AT
1 AT
39246561 AAAACTTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 26 0.87
31 4 0.13
ACGTcount: A:0.52, C:0.06, G:0.19, T:0.22
Consensus pattern (30 bp):
ATGATTTGGAAAAGAACACAAGATAATAAA
Found at i:39246805 original size:19 final size:19
Alignment explanation
Indices: 39246781--39246823 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
39246771 AAACATAAAT
39246781 TAAATACAAAT-TTAAATAA
1 TAAATA-AAATCTTAAATAA
* *
39246800 TAAATAATATCTTAAATAT
1 TAAATAAAATCTTAAATAA
39246819 TAAAT
1 TAAAT
39246824 TCTAATATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (19 bp):
TAAATAAAATCTTAAATAA
Found at i:39247601 original size:18 final size:19
Alignment explanation
Indices: 39247568--39247603 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
39247558 TTCGATTTTC
39247568 TTAATTATTATTTTATAAA
1 TTAATTATTATTTTATAAA
*
39247587 TTAATT-TTCTTTTATAA
1 TTAATTATTATTTTATAA
39247604 TTGGGTGGAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (19 bp):
TTAATTATTATTTTATAAA
Found at i:39252886 original size:21 final size:22
Alignment explanation
Indices: 39252847--39252887 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
39252837 CCACATCAAT
* *
39252847 TTTAAAAAAATTTAGTAATTAA
1 TTTAAAAAAATGTAATAATTAA
39252869 TTTAAAAAAA-GTAATAATT
1 TTTAAAAAAATGTAATAATT
39252888 GAACAACAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (22 bp):
TTTAAAAAAATGTAATAATTAA
Found at i:39254158 original size:23 final size:23
Alignment explanation
Indices: 39254131--39254199 Score: 62
Period size: 23 Copynumber: 3.3 Consensus size: 23
39254121 AATTTATTAA
39254131 ACATAGAACATGATGATAAAATT
1 ACATAGAACATGATGATAAAATT
***
39254154 ACATAG---AT-ATGAT---CCC
1 ACATAGAACATGATGATAAAATT
39254170 ACATAGAACATGATGATAAAATT
1 ACATAGAACATGATGATAAAATT
39254193 ACATAGA
1 ACATAGA
39254200 TATGATCCCA
Statistics
Matches: 33, Mismatches: 6, Indels: 14
0.62 0.11 0.26
Matches are distributed among these distances:
16 6 0.18
19 7 0.21
20 7 0.21
23 13 0.39
ACGTcount: A:0.49, C:0.13, G:0.13, T:0.25
Consensus pattern (23 bp):
ACATAGAACATGATGATAAAATT
Found at i:39254233 original size:39 final size:39
Alignment explanation
Indices: 39254131--39254223 Score: 186
Period size: 39 Copynumber: 2.4 Consensus size: 39
39254121 AATTTATTAA
39254131 ACATAGAACATGATGATAAAATTACATAGATATGATCCC
1 ACATAGAACATGATGATAAAATTACATAGATATGATCCC
39254170 ACATAGAACATGATGATAAAATTACATAGATATGATCCC
1 ACATAGAACATGATGATAAAATTACATAGATATGATCCC
39254209 ACATAGAACATGATG
1 ACATAGAACATGATG
39254224 TCCCTATTAC
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 54 1.00
ACGTcount: A:0.46, C:0.15, G:0.14, T:0.25
Consensus pattern (39 bp):
ACATAGAACATGATGATAAAATTACATAGATATGATCCC
Found at i:39255937 original size:17 final size:17
Alignment explanation
Indices: 39255911--39255944 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
39255901 CAGCCACCCT
*
39255911 ACCTATATATATATATA
1 ACCTACATATATATATA
*
39255928 ACCTACATATATGTATA
1 ACCTACATATATATATA
39255945 TAAGCTAATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.44, C:0.15, G:0.03, T:0.38
Consensus pattern (17 bp):
ACCTACATATATATATA
Found at i:39255959 original size:17 final size:19
Alignment explanation
Indices: 39255915--39255960 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
39255905 CACCCTACCT
*
39255915 ATATATATATATAACCTAC
1 ATATATGTATATAACCTAC
*
39255934 ATATATGTATATAAGCTA-
1 ATATATGTATATAACCTAC
39255952 ATAT-TGTAT
1 ATATATGTAT
39255961 GACTTTTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 5 0.20
18 4 0.16
19 16 0.64
ACGTcount: A:0.43, C:0.09, G:0.07, T:0.41
Consensus pattern (19 bp):
ATATATGTATATAACCTAC
Found at i:39259442 original size:16 final size:15
Alignment explanation
Indices: 39259421--39259450 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
39259411 ATTCAAACTT
39259421 AAAATTTTCTGAATCC
1 AAAATTTTCT-AATCC
39259437 AAAATTTTCTAATC
1 AAAATTTTCTAATC
39259451 TTAATTGATC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.40, C:0.17, G:0.03, T:0.40
Consensus pattern (15 bp):
AAAATTTTCTAATCC
Found at i:39271257 original size:19 final size:18
Alignment explanation
Indices: 39271230--39271302 Score: 76
Period size: 19 Copynumber: 3.9 Consensus size: 18
39271220 CAATAAAATG
*
39271230 TTAAGAATATTATTAATA
1 TTAAAAATATTATTAATA
39271248 TTTAAAAATATTATTAATA
1 -TTAAAAATATTATTAATA
*
39271267 TTAAAATGTAATTA-TAATA
1 TTAAAA-AT-ATTATTAATA
*
39271286 TTAAATAATTTTATTAA
1 TTAAA-AATATTATTAA
39271303 AATAATAAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
18 9 0.20
19 32 0.70
20 5 0.11
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.47
Consensus pattern (18 bp):
TTAAAAATATTATTAATA
Found at i:39271401 original size:21 final size:21
Alignment explanation
Indices: 39271377--39271417 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
39271367 ATCTTTAATA
39271377 ATATTAAAA-TTATAATATTTG
1 ATATTAAAATTTA-AATATTTG
*
39271398 ATATTAATATTTAAATATTT
1 ATATTAAAATTTAAATATTT
39271418 TAAAAATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (21 bp):
ATATTAAAATTTAAATATTTG
Found at i:39272769 original size:2 final size:2
Alignment explanation
Indices: 39272762--39272786 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
39272752 GAATGCATAC
39272762 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
39272787 CACTTATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:39273246 original size:4 final size:4
Alignment explanation
Indices: 39273234--39273264 Score: 53
Period size: 4 Copynumber: 7.5 Consensus size: 4
39273224 GAAAGAAAGG
39273234 TACA TTACA TACA TACA TACA TACA TACA TA
1 TACA -TACA TACA TACA TACA TACA TACA TA
39273265 TAAGAAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 22 0.85
5 4 0.15
ACGTcount: A:0.48, C:0.23, G:0.00, T:0.29
Consensus pattern (4 bp):
TACA
Found at i:39273517 original size:57 final size:57
Alignment explanation
Indices: 39273441--39273607 Score: 248
Period size: 57 Copynumber: 2.9 Consensus size: 57
39273431 ATTGCTTTAC
*
39273441 ATTAGGGTTTCAACGTTTTTTTTCAAAGTTAGTCCCTGAATATGACAATTGTTCCTAT
1 ATTAGGGTTTGAAC-TTTTTTTTCAAAGTTAGTCCCTGAATATGACAATTGTTCCTAT
* * *
39273499 ATTAAGGTTTGAACTTTTTTGTCTAAGTTAGTCCCTGAATATGACAATTGTTCCTAT
1 ATTAGGGTTTGAACTTTTTTTTCAAAGTTAGTCCCTGAATATGACAATTGTTCCTAT
*
39273556 ATTAGGGTTTGAATTTTTTTGTTCAAA-TTAGTCCCTGAACT-TGACAATTGTT
1 ATTAGGGTTTGAACTTTTTT-TTCAAAGTTAGTCCCTGAA-TATGACAATTGTT
39273608 TCCGCATTGA
Statistics
Matches: 99, Mismatches: 8, Indels: 5
0.88 0.07 0.04
Matches are distributed among these distances:
57 82 0.83
58 17 0.17
ACGTcount: A:0.26, C:0.14, G:0.16, T:0.44
Consensus pattern (57 bp):
ATTAGGGTTTGAACTTTTTTTTCAAAGTTAGTCCCTGAATATGACAATTGTTCCTAT
Found at i:39273664 original size:60 final size:58
Alignment explanation
Indices: 39273589--39273752 Score: 147
Period size: 58 Copynumber: 2.8 Consensus size: 58
39273579 CAAATTAGTC
* * *
39273589 CCTGAACTTGACAATTGTTTCCGCATTGAGGCATGAACTTGTTTTTTCTCCAAGTTAA-T
1 CCTGAATTTGGCAATTGTTTCCGCATTGAGGCATGAACTT-TTTTTGC-CCAAGTTAATT
* ** *
39273648 CCTTGACA-TTGGCAATTGTTCTCACGC-TAG-GGTTTAAACTTTTTTTGCCCAAGTTAATT
1 CC-TGA-ATTTGGCAATTGTT-TC-CGCATTGAGGCATGAACTTTTTTTGCCCAAGTTAATT
* * *
39273707 CCTGAATTTGGCAATTGTTACCACATTGGAGGCCTGAACTTTTTTT
1 CCTGAATTTGGCAATTGTTTCCGCATT-GAGGCATGAACTTTTTTT
39273753 AGTTCAAGTT
Statistics
Matches: 84, Mismatches: 12, Indels: 18
0.74 0.11 0.16
Matches are distributed among these distances:
56 2 0.02
57 3 0.04
58 25 0.30
59 24 0.29
60 22 0.26
61 5 0.06
62 3 0.04
ACGTcount: A:0.23, C:0.20, G:0.18, T:0.40
Consensus pattern (58 bp):
CCTGAATTTGGCAATTGTTTCCGCATTGAGGCATGAACTTTTTTTGCCCAAGTTAATT
Found at i:39275720 original size:9 final size:10
Alignment explanation
Indices: 39275695--39275719 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
39275685 TTAAAAATTC
39275695 AAAAAATAAT
1 AAAAAATAAT
39275705 AAAAAATAAT
1 AAAAAATAAT
39275715 AAAAA
1 AAAAA
39275720 TCATTAATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (10 bp):
AAAAAATAAT
Found at i:39278647 original size:19 final size:19
Alignment explanation
Indices: 39278625--39278669 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 19
39278615 TTGATCTTTA
39278625 ATCAATTTATATAATT-TTT
1 ATCAATTTA-ATAATTATTT
*
39278644 ATCAATCTAATAATTATTT
1 ATCAATTTAATAATTATTT
39278663 -TCAATTT
1 ATCAATTT
39278670 CTAAAATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 12 0.52
19 11 0.48
ACGTcount: A:0.38, C:0.09, G:0.00, T:0.53
Consensus pattern (19 bp):
ATCAATTTAATAATTATTT
Found at i:39286852 original size:8 final size:9
Alignment explanation
Indices: 39286824--39286855 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
39286814 TTGTCAGCCA
39286824 TTGTTGGGG
1 TTGTTGGGG
39286833 TTGTTGGGG
1 TTGTTGGGG
39286842 TTGTT-GGG
1 TTGTTGGGG
39286850 TTGTTG
1 TTGTTG
39286856 AAGTATAGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 8 0.36
9 14 0.64
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (9 bp):
TTGTTGGGG
Found at i:39288271 original size:12 final size:11
Alignment explanation
Indices: 39288248--39288282 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
39288238 ATATTGTATA
39288248 ATTATTATTTT
1 ATTATTATTTT
*
39288259 ATTGTTAATTTT
1 ATTATT-ATTTT
39288271 ATTATTATTTT
1 ATTATTATTTT
39288282 A
1 A
39288283 AAGACATTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (11 bp):
ATTATTATTTT
Found at i:39290798 original size:21 final size:23
Alignment explanation
Indices: 39290774--39290824 Score: 61
Period size: 21 Copynumber: 2.3 Consensus size: 23
39290764 CCATTTTAAA
*
39290774 TTTAACAATTT-TACTTTTA-TT
1 TTTAAAAATTTATACTTTTACTT
*
39290795 TTTAAAAATTTAATTCTTTTACTT
1 TTTAAAAATTT-ATACTTTTACTT
39290819 TTTAAA
1 TTTAAA
39290825 TTTAAAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 10 0.40
23 7 0.28
24 8 0.32
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.59
Consensus pattern (23 bp):
TTTAAAAATTTATACTTTTACTT
Found at i:39290806 original size:29 final size:30
Alignment explanation
Indices: 39290771--39290834 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 30
39290761 CGTCCATTTT
**
39290771 AAATTTAACAATTTTAC-TTTTATTTTTAA
1 AAATTTAACAATTTTACTTTTTAAATTTAA
***
39290800 AAATTTAATTCTTTTACTTTTTAAATTTAA
1 AAATTTAACAATTTTACTTTTTAAATTTAA
39290830 AAATT
1 AAATT
39290835 ATAAGTTTAA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 14 0.48
30 15 0.52
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (30 bp):
AAATTTAACAATTTTACTTTTTAAATTTAA
Found at i:39290820 original size:23 final size:22
Alignment explanation
Indices: 39290787--39290829 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
39290777 AACAATTTTA
*
39290787 CTTTTATTTTTAAAAATTTAATT
1 CTTTTACTTTT-AAAATTTAATT
*
39290810 CTTTTACTTTTTAAATTTAA
1 CTTTTACTTTTAAAATTTAA
39290830 AAATTATAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (22 bp):
CTTTTACTTTTAAAATTTAATT
Found at i:39290828 original size:22 final size:22
Alignment explanation
Indices: 39290787--39290829 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 22
39290777 AACAATTTTA
39290787 CTTTTATTTTTAAAAATTTAATT
1 CTTTTATTTTT-AAAATTTAATT
39290810 CTTTTACTTTTT-AAATTTAA
1 CTTTTA-TTTTTAAAATTTAA
39290830 AAATTATAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 8 0.42
23 6 0.32
24 5 0.26
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (22 bp):
CTTTTATTTTTAAAATTTAATT
Found at i:39294102 original size:14 final size:14
Alignment explanation
Indices: 39294085--39294117 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
39294075 TCAATTTGAT
39294085 TACTTTAAATTATG
1 TACTTTAAATTATG
*
39294099 TACTTTAATTTATG
1 TACTTTAAATTATG
39294113 TACTT
1 TACTT
39294118 GTTGAATGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.30, C:0.09, G:0.06, T:0.55
Consensus pattern (14 bp):
TACTTTAAATTATG
Found at i:39299068 original size:16 final size:16
Alignment explanation
Indices: 39299047--39299085 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
39299037 TCTATCTCCA
39299047 TCTCTCCTTCCAAAGC
1 TCTCTCCTTCCAAAGC
39299063 TCTCTCCTTCCAAAGC
1 TCTCTCCTTCCAAAGC
39299079 TCTCTCC
1 TCTCTCC
39299086 CTGTCTTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.15, C:0.46, G:0.05, T:0.33
Consensus pattern (16 bp):
TCTCTCCTTCCAAAGC
Found at i:39313517 original size:16 final size:16
Alignment explanation
Indices: 39313496--39313556 Score: 79
Period size: 16 Copynumber: 3.8 Consensus size: 16
39313486 TGACAAACCC
39313496 AAATAATCCAAATTTA
1 AAATAATCCAAATTTA
*
39313512 AAATAATCCAAACTTA
1 AAATAATCCAAATTTA
*
39313528 AAATTAA-CCTAAATTTG
1 AAA-TAATCC-AAATTTA
39313545 AAATAATCCAAA
1 AAATAATCCAAA
39313557 CCCAAAACTA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
16 26 0.67
17 13 0.33
ACGTcount: A:0.56, C:0.15, G:0.02, T:0.28
Consensus pattern (16 bp):
AAATAATCCAAATTTA
Found at i:39313569 original size:33 final size:31
Alignment explanation
Indices: 39313489--39313572 Score: 98
Period size: 33 Copynumber: 2.6 Consensus size: 31
39313479 AATCGATTGA
39313489 CAAACCC-AAATAATCCAAATTTAAAATAATC
1 CAAACCCAAAATAA-CCAAATTTAAAATAATC
** *
39313520 CAAACTTAAAATTAACCTAAATTTGAAATAATC
1 CAAACCCAAAA-TAACC-AAATTTAAAATAATC
39313553 CAAACCCAAAACTAACCAAA
1 CAAACCCAAAA-TAACCAAA
39313573 CCTAAAAAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
31 5 0.11
32 8 0.18
33 31 0.70
ACGTcount: A:0.55, C:0.23, G:0.01, T:0.21
Consensus pattern (31 bp):
CAAACCCAAAATAACCAAATTTAAAATAATC
Found at i:39316624 original size:15 final size:15
Alignment explanation
Indices: 39316594--39316651 Score: 55
Period size: 15 Copynumber: 3.7 Consensus size: 15
39316584 ATAATAATTT
*
39316594 ATTAATAATAATAATA
1 ATTAAT-ATGATAATA
39316610 ATTAATATGATAATA
1 ATTAATATGATAATA
*
39316625 TATTAATGTGA-AATTA
1 -ATTAATATGATAA-TA
*
39316641 ATTAATTTGAT
1 ATTAATATGAT
39316652 CATATTTTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
15 19 0.53
16 17 0.47
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (15 bp):
ATTAATATGATAATA
Found at i:39316631 original size:20 final size:17
Alignment explanation
Indices: 39316583--39316631 Score: 55
Period size: 16 Copynumber: 2.8 Consensus size: 17
39316573 TTAACATCAG
*
39316583 AATAATAATTTATTAAT
1 AATAATAATTAATTAAT
39316600 AATAATAA-TAATTAAT
1 AATAATAATTAATTAAT
39316616 ATGATAATATATTAAT
1 A--ATAATA-ATTAAT
39316632 GTGAAATTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
16 8 0.30
17 8 0.30
18 6 0.22
19 1 0.04
20 4 0.15
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (17 bp):
AATAATAATTAATTAAT
Found at i:39316956 original size:20 final size:20
Alignment explanation
Indices: 39316931--39316969 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
39316921 CAATTCTCAA
* *
39316931 ATAAAATTATATTTAAAATT
1 ATAAAAATATATGTAAAATT
39316951 ATAAAAATATATGTAAAAT
1 ATAAAAATATATGTAAAAT
39316970 CATGTACGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (20 bp):
ATAAAAATATATGTAAAATT
Found at i:39319085 original size:30 final size:31
Alignment explanation
Indices: 39319027--39319085 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
39319017 CTAGAAGAAA
* *
39319027 ATAAAAATATAAAAAGAAATAATAACTGAAT
1 ATAAAAAAATAAAAAGAAAGAATAACTGAAT
* *
39319058 ATAAAAAAATAAAAGGAAGGAAT-ACTGA
1 ATAAAAAAATAAAAAGAAAGAATAACTGA
39319086 CGATCGACGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 5 0.21
31 19 0.79
ACGTcount: A:0.66, C:0.03, G:0.12, T:0.19
Consensus pattern (31 bp):
ATAAAAAAATAAAAAGAAAGAATAACTGAAT
Found at i:39320624 original size:21 final size:21
Alignment explanation
Indices: 39320599--39320640 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
39320589 TTTCAAATAA
39320599 ATTTTATAATTTA-AATTTAAT
1 ATTTTAT-ATTTAGAATTTAAT
*
39320620 ATTTTATTTTTAGAATTTAAT
1 ATTTTATATTTAGAATTTAAT
39320641 TTAAAAATTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (21 bp):
ATTTTATATTTAGAATTTAAT
Found at i:39321064 original size:27 final size:26
Alignment explanation
Indices: 39321032--39321084 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
39321022 AATTTTAATT
* *
39321032 TTTTTTTGAGCTCTTTAAAAATTAAAA
1 TTTTTTTG-GCCCTTAAAAAATTAAAA
*
39321059 TTTTTTTGTCCCTTAAAAAATTAAAA
1 TTTTTTTGGCCCTTAAAAAATTAAAA
39321085 AAACACAACT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 15 0.65
27 8 0.35
ACGTcount: A:0.38, C:0.09, G:0.06, T:0.47
Consensus pattern (26 bp):
TTTTTTTGGCCCTTAAAAAATTAAAA
Found at i:39328210 original size:25 final size:23
Alignment explanation
Indices: 39328182--39328227 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
39328172 GTTGGATCCA
39328182 AATTAAATTCTAAAAAGATAATTTG
1 AATTAAA-TCTAAAAA-ATAATTTG
*
39328207 AATTAAATCTAAATAATAATT
1 AATTAAATCTAAAAAATAATT
39328228 CCCTAATTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 7 0.35
25 7 0.35
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.37
Consensus pattern (23 bp):
AATTAAATCTAAAAAATAATTTG
Found at i:39331971 original size:15 final size:16
Alignment explanation
Indices: 39331947--39331976 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
39331937 AGACTTATAT
39331947 TTTAATAATATATAAA
1 TTTAATAATATATAAA
39331963 TTTAA-AATATATAA
1 TTTAATAATATATAA
39331977 GGGGTATTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
TTTAATAATATATAAA
Found at i:39335889 original size:25 final size:26
Alignment explanation
Indices: 39335860--39335927 Score: 86
Period size: 26 Copynumber: 2.7 Consensus size: 26
39335850 GACTATTTTC
* *
39335860 CTCACAAAAGCTT-AGAATT-AGGTTG
1 CTCACACAAGCTTCA-AATTAAGGTAG
*
39335885 TTCACACAAGCTTCAAATTAAGGTAG
1 CTCACACAAGCTTCAAATTAAGGTAG
39335911 CTCACACAAGCTTCAAA
1 CTCACACAAGCTTCAAA
39335928 GAATCCACAA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
25 15 0.41
26 22 0.59
ACGTcount: A:0.38, C:0.22, G:0.15, T:0.25
Consensus pattern (26 bp):
CTCACACAAGCTTCAAATTAAGGTAG
Found at i:39353259 original size:31 final size:30
Alignment explanation
Indices: 39353218--39353281 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 30
39353208 CACAAAATGA
*
39353218 TCACTAAACTATTCGAAAGTTTCTATTCAAG
1 TCACTAAACTATTCAAAAGTTTCTATT-AAG
* * *
39353249 TCACTGAACTATTCAAAATTTTTTATTAAG
1 TCACTAAACTATTCAAAAGTTTCTATTAAG
39353279 TCA
1 TCA
39353282 TTGAGCTGTT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 6 0.21
31 23 0.79
ACGTcount: A:0.36, C:0.17, G:0.08, T:0.39
Consensus pattern (30 bp):
TCACTAAACTATTCAAAAGTTTCTATTAAG
Found at i:39357382 original size:3 final size:3
Alignment explanation
Indices: 39357374--39357407 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
39357364 CTTGTCATTT
39357374 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC A
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC A
39357408 GTGTCTGTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.35, C:0.32, G:0.00, T:0.32
Consensus pattern (3 bp):
ATC
Found at i:39357660 original size:6 final size:6
Alignment explanation
Indices: 39357640--39357698 Score: 50
Period size: 6 Copynumber: 9.8 Consensus size: 6
39357630 TTAAATGGGT
* * *
39357640 TTTAAA TTT-AT TTTAAA TTTAAA TTTACTTA TTTAAA TTT-AC TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTA--AA TTTAAA TTTAAA TTTAAA
*
39357688 TTTAAG TTTAA
1 TTTAAA TTTAA
39357699 TCAAATTTAA
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
5 8 0.19
6 29 0.69
8 5 0.12
ACGTcount: A:0.39, C:0.03, G:0.02, T:0.56
Consensus pattern (6 bp):
TTTAAA
Found at i:39357675 original size:14 final size:14
Alignment explanation
Indices: 39357656--39357683 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
39357646 TTTATTTTAA
39357656 ATTTAAATTTACTT
1 ATTTAAATTTACTT
39357670 ATTTAAATTTACTT
1 ATTTAAATTTACTT
39357684 TAAATTTAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (14 bp):
ATTTAAATTTACTT
Found at i:39359752 original size:58 final size:58
Alignment explanation
Indices: 39359585--39360009 Score: 534
Period size: 58 Copynumber: 7.3 Consensus size: 58
39359575 CCTAGACTGT
*
39359585 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCTCGATTTCA
1 CCAAAAATTACCATTTTACCCC-AAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
* * * *
39359644 CCAAAAATTACTATTTTACCCCCAAACTTTCCAAAACTCTATTTTTAACCCCGATATCA
1 CCAAAAATTACCATTTTA-CCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
39359703 CCAAAAATTACCATTTTACCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
1 CCAAAAATTACCATTTTACCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
* * * ** **
39359761 TCAAAAATTACCATTTTACCCTCGAACTTTTCAAAATTTTATTTTTAACCCCGATACCA
1 CCAAAAATTACCATTTTACCC-CAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
* * * *
39359820 TCAAAAATTACCATTTTACCCCTAAACTTCCCAAAATCCCA-TTTTAACCCCAATTTCA
1 CCAAAAATTACCATTTTACCCC-AAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
* * * * * * *
39359878 CCACAAATTACTATTTTACCCCCGAGCTTCCCAAAATCCCA-TTTTAACCCTGATTTCA
1 CCAAAAATTACCATTTTA-CCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
* **
39359936 CCAAAAATTACCATTTTACCCTCGAACTTTCCAAAATTCCA--TTTAACCATGATTTCA
1 CCAAAAATTACCATTTTACCC-CAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
39359993 CCAAAAATTACCATTTT
1 CCAAAAATTACCATTTT
39360010 GCCCTCGTGA
Statistics
Matches: 323, Mismatches: 38, Indels: 12
0.87 0.10 0.03
Matches are distributed among these distances:
57 35 0.11
58 150 0.46
59 134 0.41
60 4 0.01
ACGTcount: A:0.34, C:0.30, G:0.02, T:0.33
Consensus pattern (58 bp):
CCAAAAATTACCATTTTACCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
Found at i:39359796 original size:117 final size:116
Alignment explanation
Indices: 39359585--39360009 Score: 570
Period size: 117 Copynumber: 3.6 Consensus size: 116
39359575 CCTAGACTGT
*
39359585 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACCAAAA
1 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCA-TTTTAACCCCGATTTCACCAAAA
* *
39359650 ATTACTATTTTACCCCCAAACTTTCCAAAACTCTATTTTTAACCCCGATATCA
65 ATTACCATTTTACCCCCGAACTTTCCAAAA-TCTATTTTTAACCCCGATATCA
*
39359703 CCAAAAATTACCATTTTACCCC-AAACTTTCCAAAATTCCATTTTTAACCCCGATTTCATCAAAA
1 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCA-TTTTAACCCCGATTTCACCAAAA
* * * *
39359767 ATTACCATTTTACCCTCGAACTTTTCAAAATTTTATTTTTAACCCCGATACCA
65 ATTACCATTTTACCCCCGAACTTTCCAAAA-TCTATTTTTAACCCCGATATCA
* * * * *
39359820 TCAAAAATTACCATTTTACCCCTAAACTTCCCAAAATCCCATTTTAACCCCAATTTCACCACAAA
1 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTAACCCCGATTTCACCAAAAA
* * * * * *
39359885 TTACTATTTTACCCCCGAGCTTCCCAAAATCCCA-TTTTAACCCTGATTTCA
66 TTACCATTTTACCCCCGAACTTTCCAAAAT-CTATTTTTAACCCCGATATCA
* **
39359936 CCAAAAATTACCATTTTA-CCCTCGAACTTTCCAAAATTCCA-TTTAACCATGATTTCACCAAAA
1 CCAAAAATTACCATTTTACCCCT-AAACTTTCCAAAATTCCATTTTAACCCCGATTTCACCAAAA
39359999 ATTACCATTTT
65 ATTACCATTTT
39360010 GCCCTCGTGA
Statistics
Matches: 270, Mismatches: 34, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
115 32 0.12
116 47 0.17
117 153 0.57
118 38 0.14
ACGTcount: A:0.34, C:0.30, G:0.02, T:0.33
Consensus pattern (116 bp):
CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTAACCCCGATTTCACCAAAAA
TTACCATTTTACCCCCGAACTTTCCAAAATCTATTTTTAACCCCGATATCA
Found at i:39359885 original size:29 final size:29
Alignment explanation
Indices: 39359588--39360009 Score: 165
Period size: 29 Copynumber: 14.5 Consensus size: 29
39359578 AGACTGTCCA
39359588 AAAATTACCATTTT-ACCCCTAAACTTT--CC
1 AAAATTACCATTTTAACCCC--AA-TTTCACC
* *
39359617 AAAATT-CCATTTTTAACCTCGATTTCACC
1 AAAATTACCA-TTTTAACCCCAATTTCACC
* *
39359646 AAAAATTACTATTTTACCCCCAAACTTT--CC
1 -AAAATTACCATTTTAACCCC-AA-TTTCACC
* * * *
39359676 AAAACT-CTATTTTTAACCCCGATATCACC
1 AAAATTACCA-TTTTAACCCCAATTTCACC
39359705 AAAAATTACCATTTT-ACCCCAAACTTT--CC
1 -AAAATTACCATTTTAACCCC-AA-TTTCACC
* *
39359734 AAAATT-CCATTTTTAACCCCGATTTCATCA
1 AAAATTACCA-TTTTAACCCCAATTTCA-CC
*
39359764 AAAATTACCATTTT-ACCCTCGAACTTT--TC
1 AAAATTACCATTTTAACCC-C-AA-TTTCACC
** * ** *
39359793 AAAATT-TTATTTTTAACCCCGATACCATCA
1 AAAATTACCA-TTTTAACCCCAATTTCA-CC
*
39359823 AAAATTACCATTTT-ACCCCTAAACTTC-CC
1 AAAATTACCATTTTAACCCC--AATTTCACC
*
39359852 AAAA-TCCCATTTTAACCCCAATTTCACC
1 AAAATTACCATTTTAACCCCAATTTCACC
* * **
39359880 ACAAATTACTATTTTACCCCCGAGCTTC-CC
1 A-AAATTACCATTTTAACCCC-AATTTCACC
* **
39359910 AAAA-TCCCATTTTAACCCTGATTTCACC
1 AAAATTACCATTTTAACCCCAATTTCACC
39359938 AAAAATTACCATTTT-ACCCTCGAACTTT--CC
1 -AAAATTACCATTTTAACCC-C-AA-TTTCACC
***
39359968 AAAATT-CCA-TTTAACCATGATTTCACC
1 AAAATTACCATTTTAACCCCAATTTCACC
39359995 AAAAATTACCATTTT
1 -AAAATTACCATTTT
39360010 GCCCTCGTGA
Statistics
Matches: 291, Mismatches: 53, Indels: 97
0.66 0.12 0.22
Matches are distributed among these distances:
25 3 0.01
26 1 0.00
27 25 0.09
28 57 0.20
29 93 0.32
30 84 0.29
31 19 0.07
32 9 0.03
ACGTcount: A:0.34, C:0.30, G:0.02, T:0.34
Consensus pattern (29 bp):
AAAATTACCATTTTAACCCCAATTTCACC
Found at i:39360052 original size:28 final size:28
Alignment explanation
Indices: 39359996--39360055 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 28
39359986 GATTTCACCA
* * *
39359996 AAAATTACCATTTTGCCCTCGTGAGTCC
1 AAAATTACCATTTTCCCCCCGGGAGTCC
39360024 AAAATTACCATTTTCCCCCCGGGTA-TCC
1 AAAATTACCATTTTCCCCCCGGG-AGTCC
39360052 AAAA
1 AAAA
39360056 GTCTCGTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 27 0.96
29 1 0.04
ACGTcount: A:0.30, C:0.30, G:0.12, T:0.28
Consensus pattern (28 bp):
AAAATTACCATTTTCCCCCCGGGAGTCC
Found at i:39364834 original size:16 final size:16
Alignment explanation
Indices: 39364797--39364834 Score: 53
Period size: 14 Copynumber: 2.5 Consensus size: 16
39364787 ACAAGATCCC
*
39364797 TGTAATCTCTTTTTTT
1 TGTAATTTCTTTTTTT
39364813 T-T-ATTTCTTTTTTT
1 TGTAATTTCTTTTTTT
39364827 TGTAATTT
1 TGTAATTT
39364835 TTATAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 4
0.79 0.04 0.17
Matches are distributed among these distances:
14 12 0.63
15 2 0.11
16 5 0.26
ACGTcount: A:0.13, C:0.08, G:0.05, T:0.74
Consensus pattern (16 bp):
TGTAATTTCTTTTTTT
Found at i:39371359 original size:31 final size:31
Alignment explanation
Indices: 39371318--39371379 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
39371308 ATTAACAACG
* **
39371318 GATGATTAAAATGATAAATGTATGTAATGAC
1 GATGACTAAAATGATAAAAATATGTAATGAC
39371349 GATGACTAAAATGATAAAAATATGTAATGAC
1 GATGACTAAAATGATAAAAATATGTAATGAC
39371380 AATGCTTATA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.48, C:0.05, G:0.18, T:0.29
Consensus pattern (31 bp):
GATGACTAAAATGATAAAAATATGTAATGAC
Found at i:39377327 original size:7 final size:7
Alignment explanation
Indices: 39377317--39377354 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
39377307 TTGGGTTTTG
39377317 TGGAATT
1 TGGAATT
39377324 TGGAATT
1 TGGAATT
*
39377331 TGGTATT
1 TGGAATT
39377338 TGGAATT
1 TGGAATT
*
39377345 TGGAGTT
1 TGGAATT
39377352 TGG
1 TGG
39377355 GTTTATTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.21, C:0.00, G:0.34, T:0.45
Consensus pattern (7 bp):
TGGAATT
Found at i:39386089 original size:16 final size:16
Alignment explanation
Indices: 39386039--39386089 Score: 52
Period size: 15 Copynumber: 3.2 Consensus size: 16
39386029 AAAATCAATG
*
39386039 TTTTAAAAATATT-AT
1 TTTTTAAAATATTCAT
*
39386054 TTTTTACAATATTCATT
1 TTTTTAAAATATTCA-T
39386071 TTTCTTAAAAT-TTCAT
1 TTT-TTAAAATATTCAT
39386087 TTT
1 TTT
39386090 ATATTATGAC
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
15 11 0.37
16 5 0.17
17 8 0.27
18 6 0.20
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.59
Consensus pattern (16 bp):
TTTTTAAAATATTCAT
Found at i:39390373 original size:15 final size:17
Alignment explanation
Indices: 39390343--39390379 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
39390333 GGTACAACAC
*
39390343 ATTTTAGGTTT-GGGTT
1 ATTTTAGGTTTCGGTTT
39390359 ATTTTA-GTTTCGGTTT
1 ATTTTAGGTTTCGGTTT
39390375 ATTTT
1 ATTTT
39390380 TTAGTTTGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 4 0.21
16 15 0.79
ACGTcount: A:0.14, C:0.03, G:0.22, T:0.62
Consensus pattern (17 bp):
ATTTTAGGTTTCGGTTT
Found at i:39392987 original size:23 final size:23
Alignment explanation
Indices: 39392929--39393039 Score: 116
Period size: 23 Copynumber: 4.8 Consensus size: 23
39392919 TTAATGTTCA
**
39392929 CGAACATGTTCATTTAAC-TTAAT
1 CGAACATGTTCA-CGAACATTAAT
39392952 CGAACATGTTCACGAACATTAAT
1 CGAACATGTTCACGAACATTAAT
* * *
39392975 CGAGCATGTTCACGAATAATAAT
1 CGAACATGTTCACGAACATTAAT
*
39392998 CGAACATGTTCATGAACATATAAT
1 CGAACATGTTCACGAACAT-TAAT
* * *
39393022 TGAACACGTTCATGAACA
1 CGAACATGTTCACGAACA
39393040 ATGTTAATGA
Statistics
Matches: 75, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
22 3 0.04
23 52 0.69
24 20 0.27
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.29
Consensus pattern (23 bp):
CGAACATGTTCACGAACATTAAT
Found at i:39393168 original size:12 final size:12
Alignment explanation
Indices: 39393130--39393200 Score: 65
Period size: 12 Copynumber: 6.0 Consensus size: 12
39393120 TCATTAATAA
*
39393130 ATAAACAAGC-T
1 ATAAACGAGCTT
*
39393141 ATAAATGAG-TT
1 ATAAACGAGCTT
*
39393152 AATAAATGAGCTT
1 -ATAAACGAGCTT
**
39393165 ATAAACGAGCCA
1 ATAAACGAGCTT
39393177 ATAAACGAGCTT
1 ATAAACGAGCTT
*
39393189 TTAAACGAGCTT
1 ATAAACGAGCTT
39393201 GTTCTTGAAC
Statistics
Matches: 49, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
11 8 0.16
12 39 0.80
13 2 0.04
ACGTcount: A:0.45, C:0.14, G:0.15, T:0.25
Consensus pattern (12 bp):
ATAAACGAGCTT
Found at i:39393179 original size:24 final size:24
Alignment explanation
Indices: 39393129--39393198 Score: 79
Period size: 24 Copynumber: 3.0 Consensus size: 24
39393119 ATCATTAATA
* * **
39393129 AATAAACAAGC-TATAAATGAGTT
1 AATAAACGAGCTTATAAACGAGCC
*
39393152 AATAAATGAGCTTATAAACGAGCC
1 AATAAACGAGCTTATAAACGAGCC
*
39393176 AATAAACGAGCTTTTAAACGAGC
1 AATAAACGAGCTTATAAACGAGC
39393199 TTGTTCTTGA
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
23 9 0.23
24 30 0.77
ACGTcount: A:0.47, C:0.14, G:0.16, T:0.23
Consensus pattern (24 bp):
AATAAACGAGCTTATAAACGAGCC
Found at i:39393350 original size:23 final size:23
Alignment explanation
Indices: 39393312--39393375 Score: 78
Period size: 23 Copynumber: 2.8 Consensus size: 23
39393302 ACGAACATAA
39393312 ACGAA-AGTT-ATACGAACGGTTC
1 ACGAACAGTTCAT-CGAACGGTTC
39393334 ACGAACAGTTCATCGAACGGTTC
1 ACGAACAGTTCATCGAACGGTTC
* * *
39393357 ACAAACAGATCATCAAACG
1 ACGAACAGTTCATCGAACG
39393376 TTCTGTTCAT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
22 5 0.14
23 30 0.81
24 2 0.05
ACGTcount: A:0.39, C:0.23, G:0.19, T:0.19
Consensus pattern (23 bp):
ACGAACAGTTCATCGAACGGTTC
Found at i:39393356 original size:12 final size:11
Alignment explanation
Indices: 39393323--39393358 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
39393313 CGAAAGTTAT
39393323 ACGAACGGTTC
1 ACGAACGGTTC
*
39393334 ACGAACAGTTC
1 ACGAACGGTTC
39393345 ATCGAACGGTTC
1 A-CGAACGGTTC
39393357 AC
1 AC
39393359 AAACAGATCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
11 12 0.55
12 10 0.45
ACGTcount: A:0.31, C:0.28, G:0.22, T:0.19
Consensus pattern (11 bp):
ACGAACGGTTC
Found at i:39395484 original size:18 final size:18
Alignment explanation
Indices: 39395463--39395499 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
39395453 AATGCTAAAG
39395463 GACGATGCTAAAGGGAAA
1 GACGATGCTAAAGGGAAA
39395481 GACGATGCTAAAGGGAAA
1 GACGATGCTAAAGGGAAA
39395499 G
1 G
39395500 GCAAGGGCGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.43, C:0.11, G:0.35, T:0.11
Consensus pattern (18 bp):
GACGATGCTAAAGGGAAA
Found at i:39399845 original size:5 final size:5
Alignment explanation
Indices: 39399835--39399863 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
39399825 AATCATTATA
39399835 TTTTC TTTTC TTTTC TTTTC TTTTC TTTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTT
39399864 TAACCAAACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTC
Found at i:39407172 original size:22 final size:22
Alignment explanation
Indices: 39407131--39407182 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
39407121 ATTAAATTGT
*
39407131 AATTTTTACAATAATAAAAATAA
1 AATTTTTACAAGAATAAAAA-AA
* *
39407154 AATTTTTA-AAGAATTAAAACA
1 AATTTTTACAAGAATAAAAAAA
39407175 AATTTTTA
1 AATTTTTA
39407183 TTATTTTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 9 0.35
22 9 0.35
23 8 0.31
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (22 bp):
AATTTTTACAAGAATAAAAAAA
Found at i:39413229 original size:10 final size:11
Alignment explanation
Indices: 39413173--39413229 Score: 50
Period size: 11 Copynumber: 5.4 Consensus size: 11
39413163 AATATTTACA
39413173 AATTTTTTAAT
1 AATTTTTTAAT
*
39413184 AACTTTTGTTTAT
1 AA-TTTT-TTAAT
39413197 AA-TTTTT-AT
1 AATTTTTTAAT
*
39413206 GA-TTTTTAAT
1 AATTTTTTAAT
39413216 AATTTTTTAA-
1 AATTTTTTAAT
39413226 AATT
1 AATT
39413230 AACAAGGGCT
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
9 8 0.21
10 9 0.23
11 12 0.31
12 4 0.10
13 6 0.15
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (11 bp):
AATTTTTTAAT
Found at i:39415015 original size:20 final size:21
Alignment explanation
Indices: 39414974--39415018 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
39414964 ACCCTGGACC
* *
39414974 TTAAACTTCAAACTCTTAATT
1 TTAAACCTCAAACTCCTAATT
39414995 TTAAACCTCAAAC-CCTAATT
1 TTAAACCTCAAACTCCTAATT
39415015 TTAA
1 TTAA
39415019 GCGACGGCCC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.40, C:0.22, G:0.00, T:0.38
Consensus pattern (21 bp):
TTAAACCTCAAACTCCTAATT
Found at i:39424464 original size:11 final size:12
Alignment explanation
Indices: 39424440--39424474 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
39424430 TATGGAGGGG
*
39424440 TTTGTAAATTTT
1 TTTGTAATTTTT
39424452 TTTG-AATTTTT
1 TTTGTAATTTTT
39424463 TTTGTAATTTTT
1 TTTGTAATTTTT
39424475 GGAGTATGGG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 10 0.48
12 11 0.52
ACGTcount: A:0.20, C:0.00, G:0.09, T:0.71
Consensus pattern (12 bp):
TTTGTAATTTTT
Found at i:39425403 original size:4 final size:4
Alignment explanation
Indices: 39425394--39425418 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
39425384 TTAAATGGTG
39425394 TAAA TAAA TAAA TAAA TAAA TAAA T
1 TAAA TAAA TAAA TAAA TAAA TAAA T
39425419 TTTATTATCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (4 bp):
TAAA
Found at i:39426358 original size:22 final size:19
Alignment explanation
Indices: 39426328--39426371 Score: 61
Period size: 21 Copynumber: 2.2 Consensus size: 19
39426318 TACGTTTATT
39426328 TAAATTTAATTATAAAACATA
1 TAAATTTAA-TATAAAA-ATA
39426349 TAAATATTAATATAAAAATA
1 TAAAT-TTAATATAAAAATA
39426369 TAA
1 TAA
39426372 GGAGAGATCC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 6 0.27
21 12 0.55
22 4 0.18
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (19 bp):
TAAATTTAATATAAAAATA
Found at i:39430481 original size:1 final size:1
Alignment explanation
Indices: 39430475--39430502 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
39430465 ATACATTGTT
39430475 GGGGGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGGG
39430503 ATGTAAACAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.00, C:0.00, G:1.00, T:0.00
Consensus pattern (1 bp):
G
Found at i:39439267 original size:29 final size:28
Alignment explanation
Indices: 39439224--39439279 Score: 76
Period size: 29 Copynumber: 2.0 Consensus size: 28
39439214 ATGAAAAAAG
* *
39439224 AGTAAGAGGATTGAATTTTCAATTTTTAA
1 AGTAAGAGGACTGAA-TCTCAATTTTTAA
*
39439253 AGTAAGGGGACTGAATCTCAATTTTTA
1 AGTAAGAGGACTGAATCTCAATTTTTA
39439280 TCAAAATACA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 11 0.46
29 13 0.54
ACGTcount: A:0.36, C:0.07, G:0.20, T:0.38
Consensus pattern (28 bp):
AGTAAGAGGACTGAATCTCAATTTTTAA
Found at i:39444412 original size:15 final size:17
Alignment explanation
Indices: 39444392--39444425 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
39444382 AATCTTTTAA
39444392 AAATTA-TAAAAA-TAT
1 AAATTATTAAAAATTAT
39444407 AAATTATTAAAAATTAT
1 AAATTATTAAAAATTAT
39444424 AA
1 AA
39444426 TTTAATTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.35
16 6 0.35
17 5 0.29
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
AAATTATTAAAAATTAT
Found at i:39444800 original size:3 final size:3
Alignment explanation
Indices: 39444792--39444830 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
39444782 CATAAAATTC
39444792 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
39444831 TATTGGAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:39464358 original size:29 final size:30
Alignment explanation
Indices: 39464309--39464394 Score: 79
Period size: 30 Copynumber: 2.8 Consensus size: 30
39464299 GAATTGAATC
39464309 AAATCAAAATTTTAAT-TATAAATTTACACA-
1 AAATCAAAA-TTT-ATGTATAAATTTACACAT
*
39464339 AAATCAAAATTTATGCATAAAATTT-CACATT
1 AAATCAAAATTTATGTAT-AAATTTACACA-T
* * *
39464370 AAATAAAAATTCATGTATAATTTTA
1 AAATCAAAATTTATGTATAAATTTA
39464395 AAATTTATCC
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
28 2 0.04
29 9 0.20
30 20 0.43
31 15 0.33
ACGTcount: A:0.51, C:0.09, G:0.02, T:0.37
Consensus pattern (30 bp):
AAATCAAAATTTATGTATAAATTTACACAT
Found at i:39469684 original size:210 final size:208
Alignment explanation
Indices: 39469310--39469887 Score: 820
Period size: 210 Copynumber: 2.8 Consensus size: 208
39469300 TAACGGGACA
* * *
39469310 ATGTTCTTCTCTTGAAAAGCTTAGCATTTCCGAATGCAAAAAATTAAACAAGATTGGAGAGGGAT
1 ATGTTCTTCTCTTGAAAAGTTTAGCATTTCCGAATGCAAAAAATTAAACAAGATCGGAGACGGAT
* ** *
39469375 TATCTACCTCCACTTGTCTCAAAGAATTAGATCTACATGATTGTTTTAATTTAAGTTCGATCCCA
66 TATCTACCTCCACTTGTCTCAAAGAATTAGATCTA-AAGATTGTCCTAATTTAAGTTCGATTCCA
* * * *
39469440 AATTTGGAAGGATTTTCCTCTCTTCAGTATCTGTCAATTCTAA-GGTGCTACGAATTGGAAGTTC
130 AATTTGGAAGGATTTTCCTCTCTTCA-AATCTGTCAATT-AAATGGTGCAACGAATTGGAAGTAC
39469504 TTCCAATAA-TCGGAGG
193 TTCCAATAACT-GGAGG
*
39469520 ATGTTCATCTCTTGAAAAGTTTAGCATTTCCGAATGCAAAAAATTAAACAAGATCGGAGACGGAT
1 ATGTTCTTCTCTTGAAAAGTTTAGCATTTCCGAATGCAAAAAATTAAACAAGATCGGAGACGGAT
* * *
39469585 TATCAACCTCCACTTGTCTTAAAGAATTAGATCTAGAAGATTGTCCTAATTTAAGTTCGATTCCT
66 TATCTACCTCCACTTGTCTCAAAGAATTAGATCTA-AAGATTGTCCTAATTTAAGTTCGATTCCA
*
39469650 AATTTGGAAGGATTCTCCTCTCTTCGAAATCTGTCAATTAAATGGTGCAACGAATTGGAAGTACT
130 AATTTGGAAGGATTTTCCTCTCTTC-AAATCTGTCAATTAAATGGTGCAACGAATTGGAAGTACT
39469715 TCCAATAACTGGAGG
194 TCCAATAACTGGAGG
* *** ** * *
39469730 ATGTTCTTTTCTTGAAAA-TCTTAGCATTTCATCATGTGAAAAGTTAAGCAAGATCGGAGACGGA
1 ATGTTCTTCTCTTGAAAAGT-TTAGCATTTCCGAATGCAAAAAATTAAACAAGATCGGAGACGGA
*
39469794 TTATCTACCTCCACTTGTCTCAAAGAATTAGATCTAAAGAATTGTCCTAATTTAAGTTGGATTCC
65 TTATCTACCTCCACTTGTCTCAAAGAATTAGATCTAAAG-ATTGTCCTAATTTAAGTTCGATTCC
* *
39469859 AAATATGGAAGGATTTTCATCTCTTCAAA
129 AAATTTGGAAGGATTTTCCTCTCTTCAAA
39469888 ATCTATCAGT
Statistics
Matches: 330, Mismatches: 33, Indels: 11
0.88 0.09 0.03
Matches are distributed among these distances:
209 9 0.03
210 319 0.97
211 2 0.01
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
Consensus pattern (208 bp):
ATGTTCTTCTCTTGAAAAGTTTAGCATTTCCGAATGCAAAAAATTAAACAAGATCGGAGACGGAT
TATCTACCTCCACTTGTCTCAAAGAATTAGATCTAAAGATTGTCCTAATTTAAGTTCGATTCCAA
ATTTGGAAGGATTTTCCTCTCTTCAAATCTGTCAATTAAATGGTGCAACGAATTGGAAGTACTTC
CAATAACTGGAGG
Found at i:39470542 original size:144 final size:144
Alignment explanation
Indices: 39470285--39470547 Score: 321
Period size: 144 Copynumber: 1.8 Consensus size: 144
39470275 TTGGTTGGGA
* ** ** * *
39470285 AAAGCTAAAGAGTCTTCCTCACCAACTTCAGTTCTTCACTGCCCTCGAAGAATTGACGATAGAAG
1 AAAGCTAAAGAGTCTGCCTCACCAACTTCAACTCCCCACTGCCCTCGAACAATTGACAATAGAAG
* * * * ** * *
39470350 GGTTTCAAGGAATAGAAGCCTTTCCAGAGTGGTTGGGAAAACTTTCTTCTCTAAAGCGTCTAAGT
66 GGTTTCAAGAAATAGAAGCCTTGCCAGACTCGTTCAGAAAACTCTCTTCCCTAAAGCGTCTAAGT
39470415 TTGAGAGGTTTTGG
131 TTGAGAGGTTTTGG
* * **
39470429 AAAGCTAAAGAGTCTGCCTCACCAACTTCAACTCCCCACTGCCCTTGAACACTTGACAAT-GTGC
1 AAAGCTAAAGAGTCTGCCTCACCAACTTCAACTCCCCACTGCCCTCGAACAATTGACAATAG-AA
* *
39470493 GGGTTTCATGAAATAGAAGCCTTGCCAGACTCGTTCAGAAATCTCTCTTCCCTAA
65 GGGTTTCAAGAAATAGAAGCCTTGCCAGACTCGTTCAGAAAACTCTCTTCCCTAA
39470548 GGTGTCTGCG
Statistics
Matches: 97, Mismatches: 21, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
143 1 0.01
144 96 0.99
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (144 bp):
AAAGCTAAAGAGTCTGCCTCACCAACTTCAACTCCCCACTGCCCTCGAACAATTGACAATAGAAG
GGTTTCAAGAAATAGAAGCCTTGCCAGACTCGTTCAGAAAACTCTCTTCCCTAAAGCGTCTAAGT
TTGAGAGGTTTTGG
Found at i:39474544 original size:20 final size:21
Alignment explanation
Indices: 39474514--39474554 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
39474504 ATATTTTTAA
39474514 TAAAATATTAATAA-TATTATT
1 TAAAATATTAA-AATTATTATT
39474535 TAAAAT-TTAAAATTATTATT
1 TAAAATATTAAAATTATTATT
39474555 AATGTAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 2 0.11
20 11 0.58
21 6 0.32
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
TAAAATATTAAAATTATTATT
Found at i:39478721 original size:210 final size:208
Alignment explanation
Indices: 39478085--39478723 Score: 684
Period size: 210 Copynumber: 3.0 Consensus size: 208
39478075 TTGAAAAGTG
* ** * * *
39478085 TTCCACTAACGGGACAATGTTCTTCTCTTAAAAAGCTTAGCATTTTCAATTGTGAAACATTAAGC
1 TTCCACTAACTGGAGGATGTTCATCTCTTAAAAAGCTTAGCATTTCCAATTGCGAAA-ATTAAGC
* * **
39478150 AAGATCGGAGACTGG-CT-GCTAACCTCCACTTGTCTCAAAGAATTAGATCTAGTCAATTGTCCT
65 AAGATCGGAGAC-GGATTATCT-ACCTCCACTTGTCTCAAAGAATTAGATCTAGAGAATTGTCCT
* * * * * *
39478213 AATTTAAGTTCCATCCCAACTTTGGAAGGGTTTTCCTCTCATAAAAATCTATCAATTGAAATGTG
128 AATTTAAGTTCCATTCCAAATTTGGAAGGATTTTCATCTCTTCAAAATCTATCAATTG-AATGTG
***
39478278 CAACAAATTGGAAGTTC
192 TGGCAAATTGGAAGTTC
* * * *
39478295 TTCCGA-TGACTGGAGGATGTTCATCTCTTGAAAAGCTTAGCATTTCCAATTGCAAAAAATTAAA
1 TTCC-ACTAACTGGAGGATGTTCATCTCTTAAAAAGCTTAGCATTTCCAATTGC-GAAAATTAAG
* * * * * **
39478359 CAAAATTGGAGATGGATTATCTACCTCC-GTTCGTCTCAAAGAATTAGATCTACAGTTTTGTCCT
64 CAAGATCGGAGACGGATTATCTACCTCCACTT-GTCTCAAAGAATTAGATCTAGAGAATTGTCCT
* * * *
39478423 AATTTAACTTCCATTCCAGATTTGGAAGGATTTTCATCTCTTCAAAATCTGTCAATTGAATTTTG
128 AATTTAAGTTCCATTCCAAATTTGGAAGGATTTTCATCTCTTCAAAATCTATCAATTGAA-TGTG
* *
39478488 TGAG-GAACTGGAAGTTC
192 TG-GCAAATTGGAAGTTC
*
39478505 TTCCACTAA-TCGGAGGATGTTCATCTCTTAAAAAGCTTAGCATTTCCGATTGCGAAAAGTTAAG
1 TTCCACTAACT-GGAGGATGTTCATCTCTTAAAAAGCTTAGCATTTCCAATTGCGAAAA-TTAAG
* * *
39478569 CAAGATCGGAAACGGATTATCTACCTCCACTTGTCTCAAAAAATTA-ATTCTAGAGGATTGTCCT
64 CAAGATCGGAGACGGATTATCTACCTCCACTTGTCTCAAAGAATTAGA-TCTAGAGAATTGTCCT
** *
39478633 AATTTAAGTTGGATTCCAAATTTGGAAGGATTTTCATCTCTTCAAAATCTATCAGTT-AATGGCT
128 AATTTAAGTTCCATTCCAAATTTGGAAGGATTTTCATCTCTTCAAAATCTATCAATTGAAT-G-T
*
39478697 GTGGCAAATTGGAGAGCT-
191 GTGGCAAATTGGA-AGTTC
39478715 TTCCACTAA
1 TTCCACTAA
39478724 AGGCACCACT
Statistics
Matches: 353, Mismatches: 60, Indels: 32
0.79 0.13 0.07
Matches are distributed among these distances:
208 1 0.00
209 16 0.05
210 325 0.92
211 11 0.03
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (208 bp):
TTCCACTAACTGGAGGATGTTCATCTCTTAAAAAGCTTAGCATTTCCAATTGCGAAAATTAAGCA
AGATCGGAGACGGATTATCTACCTCCACTTGTCTCAAAGAATTAGATCTAGAGAATTGTCCTAAT
TTAAGTTCCATTCCAAATTTGGAAGGATTTTCATCTCTTCAAAATCTATCAATTGAATGTGTGGC
AAATTGGAAGTTC
Found at i:39479174 original size:144 final size:144
Alignment explanation
Indices: 39478998--39479262 Score: 347
Period size: 144 Copynumber: 1.8 Consensus size: 144
39478988 TTGGTTGGGA
* ** * *
39478998 AAAGCTAAAGAGTCTTCCTCACCAGCTTCAAC-TCCTTTCTACCCTTGAAGATTTGACGA-T-AG
1 AAAGCTAAAGAGTCTTCCTCACCAACTTCAACTTCC-CACTACCCTTGAACAGTTGAC-ATTCAG
* * * *
39479060 AAGAGTTTCAAGGAATAGAAGCCTTTCCAGAGTGGTTGGGAAATCTCTCTTCTCTAAAGCGTCTA
64 -AGAGTTTCAAGAAATAGAAGCCTTGCCAGACTCGTTGGGAAATCTCTCTTCTCTAAAGCGTCTA
39479125 AGTTTGAGAGGTTTTGG
128 AGTTTGAGAGGTTTTGG
* *
39479142 AAAGCTAAAGAGTCTTCCTCACCAACTTCAACTTCCCACTGCCCTTGAACAGTTGACATTCAGTG
1 AAAGCTAAAGAGTCTTCCTCACCAACTTCAACTTCCCACTACCCTTGAACAGTTGACATTCAGAG
* * * *
39479207 GGTTTGATGAAATAGAAGCCTTGCCAGACTCGTTGGGGAATCTCTCTTCTCTAAAG
66 AGTTTCAAGAAATAGAAGCCTTGCCAGACTCGTTGGGAAATCTCTCTTCTCTAAAG
39479263 TATCTGAGTA
Statistics
Matches: 103, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
143 1 0.01
144 97 0.94
145 5 0.05
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (144 bp):
AAAGCTAAAGAGTCTTCCTCACCAACTTCAACTTCCCACTACCCTTGAACAGTTGACATTCAGAG
AGTTTCAAGAAATAGAAGCCTTGCCAGACTCGTTGGGAAATCTCTCTTCTCTAAAGCGTCTAAGT
TTGAGAGGTTTTGG
Found at i:39482878 original size:23 final size:23
Alignment explanation
Indices: 39482825--39482912 Score: 97
Period size: 23 Copynumber: 3.8 Consensus size: 23
39482815 TCATTAACAT
* * *
39482825 TGTTCGTGAACGTGTTCAATTATA
1 TGTTCATGAACATGTTCGATTA-A
*
39482849 TGTTCATGAACATGTTCGTTTAA
1 TGTTCATGAACATGTTCGATTAA
*
39482872 TGTTCATAAACATGTTCGATTAA
1 TGTTCATGAACATGTTCGATTAA
*
39482895 -GTTAAATGAACATGTTCG
1 TGTT-CATGAACATGTTCG
39482913 TGAACATTAA
Statistics
Matches: 55, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
22 3 0.05
23 34 0.62
24 18 0.33
ACGTcount: A:0.30, C:0.12, G:0.18, T:0.40
Consensus pattern (23 bp):
TGTTCATGAACATGTTCGATTAA
Found at i:39484163 original size:30 final size:30
Alignment explanation
Indices: 39484129--39484185 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
39484119 TAATAAATAT
* *
39484129 AAAATTTTACTTTGATTTTTTAAAAATAAC
1 AAAATTTTAATTTAATTTTTTAAAAATAAC
39484159 AAAATTTTAATTTAATTTTTTAAAAAT
1 AAAATTTTAATTTAATTTTTTAAAAAT
39484186 TATATTTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.49
Consensus pattern (30 bp):
AAAATTTTAATTTAATTTTTTAAAAATAAC
Found at i:39487666 original size:13 final size:13
Alignment explanation
Indices: 39487645--39487702 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
39487635 TTATTAGAAT
* *
39487645 AATAATAAAATTG
1 AATATTAAAATTA
39487658 AATATTAAAATTAA
1 AATATTAAAATT-A
* * *
39487672 AATATTTAATTTC
1 AATATTAAAATTA
39487685 AATATT-AAATTA
1 AATATTAAAATTA
39487697 AATATT
1 AATATT
39487703 TTATCCGACC
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
12 10 0.27
13 17 0.46
14 10 0.27
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (13 bp):
AATATTAAAATTA
Found at i:39487675 original size:27 final size:26
Alignment explanation
Indices: 39487645--39487698 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
39487635 TTATTAGAAT
*
39487645 AATAATAAAATTGAATATTAAAATTAA
1 AATAATAAAATTCAATATT-AAATTAA
* * *
39487672 AATATTTAATTTCAATATTAAATTAA
1 AATAATAAAATTCAATATTAAATTAA
39487698 A
1 A
39487699 TATTTTATCC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
26 8 0.35
27 15 0.65
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (26 bp):
AATAATAAAATTCAATATTAAATTAA
Found at i:39489307 original size:37 final size:37
Alignment explanation
Indices: 39489266--39489379 Score: 228
Period size: 37 Copynumber: 3.1 Consensus size: 37
39489256 ATATTAATCA
39489266 AATATGAAAATAAACATATGTATTTATTTATTTTTCG
1 AATATGAAAATAAACATATGTATTTATTTATTTTTCG
39489303 AATATGAAAATAAACATATGTATTTATTTATTTTTCG
1 AATATGAAAATAAACATATGTATTTATTTATTTTTCG
39489340 AATATGAAAATAAACATATGTATTTATTTATTTTTCG
1 AATATGAAAATAAACATATGTATTTATTTATTTTTCG
39489377 AAT
1 AAT
39489380 GTGTATTATT
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 77 1.00
ACGTcount: A:0.41, C:0.05, G:0.08, T:0.46
Consensus pattern (37 bp):
AATATGAAAATAAACATATGTATTTATTTATTTTTCG
Found at i:39490635 original size:17 final size:19
Alignment explanation
Indices: 39490601--39490635 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
39490591 GCACCGTTTG
39490601 ACCAAGTCAAACTTCCTTA
1 ACCAAGTCAAACTTCCTTA
39490620 ACCAA-TCAAA-TTCCTT
1 ACCAAGTCAAACTTCCTT
39490636 TTCTACCGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 5 0.31
19 5 0.31
ACGTcount: A:0.37, C:0.31, G:0.03, T:0.29
Consensus pattern (19 bp):
ACCAAGTCAAACTTCCTTA
Found at i:39491043 original size:2 final size:2
Alignment explanation
Indices: 39491036--39491068 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
39491026 GTATGTTTAG
39491036 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
39491069 TGAATTATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:39492728 original size:2 final size:2
Alignment explanation
Indices: 39492721--39492746 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
39492711 AACCTGTTTC
39492721 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
39492747 ATGGGTTGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:39503090 original size:31 final size:31
Alignment explanation
Indices: 39503026--39503097 Score: 83
Period size: 32 Copynumber: 2.3 Consensus size: 31
39503016 AAAATTGAAT
* *
39503026 TTGAGAAAATTTTAAATCGAAATGAACCAAAA
1 TTGA-AAAAATTTAAATCAAAATGAACCAAAA
*
39503058 TTGAAAAAATTTAAGATCAAAATGAATC-AAA
1 TTGAAAAAATTTAA-ATCAAAATGAACCAAAA
39503089 TTCGAAAAA
1 TT-GAAAAA
39503098 TTTCAAACTT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
31 14 0.40
32 21 0.60
ACGTcount: A:0.56, C:0.08, G:0.11, T:0.25
Consensus pattern (31 bp):
TTGAAAAAATTTAAATCAAAATGAACCAAAA
Found at i:39503098 original size:31 final size:30
Alignment explanation
Indices: 39503030--39503100 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 30
39503020 TTGAATTTGA
* *
39503030 GAAAATTTTAAATCGAAATGAACCAAAATT
1 GAAAAATTTAAATCAAAATGAACCAAAATT
*
39503060 GAAAAAATTTAAGATCAAAATGAATC-AAATT
1 G-AAAAATTTAA-ATCAAAATGAACCAAAATT
39503091 CGAAAAATTT
1 -GAAAAATTT
39503101 CAAACTTAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
30 1 0.03
31 22 0.63
32 12 0.34
ACGTcount: A:0.55, C:0.08, G:0.10, T:0.27
Consensus pattern (30 bp):
GAAAAATTTAAATCAAAATGAACCAAAATT
Found at i:39504656 original size:19 final size:19
Alignment explanation
Indices: 39504634--39504671 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
39504624 CTAGTTAACG
39504634 TTGGTCAAATAACTTAATT
1 TTGGTCAAATAACTTAATT
*
39504653 TTGGTCCAATAACTTAATT
1 TTGGTCAAATAACTTAATT
39504672 GATATATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.34, C:0.13, G:0.11, T:0.42
Consensus pattern (19 bp):
TTGGTCAAATAACTTAATT
Found at i:39506595 original size:30 final size:29
Alignment explanation
Indices: 39506542--39506599 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 29
39506532 GGCACAATTT
*
39506542 TTTTATTTTATTAATAGTATATATTTTTA
1 TTTTATTGTATTAATAGTATATATTTTTA
**
39506571 TTTTATTGTATTACATTTTATATATTTTT
1 TTTTATTGTATTA-ATAGTATATATTTTT
39506600 TAAAGGAATC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 12 0.48
30 13 0.52
ACGTcount: A:0.28, C:0.02, G:0.03, T:0.67
Consensus pattern (29 bp):
TTTTATTGTATTAATAGTATATATTTTTA
Found at i:39517838 original size:2 final size:2
Alignment explanation
Indices: 39517831--39517863 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
39517821 TCTACAAGAC
39517831 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
39517864 GTATGTATGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:39517868 original size:4 final size:4
Alignment explanation
Indices: 39517861--39517895 Score: 70
Period size: 4 Copynumber: 8.8 Consensus size: 4
39517851 TATATATATA
39517861 TATG TATG TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TAT
39517896 ATGCACCTTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:39538200 original size:7 final size:7
Alignment explanation
Indices: 39538188--39538216 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
39538178 AAATGGTCTC
39538188 TTTATTA
1 TTTATTA
39538195 TTTATTA
1 TTTATTA
39538202 TTTATTA
1 TTTATTA
39538209 TTTATTA
1 TTTATTA
39538216 T
1 T
39538217 AAGATGAGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
TTTATTA
Found at i:39543588 original size:23 final size:23
Alignment explanation
Indices: 39543568--39543628 Score: 97
Period size: 23 Copynumber: 2.7 Consensus size: 23
39543558 TAAATTTATT
39543568 TTTAAATTTAAATTTACTTTAAA
1 TTTAAATTTAAATTTACTTTAAA
**
39543591 TTTAAATTTAAATTTGTTTTAAA
1 TTTAAATTTAAATTTACTTTAAA
39543614 TTTAAATTT-AATTTA
1 TTTAAATTTAAATTTA
39543629 AATTTGAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
22 5 0.14
23 30 0.86
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (23 bp):
TTTAAATTTAAATTTACTTTAAA
Found at i:39543590 original size:17 final size:18
Alignment explanation
Indices: 39543556--39543600 Score: 74
Period size: 17 Copynumber: 2.6 Consensus size: 18
39543546 TTAGATTGGT
*
39543556 TTTAAATTTATTTTTAAA
1 TTTAAATTTATCTTTAAA
39543574 TTTAAATTTA-CTTTAAA
1 TTTAAATTTATCTTTAAA
39543591 TTTAAATTTA
1 TTTAAATTTA
39543601 AATTTGTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
17 16 0.62
18 10 0.38
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (18 bp):
TTTAAATTTATCTTTAAA
Found at i:39543611 original size:17 final size:17
Alignment explanation
Indices: 39543591--39543652 Score: 72
Period size: 17 Copynumber: 3.6 Consensus size: 17
39543581 TTACTTTAAA
39543591 TTTAAATTTAAATTTGT
1 TTTAAATTTAAATTTGT
**
39543608 TTTAAATTTAAATTTAA
1 TTTAAATTTAAATTTGT
*
39543625 TTTAAATTTGAAA-TGGT
1 TTTAAATTT-AAATTTGT
*
39543642 TTTAAACTTAA
1 TTTAAATTTAA
39543653 CTTTAAATTT
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
16 2 0.05
17 33 0.87
18 3 0.08
ACGTcount: A:0.40, C:0.02, G:0.06, T:0.52
Consensus pattern (17 bp):
TTTAAATTTAAATTTGT
Found at i:39543658 original size:6 final size:6
Alignment explanation
Indices: 39543556--39543638 Score: 91
Period size: 6 Copynumber: 14.2 Consensus size: 6
39543546 TTAGATTGGT
** *
39543556 TTTAAA TTTATT TTTAAA TTTAAA TTT-AC TTTAAA TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
**
39543603 TTT-GT TTTAAA TTTAAA TTT-AA TTTAAA TTTGAAA T
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTT-AAA T
39543639 GGTTTTAAAC
Statistics
Matches: 63, Mismatches: 10, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
5 12 0.19
6 47 0.75
7 4 0.06
ACGTcount: A:0.41, C:0.01, G:0.02, T:0.55
Consensus pattern (6 bp):
TTTAAA
Found at i:39543667 original size:34 final size:34
Alignment explanation
Indices: 39543574--39543664 Score: 114
Period size: 34 Copynumber: 2.6 Consensus size: 34
39543564 TATTTTTAAA
* *
39543574 TTTAAATTTACTTTAAATTTAAATTTAAATTTGT
1 TTTAAATTAACTTTAAATTTAAATTTAAATTGGT
*
39543608 TTTAAATTTAAATTT-AATTTAAATTTGAAA-TGGT
1 TTTAAA-TTAACTTTAAATTTAAATTT-AAATTGGT
39543642 TTTAAACTTAACTTTAAATTTAA
1 TTTAAA-TTAACTTTAAATTTAA
39543665 TTTCAAAGTC
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
34 33 0.67
35 16 0.33
ACGTcount: A:0.41, C:0.03, G:0.04, T:0.52
Consensus pattern (34 bp):
TTTAAATTAACTTTAAATTTAAATTTAAATTGGT
Found at i:39544282 original size:9 final size:9
Alignment explanation
Indices: 39544245--39544307 Score: 54
Period size: 9 Copynumber: 6.8 Consensus size: 9
39544235 ATAAATAGGT
39544245 TTAATAATA
1 TTAATAATA
*
39544254 ATAATAATAA
1 TTAATAAT-A
*
39544264 TTATTAATA
1 TTAATAATA
39544273 TTAATAATA
1 TTAATAATA
** *
39544282 TTTTTGATA
1 TTAATAATA
*
39544291 ATAATAATA
1 TTAATAATA
39544300 TTTAATAA
1 -TTAATAA
39544308 AAAAAAAGAG
Statistics
Matches: 40, Mismatches: 12, Indels: 3
0.73 0.22 0.05
Matches are distributed among these distances:
9 27 0.68
10 13 0.32
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (9 bp):
TTAATAATA
Found at i:39545400 original size:30 final size:29
Alignment explanation
Indices: 39545365--39545661 Score: 148
Period size: 30 Copynumber: 10.1 Consensus size: 29
39545355 CCTTGAAGGT
39545365 CCCCAAACTATCCAAAAATCATATTTTGAC
1 CCCCAAACT-TCCAAAAATCATATTTTGAC
* *
39545395 CCCCAAACTTTCCAAAAATTATATTTAGAC
1 CCCCAAAC-TTCCAAAAATCATATTTTGAC
* * * * *
39545425 ACCCGAACTTTCCAAAAATTACATTTCGAC
1 CCCCAAAC-TTCCAAAAATCATATTTTGAC
* * * *
39545455 CCCTAAACTTCAAAAAATTACCATTTTGA-
1 CCCCAAACTTCCAAAAATCA-TATTTTGAC
* * * *
39545484 CCGCGAACTTCCAATAATTCCAT-TTTT-AA
1 CCCCAAACTTCCAA-AAAT-CATATTTTGAC
* *
39545513 CCCTAAATTTTCCAAAAATTCCAT-TTTTGA-
1 CCCCAAA-CTTCCAAAAA-T-CATATTTTGAC
*
39545543 CCCCAAACTTCTAAAAATCCAT-TTTTGA-
1 CCCCAAACTTCCAAAAAT-CATATTTTGAC
* * *
39545571 CCCCAAATTTTCCAAAAATTACCA-TTT-AC
1 CCCCAAA-CTTCCAAAAATCA-TATTTTGAC
* * * *
39545600 CCTCAAACTTCAAAAAATTC-TATTTTTAA
1 CCCCAAACTTCCAAAAA-TCATATTTTGAC
*
39545629 CCCCAAACTTCTAAAAATTCCAT-TTTTGAC
1 CCCCAAACTTCCAAAAA-T-CATATTTTGAC
39545659 CCC
1 CCC
39545662 AAATTTTTTA
Statistics
Matches: 210, Mismatches: 40, Indels: 34
0.74 0.14 0.12
Matches are distributed among these distances:
27 1 0.00
28 32 0.15
29 76 0.36
30 97 0.46
31 4 0.02
ACGTcount: A:0.37, C:0.28, G:0.03, T:0.32
Consensus pattern (29 bp):
CCCCAAACTTCCAAAAATCATATTTTGAC
Found at i:39545492 original size:29 final size:29
Alignment explanation
Indices: 39545365--39545664 Score: 260
Period size: 29 Copynumber: 10.2 Consensus size: 29
39545355 CCTTGAAGGT
39545365 CCCCAAACTATCCAAAAA-T-CATATTTTGA
1 CCCCAAACT-TCCAAAAATTCCAT-TTTTGA
*
39545394 CCCCCAAACTTTCCAAAAATT--ATATTTAGA
1 -CCCCAAAC-TTCCAAAAATTCCAT-TTTTGA
* * *
39545424 CACCCGAACTTTCCAAAAATTACA-TTTCGA
1 C-CCCAAAC-TTCCAAAAATTCCATTTTTGA
*
39545454 CCCCTAAACTTCAAAAAATTACCA-TTTTGA
1 CCCC-AAACTTCCAAAAATT-CCATTTTTGA
* * * *
39545484 CCGCGAACTTCCAATAATTCCATTTTTAA
1 CCCCAAACTTCCAAAAATTCCATTTTTGA
* *
39545513 CCCTAAATTTTCCAAAAATTCCATTTTTGA
1 CCCCAAA-CTTCCAAAAATTCCATTTTTGA
*
39545543 CCCCAAACTTCTAAAAA-TCCATTTTTGA
1 CCCCAAACTTCCAAAAATTCCATTTTTGA
*
39545571 CCCCAAATTTTCCAAAAATTACCA--TTT-A
1 CCCCAAA-CTTCCAAAAATT-CCATTTTTGA
* * *
39545599 CCCTCAAACTTCAAAAAATTCTATTTTTAA
1 CCC-CAAACTTCCAAAAATTCCATTTTTGA
*
39545629 CCCCAAACTTCTAAAAATTCCATTTTTGA
1 CCCCAAACTTCCAAAAATTCCATTTTTGA
39545658 CCCCAAA
1 CCCCAAA
39545665 TTTTTTAAAA
Statistics
Matches: 225, Mismatches: 29, Indels: 33
0.78 0.10 0.11
Matches are distributed among these distances:
27 2 0.01
28 35 0.16
29 91 0.40
30 91 0.40
31 5 0.02
32 1 0.00
ACGTcount: A:0.37, C:0.28, G:0.03, T:0.32
Consensus pattern (29 bp):
CCCCAAACTTCCAAAAATTCCATTTTTGA
Found at i:39545675 original size:86 final size:87
Alignment explanation
Indices: 39545365--39545688 Score: 272
Period size: 86 Copynumber: 3.7 Consensus size: 87
39545355 CCTTGAAGGT
* * * *
39545365 CCCCAAACTATCCAAAAAT-CATATTTTGACCCCCAAACTTTCCAAAAATTA-TATTTAGACACC
1 CCCCAAACT-TCTAAAAATCCAT-TTTTGA-CCCCAAATTTTCCAAAAATTACCATTT-TAC-CC
* * * **
39545428 -CGAACTTTCCAAAAATTACA-TTTCGA
61 TCAAAC-TTCAAAAAATTCCATTTTTAA
* * * * *
39545454 CCCCTAAACTTCAAAAAATTACCA-TTTTGACCGCGAA-CTTCCAATAATT-CCATTTTTAACCC
1 CCCC-AAACTTCTAAAAA-T-CCATTTTTGACCCCAAATTTTCCAAAAATTACCA-TTTT-ACCC
* * *
39545516 T-AAATTTTCCAAAAATTCCATTTTTGA
61 TCAAA-CTTCAAAAAATTCCATTTTTAA
39545543 CCCCAAACTTCTAAAAATCCATTTTTGACCCCAAATTTTCCAAAAATTACCA-TTTACCCTCAAA
1 CCCCAAACTTCTAAAAATCCATTTTTGACCCCAAATTTTCCAAAAATTACCATTTTACCCTCAAA
*
39545607 CTTCAAAAAATTCTATTTTTAA
66 CTTCAAAAAATTCCATTTTTAA
** *
39545629 CCCCAAACTTCTAAAAATTCCATTTTTGACCCCAAATTTT-TTAAAATTATCATTTTACCC
1 CCCCAAACTTCTAAAAA-TCCATTTTTGACCCCAAATTTTCCAAAAATTACCATTTTACCC
39545689 CCGGGCATCC
Statistics
Matches: 196, Mismatches: 23, Indels: 34
0.77 0.09 0.13
Matches are distributed among these distances:
86 52 0.27
87 47 0.24
88 50 0.26
89 33 0.17
90 12 0.06
92 2 0.01
ACGTcount: A:0.37, C:0.27, G:0.03, T:0.33
Consensus pattern (87 bp):
CCCCAAACTTCTAAAAATCCATTTTTGACCCCAAATTTTCCAAAAATTACCATTTTACCCTCAAA
CTTCAAAAAATTCCATTTTTAA
Found at i:39545685 original size:58 final size:59
Alignment explanation
Indices: 39545504--39545684 Score: 178
Period size: 58 Copynumber: 3.1 Consensus size: 59
39545494 CCAATAATTC
* * *
39545504 CATTTTTAACCCTAAATTTTCCAAAAATTCCATTTTTGACCCCAAACTTCTAAAA--AT
1 CATTTTTAACCCCAAATTTTCCAAAAATTCCATTTTTGACCCCAAATTTATAAAATTAT
* * * *
39545561 CCATTTTTGACCCCAAATTTTCCAAAAATTACCA--TTT-ACCCTCAAACTTCAAAAAATTCT
1 -CATTTTTAACCCCAAATTTTCCAAAAATT-CCATTTTTGACCC-CAAA-TTTATAAAATTAT
* * *
39545621 -ATTTTTAACCCCAAA-CTTCTAAAAATTCCATTTTTGACCCCAAATTTTTTAAAATTAT
1 CATTTTTAACCCCAAATTTTCCAAAAATTCCATTTTTGACCCCAAA-TTTATAAAATTAT
39545679 CATTTT
1 CATTTT
39545685 ACCCCCGGGC
Statistics
Matches: 99, Mismatches: 15, Indels: 17
0.76 0.11 0.13
Matches are distributed among these distances:
56 7 0.07
57 17 0.17
58 62 0.63
59 12 0.12
60 1 0.01
ACGTcount: A:0.36, C:0.24, G:0.02, T:0.38
Consensus pattern (59 bp):
CATTTTTAACCCCAAATTTTCCAAAAATTCCATTTTTGACCCCAAATTTATAAAATTAT
Found at i:39547402 original size:7 final size:7
Alignment explanation
Indices: 39547390--39547418 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
39547380 AAATGGTCTC
39547390 TTTATTA
1 TTTATTA
39547397 TTTATTA
1 TTTATTA
39547404 TTTATTA
1 TTTATTA
39547411 TTTATTA
1 TTTATTA
39547418 T
1 T
39547419 GAGATGAAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
TTTATTA
Found at i:39554011 original size:21 final size:22
Alignment explanation
Indices: 39553987--39554028 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
39553977 TTTACCGGAT
39553987 TCAAA-AATAAAT-AAATAAAAC
1 TCAAATAA-AAATAAAATAAAAC
39554008 TCAAATAAAAATAAAATAAAA
1 TCAAATAAAAATAAAATAAAA
39554029 TTTTATTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.74, C:0.07, G:0.00, T:0.19
Consensus pattern (22 bp):
TCAAATAAAAATAAAATAAAAC
Found at i:39560614 original size:7 final size:7
Alignment explanation
Indices: 39560602--39560646 Score: 90
Period size: 7 Copynumber: 6.4 Consensus size: 7
39560592 TAGATTTTAT
39560602 TTTAAAA
1 TTTAAAA
39560609 TTTAAAA
1 TTTAAAA
39560616 TTTAAAA
1 TTTAAAA
39560623 TTTAAAA
1 TTTAAAA
39560630 TTTAAAA
1 TTTAAAA
39560637 TTTAAAA
1 TTTAAAA
39560644 TTT
1 TTT
39560647 CAATATGAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 38 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (7 bp):
TTTAAAA
Found at i:39563104 original size:25 final size:25
Alignment explanation
Indices: 39563041--39563106 Score: 107
Period size: 25 Copynumber: 2.6 Consensus size: 25
39563031 TGAATTTGAT
*
39563041 TTTTTTTTCTAACTTGACTATTAAA
1 TTTTTTTTCTAATTTGACTATTAAA
39563066 TTTTTTTTCTAATTTGACTATTAAA
1 TTTTTTTTCTAATTTGACTATTAAA
39563091 TTTTTTATTC-AATTTG
1 TTTTTT-TTCTAATTTG
39563107 GTACCTAAAC
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
25 36 0.92
26 3 0.08
ACGTcount: A:0.26, C:0.09, G:0.05, T:0.61
Consensus pattern (25 bp):
TTTTTTTTCTAATTTGACTATTAAA
Found at i:39568253 original size:89 final size:88
Alignment explanation
Indices: 39568155--39568367 Score: 236
Period size: 88 Copynumber: 2.4 Consensus size: 88
39568145 CCAATTTTTT
* *
39568155 TTTTAAAAAAAAGCAATTAAGGTCCTGCTTTTTTTTAACACTTAATTCGA-TACTTAAACTTTTA
1 TTTTAAAAAAAA-CAATTAAGGTCCTGCTTTTTTTT-ACACTCAATT-GAGTACTTAAACTTTCA
* *
39568219 AAATGCAT--CAAAAAGGTCCTCAAAC
63 AAATGCATAAAAAAAAGCT-CTCAAAC
* * * *
39568244 TTTTAAAAAAAAACAATTAA-GTCTCTACTATTTTTTGCACTCAATTGAGTACTTGAACTTTCAA
1 TTTT-AAAAAAAACAATTAAGGTC-CTGCTTTTTTTTACACTCAATTGAGTACTTAAACTTTCAA
*
39568308 AATGTATAAAAAAAAGCTCTCAAAC
64 AATGCATAAAAAAAAGCTCTCAAAC
* **
39568333 TTTTAAAAAAAAAAATTAAGCCCCTGCTTTTTTTT
1 TTTTAAAAAAAACAATTAAGGTCCTGCTTTTTTTT
39568368 TTTTTGCACT
Statistics
Matches: 104, Mismatches: 14, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
87 2 0.02
88 54 0.52
89 33 0.32
90 15 0.14
ACGTcount: A:0.40, C:0.16, G:0.08, T:0.36
Consensus pattern (88 bp):
TTTTAAAAAAAACAATTAAGGTCCTGCTTTTTTTTACACTCAATTGAGTACTTAAACTTTCAAAA
TGCATAAAAAAAAGCTCTCAAAC
Found at i:39568310 original size:88 final size:88
Alignment explanation
Indices: 39568155--39568414 Score: 258
Period size: 89 Copynumber: 2.9 Consensus size: 88
39568145 CCAATTTTTT
* * * * * *
39568155 TTTTAAAAAAAAGCAATTAAGGTC-CTGCTTTTTTTTAACACTTAATTCGA-TACTTAAACTTTT
1 TTTTAAAAAAAAACAATTAA-GTCTCTACTTTTTTTT-GCACTCAATT-GAGTACTTGAACTTTC
*
39568218 AAAATGCATC-AAAAAGGTCCTCAAAC
63 AAAATGCATCAAAAAAGCT-CTCAAAC
*
39568244 TTTTAAAAAAAAACAATTAAGTCTCTACTATTTTTTGCACTCAATTGAGTACTTGAACTTTCAAA
1 TTTTAAAAAAAAACAATTAAGTCTCTACTTTTTTTTGCACTCAATTGAGTACTTGAACTTTCAAA
* *
39568309 ATGTATAAAAAAAAGCTCTCAAAC
66 ATGCAT-CAAAAAAGCTCTCAAAC
* ** * * *
39568333 TTTTAAAAAAAAA-AATTAAGCCCCTGCTTTTTTTTTTTTTGCACTCAATTGGGTATTTGAACTG
1 TTTTAAAAAAAAACAATTAAG----T-CTCTACTTTTTTTTGCACTCAATTGAGTACTTGAACTT
39568397 TCAAAATGCATCAAAAAA
61 TCAAAATGCATCAAAAAA
39568415 CCCTTTGACC
Statistics
Matches: 143, Mismatches: 19, Indels: 15
0.81 0.11 0.08
Matches are distributed among these distances:
87 2 0.01
88 37 0.26
89 49 0.34
90 7 0.05
92 7 0.05
93 41 0.29
ACGTcount: A:0.40, C:0.16, G:0.09, T:0.35
Consensus pattern (88 bp):
TTTTAAAAAAAAACAATTAAGTCTCTACTTTTTTTTGCACTCAATTGAGTACTTGAACTTTCAAA
ATGCATCAAAAAAGCTCTCAAAC
Found at i:39568556 original size:29 final size:29
Alignment explanation
Indices: 39568513--39568607 Score: 90
Period size: 29 Copynumber: 3.3 Consensus size: 29
39568503 GTGACATGTG
* *
39568513 ATTA-AAAAATAATTAAAAATCAATAAAA
1 ATTATAAAAATTATTAAAATTCAATAAAA
39568541 ATTATAAAAATTATT-AAATTCTAATGAAAA
1 ATTATAAAAATTATTAAAATTC-AAT-AAAA
* *
39568571 A-TATAAAAATGT-TTAAAATTTATTAAAA
1 ATTATAAAAAT-TATTAAAATTCAATAAAA
*
39568599 ATTAGAAAA
1 ATTATAAAA
39568608 CAATTATAAA
Statistics
Matches: 56, Mismatches: 5, Indels: 11
0.78 0.07 0.15
Matches are distributed among these distances:
28 14 0.25
29 31 0.55
30 11 0.20
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (29 bp):
ATTATAAAAATTATTAAAATTCAATAAAA
Found at i:39568558 original size:10 final size:10
Alignment explanation
Indices: 39568517--39568602 Score: 56
Period size: 10 Copynumber: 8.8 Consensus size: 10
39568507 CATGTGATTA
*
39568517 AAAAATAATT
1 AAAAATTATT
* *
39568527 AAAAATCAAT
1 AAAAATTATT
39568537 AAAAATTA-T
1 AAAAATTATT
39568546 AAAAATTATT
1 AAAAATTATT
* *
39568556 -AAATTCTAATG
1 AAAAAT-T-ATT
39568567 AAAAA-TA-T
1 AAAAATTATT
39568575 AAAAATGT-TT
1 AAAAAT-TATT
*
39568585 AAAATTTATT
1 AAAAATTATT
39568595 AAAAATTA
1 AAAAATTA
39568603 GAAAACAATT
Statistics
Matches: 59, Mismatches: 9, Indels: 16
0.70 0.11 0.19
Matches are distributed among these distances:
8 5 0.08
9 15 0.25
10 34 0.58
11 2 0.03
12 3 0.05
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (10 bp):
AAAAATTATT
Found at i:39568670 original size:29 final size:30
Alignment explanation
Indices: 39568597--39568678 Score: 80
Period size: 30 Copynumber: 2.8 Consensus size: 30
39568587 AATTTATTAA
* * *
39568597 AAAT-TAGAAAACAATTATAAAATACATGG
1 AAATATAGAAAAAAAATATAAAATACATAG
39568626 AAATATAGAAAAAAAATATAAAATCACA-AG
1 AAATATAGAAAAAAAATATAAAAT-ACATAG
* *
39568656 AAA-ATAGCAAGAAAATAATAAAA
1 AAATATAGAAAAAAAAT-ATAAAA
39568679 AAATGTAAAT
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
29 15 0.33
30 27 0.60
31 3 0.07
ACGTcount: A:0.67, C:0.06, G:0.09, T:0.18
Consensus pattern (30 bp):
AAATATAGAAAAAAAATATAAAATACATAG
Found at i:39568913 original size:20 final size:22
Alignment explanation
Indices: 39568888--39568933 Score: 69
Period size: 20 Copynumber: 2.2 Consensus size: 22
39568878 TAATTGAAAG
*
39568888 TTTTTTTATGA-ATTT-TATAA
1 TTTTTTTATGATATTTATAAAA
39568908 TTTTTTTATGATATTTATAAAA
1 TTTTTTTATGATATTTATAAAA
39568930 TTTT
1 TTTT
39568934 ATAATTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 11 0.48
21 4 0.17
22 8 0.35
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.65
Consensus pattern (22 bp):
TTTTTTTATGATATTTATAAAA
Found at i:39568952 original size:19 final size:19
Alignment explanation
Indices: 39568890--39568952 Score: 56
Period size: 19 Copynumber: 3.3 Consensus size: 19
39568880 ATTGAAAGTT
*
39568890 TTTTTATGAAT-TTTATAATT
1 TTTTTAT-AATATTTATAA-A
*
39568910 TTTTTATGATATTTATAAA
1 TTTTTATAATATTTATAAA
* * *
39568929 ATTTTATAATTTTTTTAAA
1 TTTTTATAATATTTATAAA
39568948 TTTTT
1 TTTTT
39568953 TAAAAAAATT
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
19 21 0.60
20 14 0.40
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (19 bp):
TTTTTATAATATTTATAAA
Found at i:39572984 original size:6 final size:5
Alignment explanation
Indices: 39572945--39572983 Score: 53
Period size: 5 Copynumber: 7.6 Consensus size: 5
39572935 CAAATATTAT
39572945 AAAT- AAATA AAATA AAATA AAATAA AAATAA AAATA AAA
1 AAATA AAATA AAATA AAATA AAAT-A AAAT-A AAATA AAA
39572984 ACCTAAACAA
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.12
5 18 0.55
6 11 0.33
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAATA
Found at i:39577650 original size:26 final size:26
Alignment explanation
Indices: 39577589--39577651 Score: 67
Period size: 26 Copynumber: 2.4 Consensus size: 26
39577579 ATTAAATTAA
39577589 ATTAAATTTTTATTATTAAATAGATT
1 ATTAAATTTTTATTATTAAATAGATT
* * *
39577615 ATTTAGTTTTTATACTATTAAA-A-TTT
1 ATTAAATTTTTAT--TATTAAATAGATT
39577641 ATTAAATTTTT
1 ATTAAATTTTT
39577652 GGGTTACAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
26 22 0.73
27 1 0.03
28 7 0.23
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.57
Consensus pattern (26 bp):
ATTAAATTTTTATTATTAAATAGATT
Found at i:39584822 original size:28 final size:28
Alignment explanation
Indices: 39584777--39584831 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
39584767 ATATTATTTT
*
39584777 TTTTAATTTTTTAAAAATATT-TATATTA
1 TTTTAATTATTTAAAAAT-TTATATATTA
39584805 TTTTAA-TATTTAATAAATTTATATATT
1 TTTTAATTATTTAA-AAATTTATATATT
39584832 CTTTATTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
27 8 0.33
28 16 0.67
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (28 bp):
TTTTAATTATTTAAAAATTTATATATTA
Found at i:39587980 original size:5 final size:5
Alignment explanation
Indices: 39587963--39587997 Score: 54
Period size: 5 Copynumber: 7.2 Consensus size: 5
39587953 GTTATAAATT
*
39587963 ATATA ATAT- ATATA ATATA ATATA ATATA TTATA A
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA A
39587998 ATTTAGAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (5 bp):
ATATA
Found at i:39590406 original size:15 final size:15
Alignment explanation
Indices: 39590386--39590419 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
39590376 TCAAAGACTT
* *
39590386 AAAATCTTTTTCAAG
1 AAAATCATTTTCAAC
39590401 AAAATCATTTTCAAC
1 AAAATCATTTTCAAC
39590416 AAAA
1 AAAA
39590420 ACTCTCAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.50, C:0.15, G:0.03, T:0.32
Consensus pattern (15 bp):
AAAATCATTTTCAAC
Found at i:39600892 original size:16 final size:15
Alignment explanation
Indices: 39600867--39600896 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
39600857 CATGTGTGAA
39600867 TTTGTTTAAATTTAT
1 TTTGTTTAAATTTAT
39600882 TTTGATTTAAATTTA
1 TTTG-TTTAAATTTA
39600897 AATATACTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (15 bp):
TTTGTTTAAATTTAT
Found at i:39602411 original size:2 final size:2
Alignment explanation
Indices: 39602406--39602438 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
39602396 AGGTATTCAC
*
39602406 AG AG AG AG AG AG GG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
39602439 ATGTTTGAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
AG
Found at i:39603024 original size:4 final size:4
Alignment explanation
Indices: 39603003--39603057 Score: 56
Period size: 4 Copynumber: 13.8 Consensus size: 4
39602993 GAAAAAACTG
* * * * *
39603003 TATA TATA TGTA TGTA TATA TACA TATA TATA TATA TGTA TATG TATA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
*
39603051 TGTA TAT
1 TATA TAT
39603058 GTATGATGTG
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
4 41 1.00
ACGTcount: A:0.40, C:0.02, G:0.09, T:0.49
Consensus pattern (4 bp):
TATA
Found at i:39603035 original size:6 final size:6
Alignment explanation
Indices: 39603003--39603057 Score: 56
Period size: 6 Copynumber: 9.2 Consensus size: 6
39602993 GAAAAAACTG
* * * * *
39603003 TATATA TATGTA TGTATA TATACA TATATA TATATA TGTATA TGTATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
*
39603051 TGTATA T
1 TATATA T
39603058 GTATGATGTG
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 42 1.00
ACGTcount: A:0.40, C:0.02, G:0.09, T:0.49
Consensus pattern (6 bp):
TATATA
Done.