Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 118 of 318
Found at i:36129207 original size:19 final size:20
Alignment explanation
Indices: 36129170--36129207 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
36129160 ATAAGGTGGT
36129170 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
36129190 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
36129208 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:36134289 original size:29 final size:29
Alignment explanation
Indices: 36134255--36134416 Score: 209
Period size: 29 Copynumber: 5.6 Consensus size: 29
36134245 TACTCGATTT
** * *
36134255 CGCACACTTAGTGCCATGCGATTT-AAGCC
1 CGCACACTTAGTGCCAT-ATATTTCCAGCA
* *** * *
36134284 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
36134313 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
36134342 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
36134371 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
36134400 CGCACACTTAGTGCCAT
1 CGCACACTTAGTGCCAT
36134417 CTCGTCACCG
Statistics
Matches: 117, Mismatches: 15, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
28 2 0.02
29 115 0.98
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:36142240 original size:29 final size:29
Alignment explanation
Indices: 36142206--36142367 Score: 209
Period size: 29 Copynumber: 5.6 Consensus size: 29
36142196 TACTCGATTT
** * *
36142206 CGCACACTTAGTGCCATGCGATTT-AAGCC
1 CGCACACTTAGTGCCAT-ATATTTCCAGCA
* *** * *
36142235 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
36142264 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
36142293 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
36142322 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
36142351 CGCACACTTAGTGCCAT
1 CGCACACTTAGTGCCAT
36142368 CTCGTCACCG
Statistics
Matches: 117, Mismatches: 15, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
28 2 0.02
29 115 0.98
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:36148586 original size:42 final size:42
Alignment explanation
Indices: 36148534--36148625 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
36148524 TTAGACACAC
*
36148534 AGGCATGTCTATTGGCCGTGTGTGACACACGGCCTAGCACGT
1 AGGCATGTCTACTGGCCGTGTGTGACACACGGCCTAGCACGT
* * *
36148576 AGGCGTGTCTACTGGCCGTGTGTGACACACGGGCTAGCACAT
1 AGGCATGTCTACTGGCCGTGTGTGACACACGGCCTAGCACGT
*
36148618 GGGCATGT
1 AGGCATGT
36148626 AGCCGATCGT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.18, C:0.25, G:0.34, T:0.23
Consensus pattern (42 bp):
AGGCATGTCTACTGGCCGTGTGTGACACACGGCCTAGCACGT
Found at i:36150752 original size:46 final size:45
Alignment explanation
Indices: 36150627--36150756 Score: 145
Period size: 46 Copynumber: 2.8 Consensus size: 45
36150617 TGTAACCCGC
* * *
36150627 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTTGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA-GCATTGAT
* *** *
36150673 ACATCTCTCGAACTCGGACTCAACTCAATGAGTTCGGA-CATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGTTCGGAGCATT-G-AT
36150720 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
36150757 TGCCCAAATA
Statistics
Matches: 68, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
45 3 0.04
46 33 0.49
47 32 0.47
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.23
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTGAT
Found at i:36156115 original size:2 final size:2
Alignment explanation
Indices: 36156108--36156149 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
36156098 CGACTACTTG
* *
36156108 AT AT AT AT AT AT AT AC AT AT AT AT AT AT AT AT AA AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
36156150 TTGATGTTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:36166793 original size:28 final size:27
Alignment explanation
Indices: 36166730--36166799 Score: 115
Period size: 28 Copynumber: 2.6 Consensus size: 27
36166720 ATAGTGAGTC
36166730 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
36166757 CGCACACTTAGTGCTATATGAA-CAAACT
1 CGCACACTTAGTGCTATAT-AATC-AACT
36166785 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
36166800 GTACAAGTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
27 20 0.49
28 21 0.51
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:36170888 original size:42 final size:42
Alignment explanation
Indices: 36170799--36170945 Score: 152
Period size: 43 Copynumber: 3.5 Consensus size: 42
36170789 TAACGAAATG
* * * * *
36170799 TGATTATGTGTTAGACCATGTTTGGGACATTGGCATCATTATG
1 TGATTACGTGTAAGACCATGTCTGGGA-ATTGGCATCGTTATT
36170842 TGATTACGTGTAAGACCATGTCTGGGAATTGGCATCGTTATT
1 TGATTACGTGTAAGACCATGTCTGGGAATTGGCATCGTTATT
* * * * *
36170884 TGATTTCGTGTAATACCATAG-CTGGGCTATCGGCATCGATATT
1 TGATTACGTGTAAGACCAT-GTCTGGG-AATTGGCATCGTTATT
* *
36170927 TGATAACATGTAAGACCAT
1 TGATTACGTGTAAGACCAT
36170946 AACTGGGATA
Statistics
Matches: 88, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
42 35 0.40
43 53 0.60
ACGTcount: A:0.26, C:0.15, G:0.24, T:0.35
Consensus pattern (42 bp):
TGATTACGTGTAAGACCATGTCTGGGAATTGGCATCGTTATT
Found at i:36170946 original size:43 final size:41
Alignment explanation
Indices: 36170850--36170961 Score: 109
Period size: 43 Copynumber: 2.6 Consensus size: 41
36170840 TGTGATTACG
* * ** *
36170850 TGTAAGACCAT-GTCTGGGAATTGGCATCGTTATTTGATTTCG
1 TGTAAGACCATAG-CTGGGTA-TGGCATCGATATTTGATAACA
*
36170892 TGTAATACCATAGCTGGGCTATCGGCATCGATATTTGATAACA
1 TGTAAGACCATAGCTGGG-TAT-GGCATCGATATTTGATAACA
*
36170935 TGTAAGACCATAACTGGGATATGGCAT
1 TGTAAGACCATAGCTGGG-TATGGCAT
36170962 TGTACAGCTA
Statistics
Matches: 58, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
42 21 0.36
43 37 0.64
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (41 bp):
TGTAAGACCATAGCTGGGTATGGCATCGATATTTGATAACA
Found at i:36173782 original size:20 final size:20
Alignment explanation
Indices: 36173754--36173792 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
36173744 TAAGAGCTTT
36173754 GGGTGTGAGATTTGTATTCG
1 GGGTGTGAGATTTGTATTCG
* * *
36173774 GGGTTTGAGTTTTTTATTC
1 GGGTGTGAGATTTGTATTC
36173793 TAATCGTACT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.05, G:0.33, T:0.49
Consensus pattern (20 bp):
GGGTGTGAGATTTGTATTCG
Found at i:36175731 original size:16 final size:17
Alignment explanation
Indices: 36175710--36175762 Score: 54
Period size: 20 Copynumber: 3.0 Consensus size: 17
36175700 AAGTTTATAT
36175710 AATAAAT-TATTTTTAA
1 AATAAATATATTTTTAA
36175726 AATAAATATAATTAATTTAA
1 AATAAATAT-ATT--TTTAA
* *
36175746 AATATATCTATTTTTAA
1 AATAAATATATTTTTAA
36175763 GTTATTTATC
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
16 7 0.23
17 6 0.19
18 3 0.10
19 3 0.10
20 12 0.39
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (17 bp):
AATAAATATATTTTTAA
Found at i:36175779 original size:17 final size:17
Alignment explanation
Indices: 36175759--36175801 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
36175749 ATATCTATTT
* *
36175759 TTAAGTTATTTATCAAA
1 TTAAGTTATATAACAAA
*
36175776 TTAATTTATATAACAAA
1 TTAAGTTATATAACAAA
36175793 TTAAAGTTA
1 TT-AAGTTA
36175802 CATTATTTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 16 0.76
18 5 0.24
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.44
Consensus pattern (17 bp):
TTAAGTTATATAACAAA
Found at i:36178902 original size:16 final size:15
Alignment explanation
Indices: 36178881--36178913 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
36178871 GTTCAAATTG
36178881 TAAAAATAAAGTAAAA
1 TAAAAATAAAG-AAAA
36178897 TAAAAATAAAGAAAA
1 TAAAAATAAAGAAAA
36178912 TA
1 TA
36178914 CAGATTTTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.18
Consensus pattern (15 bp):
TAAAAATAAAGAAAA
Found at i:36183302 original size:19 final size:19
Alignment explanation
Indices: 36183278--36183314 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
36183268 TATCCTTCGT
36183278 CAGATTTTACGTGGAAACA
1 CAGATTTTACGTGGAAACA
*
36183297 CAGATTTTATGTGGAAAC
1 CAGATTTTACGTGGAAAC
36183315 TTTTTCTAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.30
Consensus pattern (19 bp):
CAGATTTTACGTGGAAACA
Found at i:36186767 original size:43 final size:43
Alignment explanation
Indices: 36186600--36186768 Score: 104
Period size: 43 Copynumber: 4.0 Consensus size: 43
36186590 TATATTGAAT
** *
36186600 AATGCCAACGTCCCAGACGTGGTCTTACAT-G-CTATCTCATATC
1 AATGCCAACGTCCCAGACGTGGTCTTAC-TCGAGAAT-ACATATC
* *
36186643 GATGCC-ACTGTCCCAGACAG-GGTCTT-C-C-ACGAAT-CAAATAC
1 AATGCCAAC-GTCCCAGAC-GTGGTCTTACTCGA-GAATACATAT-C
* * * * * **
36186684 GATGCCGATGTCCCAAACATGGTCTTACTCGTA-ACCACATATC
1 AATGCCAACGTCCCAGACGTGGTCTTACTCG-AGAATACATATC
36186727 AATGCCAACGTCCCAGACGTGGTCTTACTCGAGAATACATAT
1 AATGCCAACGTCCCAGACGTGGTCTTACTCGAGAATACATAT
36186769 AGGAAATCCT
Statistics
Matches: 95, Mismatches: 17, Indels: 28
0.68 0.12 0.20
Matches are distributed among these distances:
40 4 0.04
41 21 0.22
42 8 0.08
43 56 0.59
44 5 0.05
45 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (43 bp):
AATGCCAACGTCCCAGACGTGGTCTTACTCGAGAATACATATC
Found at i:36188389 original size:22 final size:22
Alignment explanation
Indices: 36188363--36188407 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
36188353 CCCGATACGC
*
36188363 TCTATAGTTTCATAGGGCCCAA
1 TCTATAATTTCATAGGGCCCAA
36188385 TCTATAATTTCATAGGGCCCAA
1 TCTATAATTTCATAGGGCCCAA
36188407 T
1 T
36188408 ATATCTCGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (22 bp):
TCTATAATTTCATAGGGCCCAA
Found at i:36188955 original size:160 final size:160
Alignment explanation
Indices: 36188691--36189010 Score: 604
Period size: 160 Copynumber: 2.0 Consensus size: 160
36188681 GTAAGGTGCC
36188691 ATTTTGATACTCGATTGAAAGCTATTATTGTATGCAAATTCAATCAAAGATAAGTATAGTTCTCG
1 ATTTTGATACTCGATTGAAAGCTATTATTGTATGCAAATTCAATCAAAGATAAGTATAGTTCTCG
36188756 CGTACCTTCGATCTCGAGAATGCAACATCTCAACATATCCTCAAGTATCTAAATGACTCGTTCGG
66 CGTACCTTCGATCTCGAGAATGCAACATCTCAACATATCCTCAAGTATCTAAATGACTCGTTCGG
*
36188821 ACTGGCCATCTGTTTACGGATGGAAAGTAG
131 ACTGGCCATCTATTTACGGATGGAAAGTAG
*
36188851 ATTTTGATACTTGATTGAAAGCTATTATTGTATGCAAATTCAATCAAAGATAAGTATAGTTCTCG
1 ATTTTGATACTCGATTGAAAGCTATTATTGTATGCAAATTCAATCAAAGATAAGTATAGTTCTCG
* *
36188916 CGTACCTTTGATCTCTAGAATGCAACATCTCAACATATCCTCAAGTATCTAAATGACTCGTTCGG
66 CGTACCTTCGATCTCGAGAATGCAACATCTCAACATATCCTCAAGTATCTAAATGACTCGTTCGG
36188981 ACTGGCCATCTATTTACGGATGGAAAGTAG
131 ACTGGCCATCTATTTACGGATGGAAAGTAG
36189011 TGCTGAAATG
Statistics
Matches: 156, Mismatches: 4, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
160 156 1.00
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (160 bp):
ATTTTGATACTCGATTGAAAGCTATTATTGTATGCAAATTCAATCAAAGATAAGTATAGTTCTCG
CGTACCTTCGATCTCGAGAATGCAACATCTCAACATATCCTCAAGTATCTAAATGACTCGTTCGG
ACTGGCCATCTATTTACGGATGGAAAGTAG
Found at i:36190685 original size:28 final size:28
Alignment explanation
Indices: 36190624--36190721 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
36190614 TCACAAATTG
** * *
36190624 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
36190653 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
36190681 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
36190709 GCACTAAGTGTGC
1 GCACTAAGTGTGC
36190722 GGGCTTATTG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:36198213 original size:28 final size:28
Alignment explanation
Indices: 36198152--36198249 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
36198142 TCACAAATTG
** * *
36198152 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
36198181 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
36198209 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
36198237 GCACTAAGTGTGC
1 GCACTAAGTGTGC
36198250 GGGCTTATTG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:36201151 original size:48 final size:48
Alignment explanation
Indices: 36201062--36201269 Score: 160
Period size: 48 Copynumber: 4.4 Consensus size: 48
36201052 GGGTTGATTA
* * * * * * *
36201062 GATCCCGTATAAGACCATATCTGGGATATGGAATCGACATCGTTATGT
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATCGGCATCGATATGT
* * * *
36201110 GATCTCATGTAATACCATGTCTGGGACATGGCATTGGCATCGATATGA
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATCGGCATCGATATGT
* *** *
36201158 GAACATTGTGTAAGACCATAGT-TGGG-C-T---ATCGGCTTCGATATGT
1 GATC-CCATGTAAGACCAT-GTCTGGGACATGGCATCGGCATCGATATGT
*
36201202 GCGATCCCATGTAAGACCATGTCTGGGACATGGCA-CTGGCATCGATAAGT
1 --GATCCCATGTAAGACCATGTCTGGGACATGGCATC-GGCATCGATATGT
*
36201252 GGTCCCATGTAAGACCAT
1 GATCCCATGTAAGACCAT
36201270 ATCCAGGATA
Statistics
Matches: 124, Mismatches: 25, Indels: 22
0.73 0.15 0.13
Matches are distributed among these distances:
44 15 0.12
45 15 0.12
46 4 0.03
47 2 0.02
48 58 0.47
49 16 0.13
50 14 0.11
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.27
Consensus pattern (48 bp):
GATCCCATGTAAGACCATGTCTGGGACATGGCATCGGCATCGATATGT
Found at i:36203609 original size:35 final size:35
Alignment explanation
Indices: 36203504--36203609 Score: 88
Period size: 38 Copynumber: 2.9 Consensus size: 35
36203494 TACAATCATG
* * * * *
36203504 GTGTCATTCCATAGAGTTAATAGACCATTGTTACG
1 GTGTCACTCCATAGAGTCAATAAACCATTGTCACA
* * * *
36203539 GTATCACTCTAGT-GAGCCAGACTATAACCGTTGTCACA
1 GTGTCACTCCA-TAGAGTCA-A-TA-AACCATTGTCACA
36203577 GTGTCACTCCATAGAGTCAATAAACCATTGTCA
1 GTGTCACTCCATAGAGTCAATAAACCATTGTCA
36203610 TGGTATCACT
Statistics
Matches: 53, Mismatches: 13, Indels: 10
0.70 0.17 0.13
Matches are distributed among these distances:
35 22 0.42
36 4 0.08
37 4 0.08
38 23 0.43
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (35 bp):
GTGTCACTCCATAGAGTCAATAAACCATTGTCACA
Found at i:36203619 original size:35 final size:35
Alignment explanation
Indices: 36203511--36203619 Score: 94
Period size: 35 Copynumber: 3.0 Consensus size: 35
36203501 ATGGTGTCAT
* * *
36203511 TCCATAGAGTTAATAGACCATTGTTACGGTATCAC
1 TCCATAGAGTCAATAAACCATTGTCACGGTATCAC
* * * * *
36203546 TCTAGT-GAGCCAGACTATAACCGTTGTCACAGTGTCAC
1 TCCA-TAGAGTCA-A-TA-AACCATTGTCACGGTATCAC
*
36203584 TCCATAGAGTCAATAAACCATTGTCATGGTATCAC
1 TCCATAGAGTCAATAAACCATTGTCACGGTATCAC
36203619 T
1 T
36203620 ATAGTGAGCC
Statistics
Matches: 55, Mismatches: 14, Indels: 10
0.70 0.18 0.13
Matches are distributed among these distances:
35 24 0.44
36 4 0.07
37 4 0.07
38 23 0.42
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.29
Consensus pattern (35 bp):
TCCATAGAGTCAATAAACCATTGTCACGGTATCAC
Found at i:36203639 original size:73 final size:73
Alignment explanation
Indices: 36203504--36203639 Score: 193
Period size: 73 Copynumber: 1.9 Consensus size: 73
36203494 TACAATCATG
* * * * * *
36203504 GTGTCATTCCATAGAGTTAATAGACCATTGTTACGGTATCACTCTAGTGAGCCAGACTATAACCG
1 GTGTCACTCCATAGAGTCAATAAACCATTGTCACGGTATCACTATAGTGAGCCAGACGATAACCG
36203569 TTGTCACA
66 TTGTCACA
*
36203577 GTGTCACTCCATAGAGTCAATAAACCATTGTCATGGTATCACTATAGTGAGCCA-ATCGATAAC
1 GTGTCACTCCATAGAGTCAATAAACCATTGTCACGGTATCACTATAGTGAGCCAGA-CGATAAC
36203640 TATCGTCACG
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
72 1 0.02
73 54 0.98
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (73 bp):
GTGTCACTCCATAGAGTCAATAAACCATTGTCACGGTATCACTATAGTGAGCCAGACGATAACCG
TTGTCACA
Found at i:36206335 original size:46 final size:46
Alignment explanation
Indices: 36206282--36206457 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
36206272 TATTTGGGCA
36206282 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
36206328 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
* **
36206375 TCGGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * *
36206421 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
36206458 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 64 0.59
47 32 0.30
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.20, G:0.31, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:36206437 original size:93 final size:93
Alignment explanation
Indices: 36206278--36206450 Score: 301
Period size: 93 Copynumber: 1.9 Consensus size: 93
36206268 GGGATATTTG
* *
36206278 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
36206343 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * *
36206371 GGCATCGGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
36206436 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
36206451 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.20, C:0.21, G:0.31, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:36208429 original size:27 final size:27
Alignment explanation
Indices: 36208387--36208440 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
36208377 ATTAACATCC
*
36208387 AATATACATGCGTGCAAGCAACTCATT
1 AATATACATGCATGCAAGCAACTCATT
*
36208414 AATATACATGTATGCAAGCAACTCATT
1 AATATACATGCATGCAAGCAACTCATT
36208441 CTTTTACATC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.39, C:0.20, G:0.13, T:0.28
Consensus pattern (27 bp):
AATATACATGCATGCAAGCAACTCATT
Found at i:36209490 original size:4 final size:4
Alignment explanation
Indices: 36209481--36209530 Score: 55
Period size: 4 Copynumber: 12.5 Consensus size: 4
36209471 ATCTACAATA
* * * * *
36209481 AGAG AGAG AGAT AGAG AGAG GGAG GGAG AGAG GGAG AGAG AGAA AGAG
1 AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG
36209529 AG
1 AG
36209531 GAATTTTTAT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
4 38 1.00
ACGTcount: A:0.46, C:0.00, G:0.52, T:0.02
Consensus pattern (4 bp):
AGAG
Found at i:36209496 original size:6 final size:6
Alignment explanation
Indices: 36209481--36209530 Score: 55
Period size: 6 Copynumber: 8.3 Consensus size: 6
36209471 ATCTACAATA
* * * * *
36209481 AGAGAG AGAGAT AGAGAG AGGGAG GGAGAG AGGGAG AGAGAG AAAGAG
1 AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG
36209529 AG
1 AG
36209531 GAATTTTTAT
Statistics
Matches: 34, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.46, C:0.00, G:0.52, T:0.02
Consensus pattern (6 bp):
AGAGAG
Found at i:36210876 original size:13 final size:13
Alignment explanation
Indices: 36210858--36210884 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
36210848 TTTTTAACAT
36210858 AATGATATATGAA
1 AATGATATATGAA
36210871 AATGATATATGAA
1 AATGATATATGAA
36210884 A
1 A
36210885 GTATATGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.15, T:0.30
Consensus pattern (13 bp):
AATGATATATGAA
Found at i:36214302 original size:31 final size:31
Alignment explanation
Indices: 36214267--36214328 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
36214257 GAATAAATGC
36214267 CATGTGCAAGGCCAATGCATATTGATATGTT
1 CATGTGCAAGGCCAATGCATATTGATATGTT
36214298 CATGTGCAAGGCCAATGCATATTGATATGTT
1 CATGTGCAAGGCCAATGCATATTGATATGTT
36214329 TTACTTCTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (31 bp):
CATGTGCAAGGCCAATGCATATTGATATGTT
Found at i:36215540 original size:21 final size:21
Alignment explanation
Indices: 36215499--36215541 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
36215489 GCACTCGATG
**
36215499 AAGATAAGAAGCAAACTTACA
1 AAGATAAGAAGCAAAAATACA
36215520 AAGATCAAGAA-CAAAAATACA
1 AAGAT-AAGAAGCAAAAATACA
36215541 A
1 A
36215542 TCATTTCACC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.63, C:0.14, G:0.12, T:0.12
Consensus pattern (21 bp):
AAGATAAGAAGCAAAAATACA
Found at i:36218088 original size:25 final size:26
Alignment explanation
Indices: 36218040--36218090 Score: 86
Period size: 25 Copynumber: 2.0 Consensus size: 26
36218030 AAAAAAATTT
*
36218040 AGACAACCCTAAAAACCAACGACTTC
1 AGACAACCCTAAAAACCAAAGACTTC
36218066 AGACAACCC-AAAAACCAAAGACTTC
1 AGACAACCCTAAAAACCAAAGACTTC
36218091 TTTTTGTTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 15 0.62
26 9 0.38
ACGTcount: A:0.49, C:0.33, G:0.08, T:0.10
Consensus pattern (26 bp):
AGACAACCCTAAAAACCAAAGACTTC
Found at i:36221470 original size:12 final size:12
Alignment explanation
Indices: 36221453--36221478 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
36221443 AATCGCCCAC
36221453 GTGCCAGGCCGT
1 GTGCCAGGCCGT
36221465 GTGCCAGGCCGT
1 GTGCCAGGCCGT
36221477 GT
1 GT
36221479 AACTGCCTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.31, G:0.42, T:0.19
Consensus pattern (12 bp):
GTGCCAGGCCGT
Found at i:36223843 original size:37 final size:36
Alignment explanation
Indices: 36223793--36223879 Score: 147
Period size: 37 Copynumber: 2.3 Consensus size: 36
36223783 TACGAAGTCT
36223793 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
36223829 GTACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 -TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
36223866 TCACCCGGAACATA
1 T-ACCCGG-ACATA
36223880 TTTCCAAGTT
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
36 1 0.02
37 42 0.88
38 5 0.10
ACGTcount: A:0.26, C:0.33, G:0.20, T:0.21
Consensus pattern (36 bp):
TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
Found at i:36224014 original size:49 final size:49
Alignment explanation
Indices: 36223948--36224247 Score: 537
Period size: 49 Copynumber: 6.1 Consensus size: 49
36223938 TTTACCACAT
36223948 ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
36223997 ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
36224046 ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
* *
36224095 ATATGTATACATTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
* * *
36224144 ATATGTATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
* *
36224193 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
36224242 ATATAT
1 ATATAT
36224248 TATTATGTAC
Statistics
Matches: 247, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 247 1.00
ACGTcount: A:0.29, C:0.27, G:0.10, T:0.34
Consensus pattern (49 bp):
ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
Found at i:36227138 original size:40 final size:40
Alignment explanation
Indices: 36227083--36227221 Score: 158
Period size: 40 Copynumber: 3.5 Consensus size: 40
36227073 TCGATTGTCC
* *
36227083 TCGGGACA-TAGCCCGG-TTATAGTGATTCGCACAATTGCCT
1 TCGGGA-ATTAGCCCGGATT-TAGTAATTCGCACAAATGCCT
*
36227123 TCGGGAATTAGCCCGGATTTAGTAACTCGCACAAATGCCT
1 TCGGGAATTAGCCCGGATTTAGTAATTCGCACAAATGCCT
* * *
36227163 TCGGGAATT-GACCCGGATTTAGTCACTTAGCACAAAAGCCT
1 TCGGGAATTAG-CCCGGATTTAGT-AATTCGCACAAATGCCT
*
36227204 TCGGGACTTAGCCCGGAT
1 TCGGGAATTAGCCCGGAT
36227222 ACCATTCGAA
Statistics
Matches: 86, Mismatches: 8, Indels: 9
0.83 0.08 0.09
Matches are distributed among these distances:
39 2 0.02
40 53 0.62
41 30 0.35
42 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.25
Consensus pattern (40 bp):
TCGGGAATTAGCCCGGATTTAGTAATTCGCACAAATGCCT
Found at i:36228316 original size:40 final size:40
Alignment explanation
Indices: 36227965--36228316 Score: 560
Period size: 40 Copynumber: 8.8 Consensus size: 40
36227955 CCAGCATGAT
* * * *
36227965 TGCTCTTCGGGACCTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCATTAGCACGAA
* *
36228005 TGCTCTTCAGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCATTAGCACGAA
* *
36228045 TGCTCCTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCATTAGCACGAA
36228085 TGCTCTTCGGAACTTAGTCCGGATACATCATTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCATTAGCACGAA
* *
36228125 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACCAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCATTAGCACGAA
*
36228165 TGCTCTTTGGAACTTAGTCCGGATACATCATTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCATTAGCACGAA
* *
36228205 TGCTCTTCGGAACTTAGTCCAGATACATCATTAGCATGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCATTAGCACGAA
*
36228245 TGCTCTTCGAAACTTAGTCCGGATACATCATTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCATTAGCACGAA
* *
36228285 TGCTCTTCGGAACTTAGTCCTGATACTTCATT
1 TGCTCTTCGGAACTTAGTCCGGATACATCATT
36228317 CTCAATTCTC
Statistics
Matches: 290, Mismatches: 22, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 290 1.00
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGTCCGGATACATCATTAGCACGAA
Found at i:36230247 original size:37 final size:37
Alignment explanation
Indices: 36230197--36230269 Score: 146
Period size: 37 Copynumber: 2.0 Consensus size: 37
36230187 TACGAAGTCT
36230197 TACCCGGACATAATCTCCACACGTAGTCATCGGGTCG
1 TACCCGGACATAATCTCCACACGTAGTCATCGGGTCG
36230234 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
36230270 TCACCCGAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.25, C:0.33, G:0.21, T:0.22
Consensus pattern (37 bp):
TACCCGGACATAATCTCCACACGTAGTCATCGGGTCG
Found at i:36230419 original size:49 final size:49
Alignment explanation
Indices: 36230352--36230797 Score: 759
Period size: 49 Copynumber: 9.1 Consensus size: 49
36230342 TTTACCACAT
*
36230352 ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* *
36230401 ATATATATACATTTTCACATTCATCACATCGACCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
36230450 ATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
36230499 ATATATATACACTTTCA-ATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
36230547 ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* *
36230596 ATATGTATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* * *
36230645 ATATGTATACATTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* * *
36230694 ATATGTATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAA
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
36230743 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
36230792 ATATAT
1 ATATAT
36230798 TATTATGTAC
Statistics
Matches: 382, Mismatches: 14, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
48 47 0.12
49 335 0.88
ACGTcount: A:0.30, C:0.27, G:0.09, T:0.34
Consensus pattern (49 bp):
ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
Found at i:36234450 original size:13 final size:13
Alignment explanation
Indices: 36234432--36234456 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36234422 ATTCATTTTG
36234432 AGGCACATGGCCA
1 AGGCACATGGCCA
36234445 AGGCACATGGCC
1 AGGCACATGGCC
36234457 GTGTGCTTAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.32, G:0.32, T:0.08
Consensus pattern (13 bp):
AGGCACATGGCCA
Found at i:36237150 original size:47 final size:48
Alignment explanation
Indices: 36237032--36237162 Score: 183
Period size: 47 Copynumber: 2.8 Consensus size: 48
36237022 GTGCGAATGA
* * *
36237032 TACCTTGATTTGGCTACGGGCCATGGTATAGGTATTTTAAAGAGGAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCTAAAGAGAAGT
* * *
36237080 TACCTTGATTTGGCTATGGGCCATGGTATAGGTACTCT-AGGATAAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCTAAAGAGAAGT
* *
36237127 TACCTTGATTTGGCTACGAGCCATGGTATAAGTACT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACT
36237163 TATCGATTGA
Statistics
Matches: 74, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
47 39 0.53
48 35 0.47
ACGTcount: A:0.24, C:0.15, G:0.27, T:0.34
Consensus pattern (48 bp):
TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCTAAAGAGAAGT
Found at i:36238909 original size:137 final size:137
Alignment explanation
Indices: 36238663--36238914 Score: 387
Period size: 137 Copynumber: 1.8 Consensus size: 137
36238653 AAGCCACAAA
* * *
36238663 TGGGTCTGCTTACACAAGCTGATGGTCAGAATGTAGCTACACGATGCCGCTCACACAAGCTGACG
1 TGGGTCTGCTCACACAAGCTAACGGTCAGAATGTAGCTACACGATGCCGCTCACACAAGCTGACG
*
36238728 AGTATCCACAACAAATGTCGGAACTCAGCCATCAATAGGACATTCAGGACCAGTACCCTGAACAT
66 AGTATCCACAACAAATGTCGGAACTCACCCATCAATAGGACATTCAGGACCAGTACCCTGAACAT
36238793 GGTAACT
131 GGTAACT
* * *
36238800 TGGGTCTGCTCACACAAGCTAACGGTCAGAATGTAGCTACATGATGCTGCTCATACAAGCTGACG
1 TGGGTCTGCTCACACAAGCTAACGGTCAGAATGTAGCTACACGATGCCGCTCACACAAGCTGACG
** * * * *
36238865 AGTATCCGTAACAAATGTTGGAACTTACCCTTCAGTAGGACATTCAGGAC
66 AGTATCCACAACAAATGTCGGAACTCACCCATCAATAGGACATTCAGGAC
36238915 TAACACCCGA
Statistics
Matches: 102, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
137 102 1.00
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (137 bp):
TGGGTCTGCTCACACAAGCTAACGGTCAGAATGTAGCTACACGATGCCGCTCACACAAGCTGACG
AGTATCCACAACAAATGTCGGAACTCACCCATCAATAGGACATTCAGGACCAGTACCCTGAACAT
GGTAACT
Found at i:36240640 original size:29 final size:29
Alignment explanation
Indices: 36240569--36240641 Score: 76
Period size: 29 Copynumber: 2.5 Consensus size: 29
36240559 ATACTCGATT
* *
36240569 TCGCACACTTAGTGCCATGCGATTTAGGC
1 TCGCACACTTAGTGCCATGCCATTGAGGC
* ** *
36240598 CCGCACACACAGTGCCATGCCCTTCGA-GC
1 TCGCACACTTAGTGCCATGCCATT-GAGGC
36240627 TCGCACACTTAGTGC
1 TCGCACACTTAGTGC
36240642 ATATATTTCC
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
29 33 0.97
30 1 0.03
ACGTcount: A:0.21, C:0.36, G:0.22, T:0.22
Consensus pattern (29 bp):
TCGCACACTTAGTGCCATGCCATTGAGGC
Found at i:36240682 original size:29 final size:29
Alignment explanation
Indices: 36240628--36240700 Score: 130
Period size: 29 Copynumber: 2.6 Consensus size: 29
36240618 CCTTCGAGCT
36240628 CGCACACTTAGTG-CATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
36240656 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
36240685 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
36240701 ATCTCGTCAC
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
28 12 0.29
29 30 0.71
ACGTcount: A:0.27, C:0.30, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:36246112 original size:39 final size:40
Alignment explanation
Indices: 36246014--36246178 Score: 244
Period size: 40 Copynumber: 4.2 Consensus size: 40
36246004 CGACTAAGAT
* *
36246014 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
*
36246054 CCGAAGGCATTTGTACGAGTTACTATATCCGGGCTAAGT-
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
*
36246093 CTGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
* ** *
36246133 CCGAAGGCATTTGTGTGAGTTGTTATATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
36246172 CCGAAGG
1 CCGAAGG
36246179 TACTTGGGTT
Statistics
Matches: 114, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 52 0.46
40 62 0.54
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
Found at i:36246153 original size:79 final size:79
Alignment explanation
Indices: 36246007--36246178 Score: 249
Period size: 79 Copynumber: 2.2 Consensus size: 79
36245997 TGATAACCGA
*
36246007 CTAAGATCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTACGA
1 CTAAGATCCGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTACGA
36246072 GTTACTATATCCGGG
66 GTTACTATATCC-GG
* * **
36246087 CTAAG-TCTGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGTGA
1 CTAAGATCCGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTACGA
**
36246151 GTTGTTATATCCGG
66 GTTACTATATCCGG
36246165 CTAA-ATCCCGAAGG
1 CTAAGAT-CCGAAGG
36246179 TACTTGGGTT
Statistics
Matches: 82, Mismatches: 8, Indels: 5
0.86 0.08 0.05
Matches are distributed among these distances:
78 7 0.09
79 70 0.85
80 5 0.06
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.28
Consensus pattern (79 bp):
CTAAGATCCGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTACGA
GTTACTATATCCGG
Found at i:36254156 original size:17 final size:16
Alignment explanation
Indices: 36254125--36254158 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
36254115 AAATATTATG
36254125 AAATAAAAACAAACAA
1 AAATAAAAACAAACAA
*
36254141 AAATAAACATCAAACAA
1 AAATAAA-AACAAACAA
36254158 A
1 A
36254159 TGCCATCCTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.76, C:0.15, G:0.00, T:0.09
Consensus pattern (16 bp):
AAATAAAAACAAACAA
Found at i:36255886 original size:14 final size:14
Alignment explanation
Indices: 36255869--36255900 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
36255859 TAAAAAAAAA
36255869 TTTTTAAAAATTAT
1 TTTTTAAAAATTAT
*
36255883 TTTTTAGAAATTAT
1 TTTTTAAAAATTAT
36255897 TTTT
1 TTTT
36255901 AATTAAACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (14 bp):
TTTTTAAAAATTAT
Found at i:36257655 original size:9 final size:9
Alignment explanation
Indices: 36257587--36257655 Score: 50
Period size: 9 Copynumber: 7.4 Consensus size: 9
36257577 TGAACATAAT
36257587 ATTATAAAA
1 ATTATAAAA
*
36257596 ATTATTAAGA
1 ATTA-TAAAA
36257606 A-TAGTAAAA
1 ATTA-TAAAA
*
36257615 AATATAAAA
1 ATTATAAAA
* * *
36257624 TTTTTAAAG
1 ATTATAAAA
*
36257633 ATTCTAATAA
1 ATTATAA-AA
36257643 ATTATAAAA
1 ATTATAAAA
36257652 ATTA
1 ATTA
36257656 ATAATTATTG
Statistics
Matches: 46, Mismatches: 11, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
9 32 0.70
10 14 0.30
ACGTcount: A:0.58, C:0.01, G:0.04, T:0.36
Consensus pattern (9 bp):
ATTATAAAA
Found at i:36270995 original size:43 final size:44
Alignment explanation
Indices: 36270947--36271094 Score: 167
Period size: 43 Copynumber: 3.4 Consensus size: 44
36270937 TGCCGAGATG
* * * *
36270947 TGATTACATGGAAGACCATGTCTGGGACATTGGAATTGTAT-TA
1 TGATTACATGTAAGACCATGTCTAGGACATTGGCATCGTATATA
** * *
36270990 TGATTATGTGTAAAACTATGTCTAGGACATTGGCATCGT-TATA
1 TGATTACATGTAAGACCATGTCTAGGACATTGGCATCGTATATA
* * *
36271033 TGATTTCATGTAAGACCATCTCTAGGACATTGGCATCG-ATATG
1 TGATTACATGTAAGACCATGTCTAGGACATTGGCATCGTATATA
*
36271076 TGATAACATGTAAGACCAT
1 TGATTACATGTAAGACCAT
36271095 ATCTGGGATA
Statistics
Matches: 86, Mismatches: 17, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
42 1 0.01
43 85 0.99
ACGTcount: A:0.31, C:0.14, G:0.22, T:0.33
Consensus pattern (44 bp):
TGATTACATGTAAGACCATGTCTAGGACATTGGCATCGTATATA
Found at i:36281369 original size:136 final size:136
Alignment explanation
Indices: 36281125--36281398 Score: 521
Period size: 136 Copynumber: 2.0 Consensus size: 136
36281115 ATCAGATTAG
36281125 TCACAAATTTTAGCCTATAAATAGGGCTTTTAGCAATCCTAGAGAAATAGATTCAACAACATAAT
1 TCACAAATTTTAGCCTATAAATAGGGCTTTTAGCAATCCTAGAGAAATAGATTCAACAACATAAT
*
36281190 TAAGAGAGAATTTGTGAGAATTTCGAGAGAACTTTGTATTTTTGGGTTTAGTTTGTGTGTTTATC
66 TAAGAGAGAATTTGTGAGAATTTCGACAGAACTTTGTATTTTTGGGTTTAGTTTGTGTGTTTATC
36281255 TTATAC
131 TTATAC
36281261 TCACAAATTTTAGCCTATAAATAGGGCTTTTAGCAATCCTAGAGAAATAGATTCAACAACATAAT
1 TCACAAATTTTAGCCTATAAATAGGGCTTTTAGCAATCCTAGAGAAATAGATTCAACAACATAAT
* *
36281326 TAAGAGAGAATTTGTGAGAATTTCGACAGAACTTTGTATTTTTGGGTTTTGTTTGTTTGTTTATC
66 TAAGAGAGAATTTGTGAGAATTTCGACAGAACTTTGTATTTTTGGGTTTAGTTTGTGTGTTTATC
36281391 TTATAC
131 TTATAC
36281397 TC
1 TC
36281399 TTCTTTTGGT
Statistics
Matches: 135, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
136 135 1.00
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.38
Consensus pattern (136 bp):
TCACAAATTTTAGCCTATAAATAGGGCTTTTAGCAATCCTAGAGAAATAGATTCAACAACATAAT
TAAGAGAGAATTTGTGAGAATTTCGACAGAACTTTGTATTTTTGGGTTTAGTTTGTGTGTTTATC
TTATAC
Found at i:36283735 original size:7 final size:7
Alignment explanation
Indices: 36283723--36283749 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
36283713 TGATTACAAA
36283723 AAAAAAT
1 AAAAAAT
36283730 AAAAAAT
1 AAAAAAT
36283737 AAAAAAT
1 AAAAAAT
36283744 AAAAAA
1 AAAAAA
36283750 AATGAGGTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (7 bp):
AAAAAAT
Found at i:36284597 original size:34 final size:35
Alignment explanation
Indices: 36284536--36284603 Score: 104
Period size: 35 Copynumber: 2.0 Consensus size: 35
36284526 AAATTACATG
*
36284536 TTATTTTTTAAATTTTAATTCATAAAATATTTAAT
1 TTATTTTTTAAATTTTAACTCATAAAATATTTAAT
36284571 TTATTTTTTAAATTTTAAACT-A-AAAATATTTAA
1 TTATTTTTTAAATTTT-AACTCATAAAATATTTAA
36284604 AATTCAAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
34 11 0.35
35 17 0.55
36 3 0.10
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (35 bp):
TTATTTTTTAAATTTTAACTCATAAAATATTTAAT
Found at i:36284794 original size:2 final size:2
Alignment explanation
Indices: 36284789--36284828 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
36284779 TTTTAGAATT
* *
36284789 TA TA TA CA TA -A TT 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 TA TA TA TA T
36284829 GTAATTTTCT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:36285574 original size:2 final size:2
Alignment explanation
Indices: 36285567--36285591 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
36285557 TCAAAATACA
36285567 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
36285592 AGAGTTCAAG
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:36286826 original size:24 final size:25
Alignment explanation
Indices: 36286784--36286835 Score: 63
Period size: 24 Copynumber: 2.1 Consensus size: 25
36286774 AGTTTTGACC
* *
36286784 TTTGACTATTGGGTAAATTTTA-AA
1 TTTGAATATTGGGTAAATTATATAA
36286808 TTTGAATATT-GGTATAATTATATAA
1 TTTGAATATTGGGTA-AATTATATAA
36286833 TTT
1 TTT
36286836 TTAAAATAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 4 0.17
24 15 0.62
25 5 0.21
ACGTcount: A:0.35, C:0.02, G:0.13, T:0.50
Consensus pattern (25 bp):
TTTGAATATTGGGTAAATTATATAA
Found at i:36287236 original size:24 final size:24
Alignment explanation
Indices: 36287204--36287253 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
36287194 TTTTGGAGTA
36287204 AATTTAAAATATTTTAAAACAAAT
1 AATTTAAAATATTTTAAAACAAAT
36287228 AATTTAAAATATTTTAAAACAAAT
1 AATTTAAAATATTTTAAAACAAAT
36287252 AA
1 AA
36287254 ATTCATATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (24 bp):
AATTTAAAATATTTTAAAACAAAT
Found at i:36290054 original size:29 final size:29
Alignment explanation
Indices: 36290021--36290094 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
36290011 GTGACGAGAT
36290021 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
36290050 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
36290079 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
36290095 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:36290110 original size:29 final size:28
Alignment explanation
Indices: 36290078--36290152 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 28
36290068 CTGGAAATAT
* *
36290078 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCT-AAAGCGC
** * *
36290107 ATGGCACTGTGTGTGCGGGCTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTAAAGCGC
36290135 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
36290153 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
28 19 0.51
29 18 0.49
ACGTcount: A:0.23, C:0.20, G:0.36, T:0.21
Consensus pattern (28 bp):
ATGGCACTAAGTGTGCGAGCTAAAGCGC
Found at i:36290121 original size:58 final size:57
Alignment explanation
Indices: 36290021--36290152 Score: 131
Period size: 58 Copynumber: 2.3 Consensus size: 57
36290011 GTGACGAGAT
* * * * * *
36290021 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT--AAATCACA
* * ** * *
36290079 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTAAATCACA
36290136 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
36290153 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
56 4 0.07
57 18 0.30
58 39 0.64
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.24
Consensus pattern (57 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTAAATCACA
Found at i:36303618 original size:29 final size:29
Alignment explanation
Indices: 36303528--36303686 Score: 171
Period size: 29 Copynumber: 5.5 Consensus size: 29
36303518 ACTCGATTTC
* * **
36303528 GCACACTTAGTGCCATGTGATTT-AAGCCC
1 GCACACTTAGTGCCATAT-ATTTCCAGCAT
* *** *
36303557 GCACACATAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
** *
36303585 CGCACACCCAGTGCCGTATATTTCCAGCAT
1 -GCACACTTAGTGCCATATATTTCCAGCAT
36303615 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
36303644 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
36303673 GCAC-CTTAGTGCCA
1 GCACACTTAGTGCCA
36303687 ATCTCGTCAC
Statistics
Matches: 110, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
28 12 0.11
29 97 0.88
30 1 0.01
ACGTcount: A:0.25, C:0.31, G:0.17, T:0.26
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:36306031 original size:40 final size:40
Alignment explanation
Indices: 36305983--36306188 Score: 326
Period size: 40 Copynumber: 5.2 Consensus size: 40
36305973 GGACTAAGAT
36305983 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
* *
36306023 CCGAAGGCATTTGTGCTAGTTACTATAACCGGACTAAGAT-
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAG-TC
*
36306063 CCGAAGGCATTTGTGCTAGTTACTATATCTGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
36306103 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
* * * *
36306143 CCGAAGGCATTTGTGCGAGTTGCTATAT-CTGGCTAAATC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
36306182 CCGAAGG
1 CCGAAGG
36306189 TACTTGGGTT
Statistics
Matches: 154, Mismatches: 10, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
39 17 0.11
40 136 0.88
41 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.29
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
Found at i:36306101 original size:80 final size:80
Alignment explanation
Indices: 36305968--36306188 Score: 365
Period size: 80 Copynumber: 2.8 Consensus size: 80
36305958 ATTCGGATGG
*
36305968 TAACCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTCCCGAAGGCAT
1 TAACCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACTATATCTGGGCTAAGTCCCGAAGGCAT
36306033 TTGTGCTAGTTACTA
66 TTGTGCTAGTTACTA
36306048 TAACCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACTATATCTGGGCTAAGTCCCGAAGGCAT
1 TAACCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACTATATCTGGGCTAAGTCCCGAAGGCAT
36306113 TTGTGCTAGTTACTA
66 TTGTGCTAGTTACTA
* * * * *
36306128 TATCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTGCTATATCT-GGCTAAATCCCGAAGG
1 TAACCGGACTAAGAT-CCGAAGGCATTTGTGCTAGTTACTATATCTGGGCTAAGTCCCGAAGG
36306189 TACTTGGGTT
Statistics
Matches: 134, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
79 16 0.12
80 118 0.88
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (80 bp):
TAACCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACTATATCTGGGCTAAGTCCCGAAGGCAT
TTGTGCTAGTTACTA
Found at i:36312687 original size:13 final size:13
Alignment explanation
Indices: 36312669--36312696 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
36312659 ACATATTATA
36312669 AATATTTTGTGTT
1 AATATTTTGTGTT
36312682 AATATTTTGTGTT
1 AATATTTTGTGTT
36312695 AA
1 AA
36312697 AAATAATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.14, T:0.57
Consensus pattern (13 bp):
AATATTTTGTGTT
Found at i:36314162 original size:40 final size:40
Alignment explanation
Indices: 36314114--36314319 Score: 344
Period size: 40 Copynumber: 5.2 Consensus size: 40
36314104 GGACTAAGAT
36314114 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
* *
36314154 CCGAAGGCATTTGTGCTAGTTACTATAACCGGACTAAGAT-
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAG-TC
36314194 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
36314234 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
* * *
36314274 CCGAAGGCATTTGTGCGAGTTGCTATATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
36314313 CCGAAGG
1 CCGAAGG
36314320 TACTTGGGTT
Statistics
Matches: 157, Mismatches: 7, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
39 16 0.10
40 140 0.89
41 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.28
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
Found at i:36319368 original size:43 final size:43
Alignment explanation
Indices: 36319206--36319372 Score: 162
Period size: 43 Copynumber: 3.9 Consensus size: 43
36319196 AGCTCGTACA
* ** * *
36319206 ATGCC-ATGTCCCAGATATGGTCTTACATGTTATCATAT-ATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACATAATCACATAAT-G
* * * *
36319248 ATGCCAATAG-CCCA-ACTATGGTCTTACAGAAAATCAAATAACG
1 ATGCCAAT-GTCCCAGAC-ATGGTCTTACACATAATCACATAATG
** *
36319291 ATGCCAATGTCCCAGACACAGTCTTACACGTAATCACATAATG
1 ATGCCAATGTCCCAGACATGGTCTTACACATAATCACATAATG
*
36319334 ATGCCAATGTCCTAGACATGGTCTTACACATAATCACAT
1 ATGCCAATGTCCCAGACATGGTCTTACACATAATCACAT
36319373 CTTGATAATC
Statistics
Matches: 101, Mismatches: 18, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
42 7 0.07
43 90 0.89
44 4 0.04
ACGTcount: A:0.34, C:0.25, G:0.14, T:0.27
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACATAATCACATAATG
Found at i:36319369 original size:86 final size:85
Alignment explanation
Indices: 36319206--36319369 Score: 190
Period size: 86 Copynumber: 1.9 Consensus size: 85
36319196 AGCTCGTACA
* ** * * *
36319206 ATGCCATGTCCCAGATATGGTCTTACATGTTATCATATATCGATGCCAATAGCCCAACTATGGTC
1 ATGCCATGTCCCAGACACAGTCTTACACGTAATCACATATCGATGCCAATAGCCCAACTATGGTC
*
36319271 TTACAGAAAATCAAATAACG
66 TTACACAAAATCAAATAACG
*
36319291 ATGCCAATGTCCCAGACACAGTCTTACACGTAATCACATAAT-GATGCCAAT-GTCCTAGAC-AT
1 ATGCC-ATGTCCCAGACACAGTCTTACACGTAATCACAT-ATCGATGCCAATAG-CCCA-ACTAT
*
36319353 GGTCTTACACATAATCA
62 GGTCTTACACAAAATCA
36319370 CATCTTGATA
Statistics
Matches: 66, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
85 6 0.09
86 56 0.85
87 4 0.06
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.27
Consensus pattern (85 bp):
ATGCCATGTCCCAGACACAGTCTTACACGTAATCACATATCGATGCCAATAGCCCAACTATGGTC
TTACACAAAATCAAATAACG
Found at i:36321870 original size:21 final size:21
Alignment explanation
Indices: 36321846--36321900 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
36321836 GTTGGGGTCT
*
36321846 ACACGCTCA-TGTGGAGCCCAC
1 ACACGC-CAGTGTGAAGCCCAC
*
36321867 ACACGCCAGTGTGAAGGCCAC
1 ACACGCCAGTGTGAAGCCCAC
* *
36321888 ACATGCCCGTGTG
1 ACACGCCAGTGTG
36321901 GAGAGGCACA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 2 0.07
21 27 0.93
ACGTcount: A:0.24, C:0.35, G:0.27, T:0.15
Consensus pattern (21 bp):
ACACGCCAGTGTGAAGCCCAC
Found at i:36324184 original size:28 final size:28
Alignment explanation
Indices: 36324129--36324184 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
36324119 TAAGGTAAAG
*
36324129 CTAAGACCTCATTTAATCAATGGATGAT
1 CTAAGACCTCATTTAATCAATAGATGAT
* *
36324157 CTAAGACCTCATTTAATCGATAGTTGAT
1 CTAAGACCTCATTTAATCAATAGATGAT
36324185 TCAACCTTCT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.34
Consensus pattern (28 bp):
CTAAGACCTCATTTAATCAATAGATGAT
Found at i:36332435 original size:30 final size:30
Alignment explanation
Indices: 36332401--36332561 Score: 204
Period size: 30 Copynumber: 5.5 Consensus size: 30
36332391 ATAGTGAATC
36332401 CGCACACTTAGTGCTATAAAATTTTCAGCT
1 CGCACACTTAGTGCTATAAAATTTTCAGCT
36332431 CGCACACTTAGTGCTATAAAATTTTCAGCT
1 CGCACACTTAGTGCTATAAAATTTTCAGCT
*
36332461 CGCACACTTAGTGCTAT-ATATTTTCAGCT
1 CGCACACTTAGTGCTATAAAATTTTCAGCT
* * *
36332490 CGCACACTTAGTGCTGTATAA---TCAAACT
1 CGCACACTTAGTGCTATAAAATTTTC-AGCT
* * * * *
36332518 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATAAAATTTTCAGCT
36332548 CGCACACTTAGTGC
1 CGCACACTTAGTGC
36332562 CAATCTTGTC
Statistics
Matches: 118, Mismatches: 8, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
27 2 0.02
28 23 0.19
29 27 0.23
30 65 0.55
31 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (30 bp):
CGCACACTTAGTGCTATAAAATTTTCAGCT
Found at i:36332528 original size:28 final size:28
Alignment explanation
Indices: 36332459--36332561 Score: 109
Period size: 28 Copynumber: 3.6 Consensus size: 28
36332449 AAATTTTCAG
* * *
36332459 CTCGCACACTTAGTGCTATATATTTTC-AG
1 CTCGCACACTTAGTGCTGTATA--ATCAAA
36332488 CTCGCACACTTAGTGCTGTATAATCAAA
1 CTCGCACACTTAGTGCTGTATAATCAAA
* *
36332516 CTCGCACACTTAGTGCTGTACAATTTTAAA
1 CTCGCACACTTAGTGCTGTATAA--TCAAA
*
36332546 CCCGCACACTTAGTGC
1 CTCGCACACTTAGTGC
36332562 CAATCTTGTC
Statistics
Matches: 65, Mismatches: 6, Indels: 5
0.86 0.08 0.07
Matches are distributed among these distances:
27 2 0.03
28 23 0.35
29 21 0.32
30 19 0.29
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (28 bp):
CTCGCACACTTAGTGCTGTATAATCAAA
Found at i:36335013 original size:24 final size:23
Alignment explanation
Indices: 36334977--36335023 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
36334967 GAGTTCAAGT
*
36334977 GAGCCATGTCAGGAAGCTCATGA
1 GAGCCATATCAGGAAGCTCATGA
*
36335000 GAGCCTATATCAGGACGCTCATGA
1 GAGCC-ATATCAGGAAGCTCATGA
36335024 ATAGATGCGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 5 0.24
24 16 0.76
ACGTcount: A:0.30, C:0.23, G:0.28, T:0.19
Consensus pattern (23 bp):
GAGCCATATCAGGAAGCTCATGA
Found at i:36337032 original size:20 final size:20
Alignment explanation
Indices: 36337009--36337046 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
36336999 TGAATACAGA
*
36337009 GGCACCAAAGTGTAAACATG
1 GGCACCAAAGTGCAAACATG
*
36337029 GGCACCAATGTGCAAACA
1 GGCACCAAAGTGCAAACA
36337047 AGATAATTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.24, G:0.24, T:0.13
Consensus pattern (20 bp):
GGCACCAAAGTGCAAACATG
Found at i:36339906 original size:20 final size:20
Alignment explanation
Indices: 36339881--36339922 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
36339871 TCTACTTCCT
*
36339881 TTGTTTGTTGTTTGTTGCAA
1 TTGTTTGTTGTTTGCTGCAA
36339901 TTGTTTGTTGTTTGCTGCAA
1 TTGTTTGTTGTTTGCTGCAA
36339921 TT
1 TT
36339923 CTACTAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.10, C:0.07, G:0.24, T:0.60
Consensus pattern (20 bp):
TTGTTTGTTGTTTGCTGCAA
Found at i:36342894 original size:13 final size:13
Alignment explanation
Indices: 36342876--36342939 Score: 74
Period size: 13 Copynumber: 4.9 Consensus size: 13
36342866 AGTTTGGCAA
*
36342876 TGCTTTTAAAAAG
1 TGCTTTTGAAAAG
*
36342889 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
* *
36342902 TGCTGTGGAAAAG
1 TGCTTTTGAAAAG
* *
36342915 TGTTTTTGAGAAG
1 TGCTTTTGAAAAG
36342928 TGCTTTTGAAAA
1 TGCTTTTGAAAA
36342940 ATTTGGTTTA
Statistics
Matches: 40, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
13 40 1.00
ACGTcount: A:0.30, C:0.06, G:0.27, T:0.38
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:36342905 original size:26 final size:26
Alignment explanation
Indices: 36342876--36342940 Score: 85
Period size: 26 Copynumber: 2.5 Consensus size: 26
36342866 AGTTTGGCAA
36342876 TGCTTTTAAAAAGTGCTTTTGAGAAG
1 TGCTTTTAAAAAGTGCTTTTGAGAAG
* ** *
36342902 TGCTGTGGAAAAGTGTTTTTGAGAAG
1 TGCTTTTAAAAAGTGCTTTTGAGAAG
36342928 TGCTTTTGAAAAA
1 TGCTTTT-AAAAA
36342941 TTTGGTTTAA
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
26 27 0.87
27 4 0.13
ACGTcount: A:0.31, C:0.06, G:0.26, T:0.37
Consensus pattern (26 bp):
TGCTTTTAAAAAGTGCTTTTGAGAAG
Found at i:36344748 original size:21 final size:20
Alignment explanation
Indices: 36344695--36344740 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 20
36344685 TATGTCTTGA
36344695 ATTTGTTAGATATTAAATTT
1 ATTTGTTAGATATTAAATTT
*
36344715 ATTATGTTAGATATTGAATTT
1 ATT-TGTTAGATATTAAATTT
36344736 ATTTG
1 ATTTG
36344741 GTTGGATAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 5 0.21
21 19 0.79
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.54
Consensus pattern (20 bp):
ATTTGTTAGATATTAAATTT
Found at i:36346050 original size:29 final size:30
Alignment explanation
Indices: 36346002--36346072 Score: 103
Period size: 29 Copynumber: 2.5 Consensus size: 30
36345992 AGATCATTGC
*
36346002 AATATATGT--AAAAACAATTTAAAGTATA
1 AATATATGTAAAAAAACAATTTAAAATATA
*
36346030 AATTTAT-TAAAAAAACAATTTAAAATATA
1 AATATATGTAAAAAAACAATTTAAAATATA
36346059 AATATATGTAAAAA
1 AATATATGTAAAAA
36346073 CAGCTTTTCT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
27 1 0.03
28 6 0.16
29 24 0.65
30 6 0.16
ACGTcount: A:0.61, C:0.03, G:0.04, T:0.32
Consensus pattern (30 bp):
AATATATGTAAAAAAACAATTTAAAATATA
Found at i:36346191 original size:19 final size:19
Alignment explanation
Indices: 36346146--36346183 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
36346136 CATCCAAACA
36346146 CCAGAAAAGTAAAACATTT
1 CCAGAAAAGTAAAACATTT
* *
36346165 CTAGAAAAGTAAATCATTT
1 CCAGAAAAGTAAAACATTT
36346184 TCCAAAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.50, C:0.13, G:0.11, T:0.26
Consensus pattern (19 bp):
CCAGAAAAGTAAAACATTT
Found at i:36346613 original size:10 final size:10
Alignment explanation
Indices: 36346598--36346728 Score: 68
Period size: 10 Copynumber: 13.8 Consensus size: 10
36346588 TTAAATTTTT
36346598 AAAATTATTA
1 AAAATTATTA
36346608 AAAATTA-TA
1 AAAATTATTA
*
36346617 AAAA-TATTTT
1 AAAATTA-TTA
*
36346627 AAAA-TATTT
1 AAAATTATTA
36346636 AAAATT-TGTA
1 AAAATTAT-TA
*
36346646 AAAAATATTTA
1 AAAATTA-TTA
36346657 AAAA-T-TT-
1 AAAATTATTA
*
36346664 AAAATT-TGTG
1 AAAATTAT-TA
*
36346674 AAAATCATTA
1 AAAATTATTA
36346684 AAAATTA-T-
1 AAAATTATTA
*
36346692 AAAATGATT-
1 AAAATTATTA
* *
36346701 AAAATTGTAA
1 AAAATTATTA
*
36346711 AAAATTATTT
1 AAAATTATTA
36346721 AAAATTAT
1 AAAATTAT
36346729 AATAATTTTA
Statistics
Matches: 96, Mismatches: 13, Indels: 24
0.72 0.10 0.18
Matches are distributed among these distances:
7 4 0.04
8 12 0.12
9 23 0.24
10 49 0.51
11 7 0.07
12 1 0.01
ACGTcount: A:0.56, C:0.01, G:0.04, T:0.39
Consensus pattern (10 bp):
AAAATTATTA
Found at i:36346620 original size:38 final size:36
Alignment explanation
Indices: 36346577--36346737 Score: 112
Period size: 37 Copynumber: 4.3 Consensus size: 36
36346567 AAAATACTTG
36346577 TAAAAACTTGTTTAAATTTTTAAAATTATTAAAAATTA
1 TAAAAA-TT-TTTAAATTTTTAAAATTATTAAAAATTA
* *
36346615 TAAAAATATTTTAAAATATTTAAAATT-TGTAAAAAATATT
1 TAAAAAT-TTTT-AAATTTTTAAAATTAT-T-AAAAAT-TA
* * *
36346655 TAAAAA-TTTAAAATTTGTGAAAATCATTAAAAATTA
1 TAAAAATTTTTAAATTT-TTAAAATTATTAAAAATTA
* * ** *
36346691 T-AAAATGATTAAAATTGTAAAAAATTATTTAAAATTA
1 TAAAAAT-TTTTAAATT-TTTAAAATTATTAAAAATTA
*
36346728 TAATAATTTT
1 TAAAAATTTT
36346738 AATCTTTTTT
Statistics
Matches: 98, Mismatches: 14, Indels: 23
0.73 0.10 0.17
Matches are distributed among these distances:
35 4 0.04
36 2 0.02
37 42 0.43
38 36 0.37
39 7 0.07
40 7 0.07
ACGTcount: A:0.53, C:0.01, G:0.04, T:0.42
Consensus pattern (36 bp):
TAAAAATTTTTAAATTTTTAAAATTATTAAAAATTA
Found at i:36346621 original size:28 final size:27
Alignment explanation
Indices: 36346590--36346737 Score: 84
Period size: 29 Copynumber: 5.3 Consensus size: 27
36346580 AAACTTGTTT
36346590 AAATTTTTAAAATTATTAAAAATTATAA
1 AAATTTTTAAAA-TATTAAAAATTATAA
* *
36346618 AAATATTTTAAAATATTTAAAATTTGTAAA
1 AAAT-TTTTAAAATA-TTAAAAATTAT-AA
* * * *
36346648 AAATATTTAAAA-ATTTAAAATTTGTGA
1 AAATTTTTAAAATA-TTAAAAATTATAA
** * *
36346675 AAATCATTAAAA-ATTATAAAATGATTA
1 AAATTTTTAAAATATTA-AAAATTATAA
** *
36346702 AAATTGTAAAAAATTATTTAAAATTATAA
1 AAATT-TTTAAAA-TATTAAAAATTATAA
*
36346731 TAATTTT
1 AAATTTT
36346738 AATCTTTTTT
Statistics
Matches: 94, Mismatches: 19, Indels: 14
0.74 0.15 0.11
Matches are distributed among these distances:
26 3 0.03
27 22 0.23
28 24 0.26
29 36 0.38
30 9 0.10
ACGTcount: A:0.55, C:0.01, G:0.03, T:0.41
Consensus pattern (27 bp):
AAATTTTTAAAATATTAAAAATTATAA
Found at i:36346626 original size:29 final size:31
Alignment explanation
Indices: 36346590--36346662 Score: 91
Period size: 29 Copynumber: 2.5 Consensus size: 31
36346580 AAACTTGTTT
36346590 AAAT-TTTTAAAATTA-TTAAAAATTAT-AA
1 AAATATTTTAAAATTATTTAAAAATTATAAA
* *
36346618 AAATATTTTAAAA-TATTTAAAATTTGTAAA
1 AAATATTTTAAAATTATTTAAAAATTATAAA
*
36346648 AAATATTTAAAAATT
1 AAATATTTTAAAATT
36346663 TAAAATTTGT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
28 6 0.16
29 17 0.45
30 14 0.37
31 1 0.03
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.42
Consensus pattern (31 bp):
AAATATTTTAAAATTATTTAAAAATTATAAA
Found at i:36346629 original size:37 final size:37
Alignment explanation
Indices: 36346590--36346739 Score: 130
Period size: 38 Copynumber: 4.0 Consensus size: 37
36346580 AAACTTGTTT
36346590 AAATTTTTAAAATTATTAAAAATTATAAAAATATTTTA
1 AAATTTTTAAAATTATTAAAAATTATAAAAATA-TTTA
* * *
36346628 AAATATTTAAAATT-TGTAAAAAATATTTAAAA-ATTTA
1 AAATTTTTAAAATTAT-TAAAAATTA-TAAAAATATTTA
* *
36346665 AAATTTGTGAAAATCATTAAAAATTAT-AAAATGA-TTA
1 AAATTT-TTAAAATTATTAAAAATTATAAAAAT-ATTTA
** * *
36346702 AAATTGTAAAAAATTATTTAAAATTATAATAAT-TTTA
1 AAATT-TTTAAAATTATTAAAAATTATAAAAATATTTA
36346739 A
1 A
36346740 TCTTTTTTTT
Statistics
Matches: 91, Mismatches: 12, Indels: 19
0.75 0.10 0.16
Matches are distributed among these distances:
36 4 0.04
37 39 0.43
38 42 0.46
39 6 0.07
ACGTcount: A:0.55, C:0.01, G:0.03, T:0.41
Consensus pattern (37 bp):
AAATTTTTAAAATTATTAAAAATTATAAAAATATTTA
Found at i:36347338 original size:10 final size:10
Alignment explanation
Indices: 36347325--36347426 Score: 84
Period size: 10 Copynumber: 9.9 Consensus size: 10
36347315 TTCTTTTTAT
36347325 TTTTTATAAA
1 TTTTTATAAA
36347335 TTTTTAT-AA
1 TTTTTATAAA
36347344 TTTTTAATAAA
1 TTTTT-ATAAA
36347355 TTTTTA-AAA
1 TTTTTATAAA
*
36347364 TTTTTAAATAA
1 TTTTTATA-AA
*
36347375 TTCTTTTTACAA
1 TT-TTTATA-AA
36347387 TTTTT-TAAAA
1 TTTTTAT-AAA
* *
36347397 TTTTTACAAG
1 TTTTTATAAA
*
36347407 TTTTTGTAACA
1 TTTTTATAA-A
36347418 TTTTTATAA
1 TTTTTATAA
36347427 TACTATTATT
Statistics
Matches: 75, Mismatches: 9, Indels: 15
0.76 0.09 0.15
Matches are distributed among these distances:
9 16 0.21
10 28 0.37
11 23 0.31
12 8 0.11
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (10 bp):
TTTTTATAAA
Found at i:36347345 original size:9 final size:9
Alignment explanation
Indices: 36347306--36347369 Score: 56
Period size: 9 Copynumber: 6.6 Consensus size: 9
36347296 TTATATATGA
36347306 TTTTATAATT
1 TTTTATAA-T
* *
36347316 TCTTTTTATT
1 T-TTTATAAT
36347326 TTTTATAAAT
1 TTTTAT-AAT
36347336 TTTTATAAT
1 TTTTATAAT
36347345 TTTTAATAAAT
1 TTTT-AT-AAT
*
36347356 TTTTAAAAT
1 TTTTATAAT
36347365 TTTTA
1 TTTTA
36347370 AATAATTCTT
Statistics
Matches: 45, Mismatches: 5, Indels: 9
0.76 0.08 0.15
Matches are distributed among these distances:
9 19 0.42
10 14 0.31
11 12 0.27
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.66
Consensus pattern (9 bp):
TTTTATAAT
Found at i:36347346 original size:20 final size:20
Alignment explanation
Indices: 36347323--36347423 Score: 96
Period size: 20 Copynumber: 4.9 Consensus size: 20
36347313 ATTTCTTTTT
*
36347323 ATTTTTTATAAATTTTTATA
1 ATTTTTTATAAATTTTTACA
* *
36347343 ATTTTTAATAAATTTTTAAA
1 ATTTTTTATAAATTTTTACA
* *
36347363 ATTTTTAAATAATTCTTTTTACA
1 ATTTTT-TATAA--ATTTTTACA
36347386 ATTTTTTA-AAATTTTTACA
1 ATTTTTTATAAATTTTTACA
* *
36347405 AGTTTTTGTAACATTTTTA
1 ATTTTTTATAA-ATTTTTA
36347424 TAATACTATT
Statistics
Matches: 68, Mismatches: 8, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
19 14 0.21
20 26 0.38
21 14 0.21
22 1 0.01
23 13 0.19
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (20 bp):
ATTTTTTATAAATTTTTACA
Found at i:36347370 original size:9 final size:9
Alignment explanation
Indices: 36347325--36347371 Score: 58
Period size: 9 Copynumber: 4.9 Consensus size: 9
36347315 TTCTTTTTAT
36347325 TTTTTATAAA
1 TTTTTA-AAA
*
36347335 TTTTTATAA
1 TTTTTAAAA
36347344 TTTTTAATAAA
1 TTTTT-A-AAA
36347355 TTTTTAAAA
1 TTTTTAAAA
36347364 TTTTTAAA
1 TTTTTAAA
36347372 TAATTCTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
9 18 0.55
10 8 0.24
11 7 0.21
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (9 bp):
TTTTTAAAA
Found at i:36347540 original size:21 final size:20
Alignment explanation
Indices: 36347514--36347574 Score: 65
Period size: 21 Copynumber: 3.1 Consensus size: 20
36347504 TTTTCTAGAT
36347514 TATTTATTTTAATTTTTAATA
1 TATTTATTTTAATTTTT-ATA
*
36347535 TATTTATTTCT-ATTTCT-TA
1 TATTTATTT-TAATTTTTATA
*
36347554 TATTT-TTTTAATGTTTATA
1 TATTTATTTTAATTTTTATA
36347573 TA
1 TA
36347575 CATTTGATAA
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
17 1 0.03
18 7 0.21
19 11 0.32
21 14 0.41
22 1 0.03
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.67
Consensus pattern (20 bp):
TATTTATTTTAATTTTTATA
Found at i:36347574 original size:19 final size:19
Alignment explanation
Indices: 36347514--36347574 Score: 56
Period size: 19 Copynumber: 3.1 Consensus size: 19
36347504 TTTTCTAGAT
36347514 TATTTATTTTAATTTTTAATA
1 TATTTATTTTAA-TTTT-ATA
36347535 TATTTATTTCT-ATTTCT-TA
1 TATTTATTT-TAATTT-TATA
36347554 TATTT-TTTTAATGTTTATA
1 TATTTATTTTAAT-TTTATA
36347573 TA
1 TA
36347575 CATTTGATAA
Statistics
Matches: 35, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
17 1 0.03
18 6 0.17
19 13 0.37
20 3 0.09
21 11 0.31
22 1 0.03
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.67
Consensus pattern (19 bp):
TATTTATTTTAATTTTATA
Found at i:36351136 original size:13 final size:14
Alignment explanation
Indices: 36351118--36351146 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
36351108 ATAATTATGT
36351118 CAATTTC-AATCAC
1 CAATTTCGAATCAC
36351131 CAATTTCGAATCAC
1 CAATTTCGAATCAC
36351145 CA
1 CA
36351147 TCACCCTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.38, C:0.31, G:0.03, T:0.28
Consensus pattern (14 bp):
CAATTTCGAATCAC
Found at i:36355248 original size:14 final size:14
Alignment explanation
Indices: 36355229--36355258 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
36355219 TACAAATAAA
36355229 TATTAAATTAAATT
1 TATTAAATTAAATT
*
36355243 TATTAAATTTAATT
1 TATTAAATTAAATT
36355257 TA
1 TA
36355259 GTATTAAGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TATTAAATTAAATT
Found at i:36360323 original size:40 final size:39
Alignment explanation
Indices: 36360266--36360450 Score: 217
Period size: 40 Copynumber: 4.6 Consensus size: 39
36360256 ATTAAATGAT
* * *
36360266 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGT-GTTAA
* * * *
36360306 ATCCGGGTTAAGACCCGAAGGCAATTATGCTAGTGACTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGTG-TTAA
**
36360346 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAG-TGTTAA
* * **
36360386 ATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTCT
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGT-GTTAA
36360426 ATCCGGGCTAAGACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATT
36360451 CGTGCATGTG
Statistics
Matches: 126, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
39 2 0.02
40 122 0.97
41 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.24
Consensus pattern (39 bp):
ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGTGTTAA
Found at i:36360402 original size:80 final size:80
Alignment explanation
Indices: 36360265--36360471 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 80
36360255 AATTAAATGA
* * ** * *
36360265 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTTAAATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGCAA
*
36360330 TTATGCTAGT-G-AC
66 TTATGCAAGTCGTAC
* *
36360343 TAAATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGC
* * *
36360408 ATTTGTGCAAGTCGTTC
64 AATTATGCAAGTCGTAC
* * *
36360425 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGG
36360472 TTGTATTCCG
Statistics
Matches: 110, Mismatches: 15, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
78 1 0.01
80 106 0.96
81 1 0.01
82 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGCAA
TTATGCAAGTCGTAC
Found at i:36360456 original size:40 final size:39
Alignment explanation
Indices: 36360264--36360471 Score: 211
Period size: 40 Copynumber: 5.2 Consensus size: 39
36360254 CAATTAAATG
* * ** *
36360264 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
* * * * *
36360304 AAATCCGGGTTAAGACCCGAAGGCAATT-ATGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTG-TT
*
36360344 AAATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAG-TGTT
* * *
36360384 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
* *
36360424 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
36360464 ATATCCGG
1 ATATCCGG
36360472 TTGTATTCCG
Statistics
Matches: 145, Mismatches: 18, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
39 5 0.03
40 135 0.93
41 5 0.03
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGTT
Found at i:36362082 original size:21 final size:21
Alignment explanation
Indices: 36362058--36362097 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
36362048 TTGTATGTAA
36362058 TGTGAGTTATGTTGATGTGAT
1 TGTGAGTTATGTTGATGTGAT
36362079 TGTGAGTTATGTTGATGTG
1 TGTGAGTTATGTTGATGTG
36362098 CTTTACATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.17, C:0.00, G:0.35, T:0.47
Consensus pattern (21 bp):
TGTGAGTTATGTTGATGTGAT
Found at i:36365930 original size:46 final size:46
Alignment explanation
Indices: 36365773--36365995 Score: 181
Period size: 46 Copynumber: 4.7 Consensus size: 46
36365763 ATCATCATTG
* * * *
36365773 AGGCCGATGCCATGTCCCAGACAAGGTCTTACACTAGCTCTCG-CACA
1 AGGCCAATG-CATGTCCCAGAC-ATGTCTTACACTAGCACTCGTCTCA
* * *
36365820 TCCGCGCCAATGCCATGTCCTAGACATGGTCTTACACTTA-CA--CATCTCA
1 --AG-GCCAATG-CATGTCCCAGACAT-GTCTTACAC-TAGCACTCGTCTCA
*
36365869 TA-GCCAATGCATGTCCCAGACATGTCTTACACTAGCTTA-T-GTCTCG
1 -AGGCCAATGCATGTCCCAGACATGTCTTACACTAGC--ACTCGTCTCA
* *
36365915 AGGTCGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCA
1 AGGCCAATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCA
*
36365961 ATGCCAATGCCATGTCCCAGACATGGTCTTACACT
1 AGGCCAATG-CATGTCCCAGACAT-GTCTTACACT
36365996 GGCTCACACC
Statistics
Matches: 143, Mismatches: 18, Indels: 27
0.76 0.10 0.14
Matches are distributed among these distances:
43 2 0.01
44 11 0.08
45 15 0.10
46 55 0.38
47 14 0.10
48 11 0.08
49 5 0.03
50 28 0.20
51 2 0.01
ACGTcount: A:0.25, C:0.32, G:0.18, T:0.26
Consensus pattern (46 bp):
AGGCCAATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCA
Found at i:36368571 original size:27 final size:28
Alignment explanation
Indices: 36368515--36368584 Score: 133
Period size: 27 Copynumber: 2.5 Consensus size: 28
36368505 AAATTTGTAC
36368515 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
36368543 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
36368570 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
36368585 GACTCACTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 25 0.60
28 17 0.40
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:36376499 original size:27 final size:28
Alignment explanation
Indices: 36376443--36376512 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
36376433 AAATTTGTAC
36376443 AGCACTAAGTGTGCGAGTTTGAGTATAT
1 AGCACTAAGTGTGCGAGTTTGAGTATAT
* *
36376471 AGCGCTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGAGTATAT
36376498 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
36376513 GACTCACTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 23 0.59
28 16 0.41
ACGTcount: A:0.27, C:0.13, G:0.30, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGAGTATAT
Found at i:36376523 original size:27 final size:27
Alignment explanation
Indices: 36376443--36376524 Score: 85
Period size: 27 Copynumber: 3.0 Consensus size: 27
36376433 AAATTTGTAC
* *
36376443 AGCACTAAGTGTGCGAGTTTGAGTATAT
1 AGCACTAAGTGTGCG-GATTGACTATAT
* *
36376471 AGCGCTAAGTGTGC-GAGTTGATTATAT
1 AGCACTAAGTGTGCGGA-TTGACTATAT
* *
36376498 AGCACTAAGTGTGCGGACTCACTATAT
1 AGCACTAAGTGTGCGGATTGACTATAT
36376525 GTTTTTGAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
26 1 0.02
27 29 0.64
28 15 0.33
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGATTGACTATAT
Found at i:36379712 original size:29 final size:29
Alignment explanation
Indices: 36379679--36379780 Score: 186
Period size: 29 Copynumber: 3.5 Consensus size: 29
36379669 GTGACGAGAT
*
36379679 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
36379708 TGGCACTGAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
36379737 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
36379766 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
36379781 GAGCTCGAAG
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 70 1.00
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:36379796 original size:29 final size:29
Alignment explanation
Indices: 36379679--36379840 Score: 107
Period size: 29 Copynumber: 5.6 Consensus size: 29
36379669 GTGACGAGAT
* **
36379679 TGGCACTAAGTGTGC-ATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGA-GCTCGAAACGTA
* * **
36379708 TGGCACTGAGTGTGC-ATGCTGGAAATATA
1 TGGCACTAAGTGTGCGA-GCTCGAAACGTA
* **
36379737 TGGCACTAAGTGTGC-ATGCTGGAAATATA
1 TGGCACTAAGTGTGCGA-GCTCGAAACGTA
**
36379766 TGGCACTAAGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGAGCTCGAAACGTA
** * * *
36379795 TGGCACTGTGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAA-CGTA
36379824 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
36379841 AATCGAGTAT
Statistics
Matches: 114, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
28 2 0.02
29 111 0.97
30 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTCGAAACGTA
Found at i:36379809 original size:58 final size:59
Alignment explanation
Indices: 36379675--36379801 Score: 179
Period size: 58 Copynumber: 2.2 Consensus size: 59
36379665 TACGGTGACG
* * *
36379675 AGAT-TGGCACTAAGTGTGCATGCTGGAAAAATATGGCACTGAGTGTGC-ATGCTGGAA
1 AGATATGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCGATGCTCGAA
*
36379732 ATATATGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCGA-GCTCGAA
1 AGATATGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCGATGCTCGAA
* *
36379790 GGGTATGGCACT
1 AGATATGGCACT
36379802 GTGTGTGCGG
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
57 3 0.05
58 57 0.93
59 1 0.02
ACGTcount: A:0.29, C:0.15, G:0.31, T:0.25
Consensus pattern (59 bp):
AGATATGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCGATGCTCGAA
Found at i:36379878 original size:2 final size:2
Alignment explanation
Indices: 36379873--36379903 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
36379863 GTGCGTACTC
36379873 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 T
36379904 CTCCGATCGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:36392345 original size:14 final size:14
Alignment explanation
Indices: 36392326--36392353 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
36392316 ATAATGAAAC
36392326 ACATGCAATTTCTA
1 ACATGCAATTTCTA
36392340 ACATGCAATTTCTA
1 ACATGCAATTTCTA
36392354 TCTCACCCAA
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:0.21, G:0.07, T:0.36
Consensus pattern (14 bp):
ACATGCAATTTCTA
Found at i:36409640 original size:13 final size:11
Alignment explanation
Indices: 36409616--36409666 Score: 66
Period size: 13 Copynumber: 4.3 Consensus size: 11
36409606 ATCTAACCAT
36409616 TTAATAAATTA
1 TTAATAAATTA
36409627 TTAATATAATTTA
1 TTAATA-AA-TTA
36409640 TTAATAAATTA
1 TTAATAAATTA
36409651 TTAATACAAATTA
1 TTAAT--AAATTA
36409664 TTA
1 TTA
36409667 TTTTAATAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
11 14 0.39
12 4 0.11
13 18 0.50
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (11 bp):
TTAATAAATTA
Found at i:36409648 original size:24 final size:24
Alignment explanation
Indices: 36409616--36409666 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
36409606 ATCTAACCAT
* *
36409616 TTAATAAATTATTAATATAATTTA
1 TTAATAAATTATTAATACAAATTA
36409640 TTAATAAATTATTAATACAAATTA
1 TTAATAAATTATTAATACAAATTA
36409664 TTA
1 TTA
36409667 TTTTAATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (24 bp):
TTAATAAATTATTAATACAAATTA
Found at i:36409786 original size:15 final size:15
Alignment explanation
Indices: 36409766--36409822 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
36409756 ATTCAATATT
36409766 AATATTTTAATAATA
1 AATATTTTAATAATA
*
36409781 AATATTTATCTCAATTATA
1 AATA-TT-T-T-AATAATA
*
36409800 AATATATTAATAATA
1 AATATTTTAATAATA
*
36409815 AATGTTTT
1 AATATTTT
36409823 GTAGTATGAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 16 0.48
16 3 0.09
17 2 0.06
18 2 0.06
19 10 0.30
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:36417331 original size:40 final size:40
Alignment explanation
Indices: 36417283--36417408 Score: 200
Period size: 40 Copynumber: 3.2 Consensus size: 40
36417273 AGACTAAGAT
*
36417283 CCGAAGGCATTTGTGTGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
36417323 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
* ** *
36417363 CTGAAGGCATTTGTGCGAGTTGTTATATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
36417402 CCGAAGG
1 CCGAAGG
36417409 TACTTGGGTT
Statistics
Matches: 80, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 14 0.17
40 66 0.82
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.29
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
Found at i:36424149 original size:27 final size:28
Alignment explanation
Indices: 36424092--36424161 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
36424082 AAAATTGTAC
**
36424092 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
* *
36424120 AGCACTATGTGTGCG-AGCTGATTTTAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
36424147 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
36424162 GATTCACTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 23 0.62
28 14 0.38
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:36429653 original size:39 final size:40
Alignment explanation
Indices: 36429476--36429657 Score: 181
Period size: 40 Copynumber: 4.6 Consensus size: 40
36429466 CCGCACCAAG
* * * * * * *
36429476 GCCTACGGGACTTA-CCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* * *
36429515 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAA-T
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCAC-AATT
*
36429555 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* * * *
36429595 GCCTTCGGGTCTTAACCCGGATATAATTTC-AGCATAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* *
36429634 GTCTTCGGGGCTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
36429658 CATTCAATTT
Statistics
Matches: 122, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
39 43 0.35
40 77 0.63
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
Found at i:36437641 original size:40 final size:40
Alignment explanation
Indices: 36437582--36437749 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
36437572 CGGGACTTTA
* * *
36437582 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
36437622 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
36437662 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
36437702 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGG-CTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
36437741 CCCGGATAT
1 CCCGGATAT
36437750 CATTCAATTT
Statistics
Matches: 106, Mismatches: 19, Indels: 7
0.80 0.14 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 14 0.13
40 86 0.81
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:36442707 original size:30 final size:30
Alignment explanation
Indices: 36442671--36442731 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
36442661 TAGCTGAAGG
36442671 TAGTTTAAATCGCACACTTAGTGCCAAAAC
1 TAGTTTAAATCGCACACTTAGTGCCAAAAC
36442701 TAGTTTAAATCGCACACTTAGTGCCAAAAC
1 TAGTTTAAATCGCACACTTAGTGCCAAAAC
36442731 T
1 T
36442732 TCCGATTCAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.28
Consensus pattern (30 bp):
TAGTTTAAATCGCACACTTAGTGCCAAAAC
Found at i:36449918 original size:30 final size:30
Alignment explanation
Indices: 36449882--36449940 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
36449872 GTAGCCGAAT
*
36449882 CTAGTTTAAATCGCGCACTTAGTGCCAAAG
1 CTAGTTTAAATCGCACACTTAGTGCCAAAG
*
36449912 CTAGTTTAAATTGCACACTTAGTGCCAAA
1 CTAGTTTAAATCGCACACTTAGTGCCAAA
36449941 ACTTCTGATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (30 bp):
CTAGTTTAAATCGCACACTTAGTGCCAAAG
Found at i:36459366 original size:22 final size:22
Alignment explanation
Indices: 36459322--36459368 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
36459312 GGAGGACATA
* **
36459322 GGCGTGTTCCCTGTTTCGTACG
1 GGCGTGTTACCTGTTTCACACG
*
36459344 GGCGTGTTACTTGTTTCACACG
1 GGCGTGTTACCTGTTTCACACG
36459366 GGC
1 GGC
36459369 ATATGGCTCT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.09, C:0.26, G:0.32, T:0.34
Consensus pattern (22 bp):
GGCGTGTTACCTGTTTCACACG
Found at i:36461461 original size:28 final size:28
Alignment explanation
Indices: 36461429--36461497 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
36461419 GCGTAGATCA
36461429 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
36461457 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
36461485 CGATA-TACCCCTA
1 CGAAATTACCCCTA
36461498 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:36462973 original size:13 final size:13
Alignment explanation
Indices: 36462957--36462999 Score: 61
Period size: 13 Copynumber: 3.3 Consensus size: 13
36462947 TTTTGCTACG
36462957 AATTTTTTTTTGA
1 AATTTTTTTTTGA
36462970 AATTATTTTTTT-A
1 AATT-TTTTTTTGA
*
36462983 AGTTTTTTTTTGA
1 AATTTTTTTTTGA
36462996 AATT
1 AATT
36463000 GAGAAATAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
12 7 0.27
13 12 0.46
14 7 0.27
ACGTcount: A:0.26, C:0.00, G:0.07, T:0.67
Consensus pattern (13 bp):
AATTTTTTTTTGA
Found at i:36464012 original size:49 final size:50
Alignment explanation
Indices: 36463920--36464058 Score: 156
Period size: 49 Copynumber: 2.8 Consensus size: 50
36463910 AACAAACAAA
* * * * *
36463920 CAATGAAGCATAATTAAAACACCATTTTATTTATGAATACAACAGAA-TAAT
1 CAATGAAGCATAAATAAAACA-CACTCTATTTATGAATGCAACAAAACT-AT
* *
36463971 CTATGAAGCATAAATGAAACA-ACTCTATTTATGAATGCAACAAAACTAT
1 CAATGAAGCATAAATAAAACACACTCTATTTATGAATGCAACAAAACTAT
* *
36464020 CAATGAAGCATAATTAAAACACCACTTTATTTATGAATG
1 CAATGAAGCATAAATAAAACA-CACTCTATTTATGAATG
36464059 AAACTTTATT
Statistics
Matches: 74, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
49 40 0.54
50 1 0.01
51 33 0.45
ACGTcount: A:0.47, C:0.15, G:0.09, T:0.29
Consensus pattern (50 bp):
CAATGAAGCATAAATAAAACACACTCTATTTATGAATGCAACAAAACTAT
Found at i:36467621 original size:16 final size:16
Alignment explanation
Indices: 36467600--36467630 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
36467590 TCACTCACCA
*
36467600 TCTTTTTTCTCTTTTC
1 TCTTTTCTCTCTTTTC
36467616 TCTTTTCTCTCTTTT
1 TCTTTTCTCTCTTTT
36467631 TTAACTTCCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (16 bp):
TCTTTTCTCTCTTTTC
Found at i:36468425 original size:14 final size:15
Alignment explanation
Indices: 36468397--36468429 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
36468387 TCTTTAGAAA
*
36468397 TCTTCTAAAATATTT
1 TCTTCTAAAAAATTT
36468412 TCTTC-AAAAAATTT
1 TCTTCTAAAAAATTT
36468426 TCTT
1 TCTT
36468430 TACAACTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.33, C:0.15, G:0.00, T:0.52
Consensus pattern (15 bp):
TCTTCTAAAAAATTT
Done.