Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 154 of 290
Found at i:52420850 original size:21 final size:20
Alignment explanation
Indices: 52420821--52420890 Score: 74
Period size: 21 Copynumber: 3.5 Consensus size: 20
52420811 ACGAGACAAA
52420821 TAATTATGAAATTGAACTCG
1 TAATTATGAAATTGAACTCG
* *
52420841 TAATTCATGAAAATGAA---A
1 TAATT-ATGAAATTGAACTCG
52420859 TAATTATGAAATTGAACTCG
1 TAATTATGAAATTGAACTCG
*
52420879 GAATTCATGAAA
1 TAATT-ATGAAA
52420891 ATGACGGTTA
Statistics
Matches: 40, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
17 10 0.25
18 5 0.12
20 9 0.22
21 16 0.40
ACGTcount: A:0.46, C:0.09, G:0.14, T:0.31
Consensus pattern (20 bp):
TAATTATGAAATTGAACTCG
Found at i:52420860 original size:38 final size:38
Alignment explanation
Indices: 52420818--52420894 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
52420808 AACACGAGAC
*
52420818 AAATAATTATGAAATTGAACTCGTAATTCATGAAAATG
1 AAATAATTATGAAATTGAACTCGGAATTCATGAAAATG
52420856 AAATAATTATGAAATTGAACTCGGAATTCATGAAAATG
1 AAATAATTATGAAATTGAACTCGGAATTCATGAAAATG
52420894 A
1 A
52420895 CGGTTATTGA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.48, C:0.08, G:0.14, T:0.30
Consensus pattern (38 bp):
AAATAATTATGAAATTGAACTCGGAATTCATGAAAATG
Found at i:52420869 original size:17 final size:17
Alignment explanation
Indices: 52420818--52420874 Score: 60
Period size: 17 Copynumber: 3.1 Consensus size: 17
52420808 AACACGAGAC
52420818 AAATAATTATGAAATTG
1 AAATAATTATGAAATTG
* *
52420835 AACTCGTAATTCATGAAAATG
1 AA---ATAATT-ATGAAATTG
52420856 AAATAATTATGAAATTG
1 AAATAATTATGAAATTG
52420873 AA
1 AA
52420875 CTCGGAATTC
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
17 12 0.38
18 5 0.16
20 5 0.16
21 10 0.31
ACGTcount: A:0.51, C:0.05, G:0.12, T:0.32
Consensus pattern (17 bp):
AAATAATTATGAAATTG
Found at i:52423787 original size:40 final size:40
Alignment explanation
Indices: 52423743--52424004 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
52423733 GCTCCTCGTT
* *
52423743 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
52423783 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
52423823 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
52423862 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
52423901 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
52423940 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
52423981 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
52424005 CATCATTCAA
Statistics
Matches: 205, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:52431319 original size:40 final size:40
Alignment explanation
Indices: 52431275--52431536 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
52431265 GCTCCTCGTT
* *
52431275 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
52431315 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
52431355 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
52431394 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
52431433 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
52431472 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
52431513 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
52431537 CATCATTCAA
Statistics
Matches: 205, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:52435003 original size:18 final size:18
Alignment explanation
Indices: 52434977--52435011 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
52434967 TTAATCATGC
*
52434977 TCACATATCATTTTCATT
1 TCACATATCACTTTCATT
*
52434995 TCACCTATCACTTTCAT
1 TCACATATCACTTTCAT
52435012 GTAATTCACT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.29, G:0.00, T:0.46
Consensus pattern (18 bp):
TCACATATCACTTTCATT
Found at i:52442540 original size:49 final size:49
Alignment explanation
Indices: 52442487--52442598 Score: 145
Period size: 49 Copynumber: 2.3 Consensus size: 49
52442477 GCCGTGGCCT
* *
52442487 AGACAGGTCTTACAATGAATTTCGTATATCGAG-GTCGATGCCATGTCCC
1 AGACAGGTCTTACAATGAATCTCATATATC-AGTGTCGATGCCATGTCCC
* ** *
52442536 AGACAGGTCTTACACTGGCTCTCATCTATCAGTGTCGATGCCATGTCCC
1 AGACAGGTCTTACAATGAATCTCATATATCAGTGTCGATGCCATGTCCC
*
52442585 AGATAGGTCTTACA
1 AGACAGGTCTTACA
52442599 CTGACACACA
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
48 2 0.04
49 53 0.96
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (49 bp):
AGACAGGTCTTACAATGAATCTCATATATCAGTGTCGATGCCATGTCCC
Found at i:52442785 original size:46 final size:46
Alignment explanation
Indices: 52442669--52442794 Score: 173
Period size: 46 Copynumber: 2.7 Consensus size: 46
52442659 GATGGTGATT
* * **
52442669 CATGTCCCAGACATGTCTTACACTAGCTCTCATCTTAATGCCGATG
1 CATGTCCTAGACATGTCTTACACTGGCTCTCATAATAATGCCGATG
*
52442715 CATGTCCTAGACATGTCTTACACTGGCTCTCATAAT-GTGGCCGATG
1 CATGTCCTAGACATGTCTTACACTGGCTCTCATAATAAT-GCCGATG
* *
52442761 CATGTCCTAGACATGTCTTACACTGTCTCACATA
1 CATGTCCTAGACATGTCTTACACTGGCTCTCATA
52442795 CCACCCAATG
Statistics
Matches: 72, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
45 1 0.01
46 71 0.99
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.31
Consensus pattern (46 bp):
CATGTCCTAGACATGTCTTACACTGGCTCTCATAATAATGCCGATG
Found at i:52450794 original size:17 final size:19
Alignment explanation
Indices: 52450754--52450799 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
52450744 ATTCAAATGC
*
52450754 ATATAAATTTATATTGTAT
1 ATATAAATATATATTGTAT
*
52450773 ATATACATATATATT-TAT
1 ATATAAATATATATTGTAT
52450791 -TATAAATAT
1 ATATAAATAT
52450800 CACCTAACCG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 8 0.33
18 3 0.12
19 13 0.54
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (19 bp):
ATATAAATATATATTGTAT
Found at i:52454010 original size:230 final size:230
Alignment explanation
Indices: 52453607--52454060 Score: 793
Period size: 230 Copynumber: 2.0 Consensus size: 230
52453597 CAATCTATTG
*
52453607 ACAACAACCCAGATTGCATATTTCTTGCCCGGTGTAAATGGTAAACCAGATACAAAATCCATCGT
1 ACAACAACCCACATTGCATATTTCTTGCCCGGTGTAAATGGTAAACCAGATACAAAATCCATCGT
52453672 AACTCTATCCCATTTCCACTCAGGTATCATGACAGGCTGAAGTAATCCTGAAGGCACCTGATGTT
66 AACTCTATCCCATTTCCACTCAGGTATCATGACAGGCTGAAGTAATCCTGAAGGCACCTGATGTT
*
52453737 CAGCTTTTACTTGATGACAGACTAAACATTTTGTAACAAAGTCAGAAATGTCTCGCTTCATACCA
131 CAGCTTTTACTTGATGACAGACTAAACATTTTGTAACAAAGTCAAAAATGTCTCGCTTCATACCA
52453802 TGCC-ACTAGTAAAGTTGTTTCAGATCATTCTATCA
196 TGCCAAC-AGTAAAGTTGTTTCAGATCATTCTATCA
* * * * *
52453837 ACAACAATCCACATTGCATCTTTCTTGCCCGGTGTCAATGGTAAATCAGATACAAAATCTATCGT
1 ACAACAACCCACATTGCATATTTCTTGCCCGGTGTAAATGGTAAACCAGATACAAAATCCATCGT
*
52453902 AACTCTATCCCATTTCCACTCAGGTATCATGATAGGCTGAAGTAATCCTGAAGGCACCTGATGTT
66 AACTCTATCCCATTTCCACTCAGGTATCATGACAGGCTGAAGTAATCCTGAAGGCACCTGATGTT
* * *
52453967 TAGCTTTTACTTGTTGACAGACTAAACATTTTGTAACAAAGTCAAAAATGTCTCGCTTCATTCCA
131 CAGCTTTTACTTGATGACAGACTAAACATTTTGTAACAAAGTCAAAAATGTCTCGCTTCATACCA
52454032 TGCCAACAGTAAAGTTGTTTCAGATCATT
196 TGCCAACAGTAAAGTTGTTTCAGATCATT
52454061 ATACATCTTT
Statistics
Matches: 212, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
230 210 0.99
231 2 0.01
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.30
Consensus pattern (230 bp):
ACAACAACCCACATTGCATATTTCTTGCCCGGTGTAAATGGTAAACCAGATACAAAATCCATCGT
AACTCTATCCCATTTCCACTCAGGTATCATGACAGGCTGAAGTAATCCTGAAGGCACCTGATGTT
CAGCTTTTACTTGATGACAGACTAAACATTTTGTAACAAAGTCAAAAATGTCTCGCTTCATACCA
TGCCAACAGTAAAGTTGTTTCAGATCATTCTATCA
Found at i:52455936 original size:39 final size:40
Alignment explanation
Indices: 52455841--52456102 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
52455831 TTGAATGATG
*
52455841 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
52455879 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
52455920 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
52455959 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
52455998 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
52456037 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
52456076 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
52456103 AACGAGGAGC
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
39 132 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:52491109 original size:18 final size:18
Alignment explanation
Indices: 52491070--52491110 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
52491060 TAATAAGGCC
* *
52491070 TTTTAATTATTTTTATGG
1 TTTTAATTACTTTTATGA
*
52491088 TTTTAATTACTTTTATTA
1 TTTTAATTACTTTTATGA
52491106 TTTTA
1 TTTTA
52491111 TTTTACTATG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.24, C:0.02, G:0.05, T:0.68
Consensus pattern (18 bp):
TTTTAATTACTTTTATGA
Found at i:52510715 original size:16 final size:15
Alignment explanation
Indices: 52510691--52510720 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
52510681 AACTATTTTA
52510691 TTACAAATTTCACTC
1 TTACAAATTTCACTC
52510706 TTACATAATTTCACT
1 TTACA-AATTTCACT
52510721 TGCTCCATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (15 bp):
TTACAAATTTCACTC
Found at i:52512288 original size:42 final size:43
Alignment explanation
Indices: 52512237--52512342 Score: 151
Period size: 42 Copynumber: 2.5 Consensus size: 43
52512227 CCTGATCAGT
52512237 ATACGACACATAAAGTGCCTAAAACGACACACGAGGTGCCTG-
1 ATACGACACATAAAGTGCCTAAAACGACACACGAGGTGCCTGA
** * * *
52512279 ATACGACACACGAGGTGCCTGATACGACACACGAGGTGCCTGAA
1 ATACGACACATAAAGTGCCTAAAACGACACACGAGGTGCCTG-A
52512323 ATACGACACATAAAGTGCCT
1 ATACGACACATAAAGTGCCT
52512343 GATCGATAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
42 37 0.69
44 17 0.31
ACGTcount: A:0.36, C:0.26, G:0.23, T:0.15
Consensus pattern (43 bp):
ATACGACACATAAAGTGCCTAAAACGACACACGAGGTGCCTGA
Found at i:52512289 original size:23 final size:21
Alignment explanation
Indices: 52512237--52512332 Score: 129
Period size: 21 Copynumber: 4.5 Consensus size: 21
52512227 CCTGATCAGT
** * *
52512237 ATACGACACATAAAGTGCCTA
1 ATACGACACACGAGGTGCCTG
*
52512258 AAACGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
52512279 ATACGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
52512300 ATACGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
52512321 AAATACGACACA
1 --ATACGACACA
52512333 TAAAGTGCCT
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
21 57 0.85
23 10 0.15
ACGTcount: A:0.36, C:0.27, G:0.23, T:0.14
Consensus pattern (21 bp):
ATACGACACACGAGGTGCCTG
Found at i:52512740 original size:15 final size:15
Alignment explanation
Indices: 52512715--52512772 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
52512705 TCATATATAT
52512715 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
52512731 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
52512746 AATAATTTCAATCAA
1 TATAAATTCAATCAA
52512761 TATAAATTCAAT
1 TATAAATTCAAT
52512773 AAATTCATCG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:52525799 original size:40 final size:40
Alignment explanation
Indices: 52525755--52526016 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
52525745 GCTCCTCGTT
* *
52525755 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
52525795 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
52525835 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
52525874 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
52525913 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
52525952 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
52525993 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
52526017 CATCATTCAA
Statistics
Matches: 205, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:52530421 original size:40 final size:40
Alignment explanation
Indices: 52530237--52530461 Score: 249
Period size: 40 Copynumber: 5.7 Consensus size: 40
52530227 GCTCCTCGTT
* * * * *
52530237 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
* *
52530277 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
*
52530316 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
* * *
52530356 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
** * * * *
52530396 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCA
*
52530437 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
52530462 CAGCATTCAA
Statistics
Matches: 163, Mismatches: 18, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
39 37 0.23
40 115 0.71
41 11 0.07
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
Found at i:52530470 original size:41 final size:41
Alignment explanation
Indices: 52530393--52530470 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
52530383 TTAGTATCTC
* * *
52530393 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
52530434 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
52530471 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:52535562 original size:21 final size:21
Alignment explanation
Indices: 52535517--52535579 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 21
52535507 TTTCAACCAT
* *
52535517 TACCAATTCGTACCAAATACCA
1 TACCATTTCGTACC-AATTCCA
52535539 TACCATTTCGTACCAATTCCA
1 TACCATTTCGTACCAATTCCA
* *
52535560 TACTATTTCGAACCAATTCC
1 TACCATTTCGTACCAATTCC
52535580 CAAATACCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 24 0.65
22 13 0.35
ACGTcount: A:0.33, C:0.32, G:0.05, T:0.30
Consensus pattern (21 bp):
TACCATTTCGTACCAATTCCA
Found at i:52535925 original size:13 final size:13
Alignment explanation
Indices: 52535909--52535944 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
52535899 AGAAAAAAAG
52535909 AAAAAAAATTTGA
1 AAAAAAAATTTGA
*
52535922 AAAAAAAAATTGA
1 AAAAAAAATTTGA
52535935 AAAAAAAATT
1 AAAAAAAATT
52535945 GCATACGGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.19
Consensus pattern (13 bp):
AAAAAAAATTTGA
Found at i:52535943 original size:12 final size:12
Alignment explanation
Indices: 52535908--52535945 Score: 58
Period size: 12 Copynumber: 3.1 Consensus size: 12
52535898 AAGAAAAAAA
*
52535908 GAAAAAAAATTT
1 GAAAAAAAAATT
52535920 GAAAAAAAAAATT
1 G-AAAAAAAAATT
52535933 GAAAAAAAAATT
1 GAAAAAAAAATT
52535945 G
1 G
52535946 CATACGGTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 13 0.54
13 11 0.46
ACGTcount: A:0.71, C:0.00, G:0.11, T:0.18
Consensus pattern (12 bp):
GAAAAAAAAATT
Found at i:52538637 original size:53 final size:53
Alignment explanation
Indices: 52538574--52538678 Score: 192
Period size: 53 Copynumber: 2.0 Consensus size: 53
52538564 AGCCAATGGG
52538574 ATTGTCTAGGTTCAGCCATAGGATGCATGAAACTCCCAAAGGGTGTCTCTTGA
1 ATTGTCTAGGTTCAGCCATAGGATGCATGAAACTCCCAAAGGGTGTCTCTTGA
* *
52538627 ATTGTCTAGGTTCGGCCATGGGATGCATGAAACTCCCAAAGGGTGTCTCTTG
1 ATTGTCTAGGTTCAGCCATAGGATGCATGAAACTCCCAAAGGGTGTCTCTTG
52538679 GCTGAATAGG
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 50 1.00
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.29
Consensus pattern (53 bp):
ATTGTCTAGGTTCAGCCATAGGATGCATGAAACTCCCAAAGGGTGTCTCTTGA
Found at i:52539234 original size:20 final size:20
Alignment explanation
Indices: 52539187--52539234 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
52539177 CGTAAGCTCG
52539187 GTTGAGCTCAAACGAGCTGA
1 GTTGAGCTCAAACGAGCTGA
**** *
52539207 AACAAGCTCAAATGAGCTGA
1 GTTGAGCTCAAACGAGCTGA
52539227 GTTGAGCT
1 GTTGAGCT
52539235 GGACGGTGCT
Statistics
Matches: 19, Mismatches: 9, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.19, G:0.27, T:0.21
Consensus pattern (20 bp):
GTTGAGCTCAAACGAGCTGA
Found at i:52544242 original size:11 final size:10
Alignment explanation
Indices: 52544226--52544255 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
52544216 TTCGTAATGT
52544226 AAAAAAAAGTC
1 AAAAAAAA-TC
52544237 AAAAAAAATC
1 AAAAAAAATC
52544247 AAAAAAAAT
1 AAAAAAAAT
52544256 TTGAGTTGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 11 0.58
11 8 0.42
ACGTcount: A:0.80, C:0.07, G:0.03, T:0.10
Consensus pattern (10 bp):
AAAAAAAATC
Found at i:52544372 original size:21 final size:20
Alignment explanation
Indices: 52544318--52544375 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 20
52544308 ATTGGATTTT
* *
52544318 AAAAAAAGAGAAGAAATTCAA
1 AAAAAAAG-GAAAAAAATCAA
*
52544339 AAAAAATA-CAAAAAAATCGAA
1 AAAAAA-AGGAAAAAAATC-AA
52544360 AAAAAAAGGAAAAAAA
1 AAAAAAAGGAAAAAAA
52544376 AGAAGTGACA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
20 8 0.27
21 21 0.70
22 1 0.03
ACGTcount: A:0.78, C:0.05, G:0.10, T:0.07
Consensus pattern (20 bp):
AAAAAAAGGAAAAAAATCAA
Found at i:52544403 original size:40 final size:37
Alignment explanation
Indices: 52544337--52544423 Score: 108
Period size: 40 Copynumber: 2.3 Consensus size: 37
52544327 GAAGAAATTC
52544337 AAAAAAAA-T-ACAAAAAAATCGAAAAAAAAAGGAA-A
1 AAAAAAAAGTGACAAAAAAATCGAAAAAAAAA-GAAGA
*
52544372 AAAAAGAAGTGACAAAAAAATCGAGTTAAAAAAAAGAAGA
1 AAAAAAAAGTGACAAAAAAATCGA---AAAAAAAAGAAGA
52544412 AAAAAAAAGTGA
1 AAAAAAAAGTGA
52544424 AAAGTCTTGC
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
35 7 0.16
36 1 0.02
37 13 0.30
39 3 0.07
40 20 0.45
ACGTcount: A:0.74, C:0.05, G:0.14, T:0.08
Consensus pattern (37 bp):
AAAAAAAAGTGACAAAAAAATCGAAAAAAAAAGAAGA
Found at i:52545459 original size:6 final size:6
Alignment explanation
Indices: 52545410--52545517 Score: 65
Period size: 6 Copynumber: 17.7 Consensus size: 6
52545400 AAAGAAATTG
* * * ** *
52545410 AAAG-A AAACAA AAAGAA AACGAA AAAGAG AAAGAA ATTGTA AAAGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA
** ** * * *
52545457 AAAGAA ATCGAA AAAGTG AGAGAA AAAGAA AATGAAGA AAAGAA AATTGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAG-A-A AAAGAA AA-AGAA
52545508 AAAGAA AAAG
1 AAAGAA AAAG
52545518 TGAAAAAAGA
Statistics
Matches: 73, Mismatches: 26, Indels: 7
0.69 0.25 0.07
Matches are distributed among these distances:
5 3 0.04
6 59 0.81
7 7 0.10
8 4 0.05
ACGTcount: A:0.70, C:0.03, G:0.19, T:0.07
Consensus pattern (6 bp):
AAAGAA
Found at i:52545469 original size:24 final size:23
Alignment explanation
Indices: 52545410--52545515 Score: 72
Period size: 24 Copynumber: 4.3 Consensus size: 23
52545400 AAAGAAATTG
*
52545410 AAAGAAAACAAAAAG-AAAACGAA
1 AAAGAAAAGAAAAAGTAAAA-GAA
**
52545433 AAAGAGAAAGAAATTGTAAAAGAA
1 AAAGA-AAAGAAAAAGTAAAAGAA
* * *
52545457 AAAGAAATCGAAAAAGTGAGAGAA
1 AAAGAAA-AGAAAAAGTAAAAGAA
52545481 AAAGAAAATGAAGAAAAG-AAAATTGAA
1 AAAGAAAA-G-A-AAAAGTAAAA--GAA
52545508 AAAGAAAA
1 AAAGAAAA
52545516 AGTGAAAAAA
Statistics
Matches: 64, Mismatches: 11, Indels: 12
0.74 0.13 0.14
Matches are distributed among these distances:
23 7 0.11
24 34 0.53
25 7 0.11
26 5 0.08
27 11 0.17
ACGTcount: A:0.71, C:0.03, G:0.19, T:0.08
Consensus pattern (23 bp):
AAAGAAAAGAAAAAGTAAAAGAA
Found at i:52545508 original size:27 final size:27
Alignment explanation
Indices: 52545478--52545535 Score: 84
Period size: 27 Copynumber: 2.1 Consensus size: 27
52545468 AAAAGTGAGA
52545478 GAAAAAG-AAAA-TGAAGAAAAGAAAATT
1 GAAAAAGAAAAAGTGAA-AAAAG-AAATT
52545505 GAAAAAGAAAAAGTGAAAAAAGAAATT
1 GAAAAAGAAAAAGTGAAAAAAGAAATT
52545532 GAAA
1 GAAA
52545536 GAGAGCTTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
27 16 0.55
28 9 0.31
29 4 0.14
ACGTcount: A:0.71, C:0.00, G:0.19, T:0.10
Consensus pattern (27 bp):
GAAAAAGAAAAAGTGAAAAAAGAAATT
Found at i:52545524 original size:15 final size:13
Alignment explanation
Indices: 52545479--52545535 Score: 62
Period size: 14 Copynumber: 4.2 Consensus size: 13
52545469 AAAGTGAGAG
52545479 AAAAAGAAAATGA
1 AAAAAGAAAATGA
52545492 AGAAAAGAAAATTG-
1 A-AAAAGAAAA-TGA
52545506 AAAAAGAAAAAGTGA
1 AAAAAG-AAAA-TGA
*
52545521 AAAAAGAAATTGA
1 AAAAAGAAAATGA
52545534 AA
1 AA
52545536 GAGAGCTTGA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
13 11 0.29
14 19 0.50
15 8 0.21
ACGTcount: A:0.72, C:0.00, G:0.18, T:0.11
Consensus pattern (13 bp):
AAAAAGAAAATGA
Found at i:52545569 original size:33 final size:33
Alignment explanation
Indices: 52545532--52545594 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
52545522 AAAAGAAATT
52545532 GAAAGAGAG-CT-TGAAAAGAAATCAAGTGAAAAA
1 GAAAGAGAGTCTGT-AAAAGAAA-CAAGTGAAAAA
*
52545565 GAAAGAGAGTCTGTAAAAGAAACGAGTGAA
1 GAAAGAGAGTCTGTAAAAGAAACAAGTGAA
52545595 GTGAGTAATC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
33 16 0.59
34 10 0.37
35 1 0.04
ACGTcount: A:0.54, C:0.06, G:0.27, T:0.13
Consensus pattern (33 bp):
GAAAGAGAGTCTGTAAAAGAAACAAGTGAAAAA
Found at i:52547399 original size:20 final size:20
Alignment explanation
Indices: 52547376--52547421 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
52547366 CCAGCTCGAA
*
52547376 TTAGCTCACATGAGCTTAAT
1 TTAGCTCACATGAGCTCAAT
***
52547396 TTAGCTCGTTTGAGCTCAAT
1 TTAGCTCACATGAGCTCAAT
52547416 TTAGCT
1 TTAGCT
52547422 TACTTTAGCT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.24, C:0.20, G:0.17, T:0.39
Consensus pattern (20 bp):
TTAGCTCACATGAGCTCAAT
Found at i:52547403 original size:30 final size:30
Alignment explanation
Indices: 52547368--52547441 Score: 80
Period size: 30 Copynumber: 2.5 Consensus size: 30
52547358 AGTTTTTCCC
52547368 AGCTCGAATT-AGCTCACA-TGAGCTTAATTT
1 AGCTCG-ATTGAGCTCA-ATTGAGCTTAATTT
* * *
52547398 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGATTGAGCTCAATTGAGCTTAATTT
*
52547428 AGCTCGTTTGAGCT
1 AGCTCGATTGAGCT
52547442 TGGCTTAAGT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
29 3 0.08
30 36 0.92
ACGTcount: A:0.23, C:0.20, G:0.19, T:0.38
Consensus pattern (30 bp):
AGCTCGATTGAGCTCAATTGAGCTTAATTT
Found at i:52549818 original size:14 final size:14
Alignment explanation
Indices: 52549788--52549817 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
52549778 CAATTTTTCA
52549788 TTCACTTTTTCTTT
1 TTCACTTTTTCTTT
52549802 TTCATCTTTTTCTTT
1 TTCA-CTTTTTCTTT
52549817 T
1 T
52549818 CTCGCTCTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.07, C:0.20, G:0.00, T:0.73
Consensus pattern (14 bp):
TTCACTTTTTCTTT
Found at i:52549863 original size:19 final size:20
Alignment explanation
Indices: 52549839--52549881 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
52549829 TTCATTCTCT
*
52549839 TTTTTTTGAATTTTC-TTTC
1 TTTTTTTCAATTTTCTTTTC
*
52549858 TTTTTTTCATTTTTCTTTTC
1 TTTTTTTCAATTTTCTTTTC
52549878 TTTT
1 TTTT
52549882 GTATTTTCGC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.07, C:0.12, G:0.02, T:0.79
Consensus pattern (20 bp):
TTTTTTTCAATTTTCTTTTC
Found at i:52553746 original size:15 final size:16
Alignment explanation
Indices: 52553726--52553766 Score: 75
Period size: 15 Copynumber: 2.6 Consensus size: 16
52553716 TAGCTTCTTC
52553726 TTTTTTTTCACGAAAT
1 TTTTTTTTCACGAAAT
52553742 TTTTTTTTCACG-AAT
1 TTTTTTTTCACGAAAT
52553757 TTTTTTTTCA
1 TTTTTTTTCA
52553767 ACTTGATATC
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 13 0.52
16 12 0.48
ACGTcount: A:0.20, C:0.12, G:0.05, T:0.63
Consensus pattern (16 bp):
TTTTTTTTCACGAAAT
Found at i:52553826 original size:15 final size:13
Alignment explanation
Indices: 52553804--52553855 Score: 68
Period size: 13 Copynumber: 3.8 Consensus size: 13
52553794 ATGCAAACCA
52553804 AATTTTTTTTTTG
1 AATTTTTTTTTTG
52553817 AATTTTTTTTTTG
1 AATTTTTTTTTTG
*
52553830 AAAATTTTTTTTTCG
1 --AATTTTTTTTTTG
*
52553845 AGTTTTTTTTT
1 AATTTTTTTTT
52553856 CGAAAACTAC
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
13 23 0.66
15 12 0.34
ACGTcount: A:0.17, C:0.02, G:0.08, T:0.73
Consensus pattern (13 bp):
AATTTTTTTTTTG
Found at i:52553850 original size:28 final size:28
Alignment explanation
Indices: 52553803--52553861 Score: 91
Period size: 28 Copynumber: 2.1 Consensus size: 28
52553793 AATGCAAACC
* *
52553803 AAATTTTTTTTTTGAATTTTTTTTTTGA
1 AAATTTTTTTTTCGAATTTTTTTTTCGA
*
52553831 AAATTTTTTTTTCGAGTTTTTTTTTCGA
1 AAATTTTTTTTTCGAATTTTTTTTTCGA
52553859 AAA
1 AAA
52553862 CTACTATACC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.24, C:0.03, G:0.08, T:0.64
Consensus pattern (28 bp):
AAATTTTTTTTTCGAATTTTTTTTTCGA
Found at i:52561527 original size:40 final size:40
Alignment explanation
Indices: 52561344--52561513 Score: 234
Period size: 40 Copynumber: 4.3 Consensus size: 40
52561334 TCCTCGTTCA
* * * * *
52561344 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
52561383 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
52561423 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
52561463 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
52561503 AAGGCCTTCGG
1 AATGCCTTCGG
52561514 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 34 0.29
40 85 0.71
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:52561552 original size:80 final size:80
Alignment explanation
Indices: 52561388--52561566 Score: 191
Period size: 80 Copynumber: 2.2 Consensus size: 80
52561378 CACACAATGC
* * * *
52561388 CTTCGGGACATAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAAT
1 CTTCGGGACTTAACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATAAT
* * *
52561453 AACTCGCACGAATGC
66 AACTAGCACGAAAGA
** * ** *
52561468 CTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAGTCCGGATATAT
1 CTTCGGGACTTAACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGA-CTTAACCCGGATATAA
*
52561532 TCACTTAGCAC-AAAGA
65 TAAC-TAGCACGAAAGA
*
52561548 CTTCGGGACTTAGCCCGGA
1 CTTCGGGACTTAACCCGGA
52561567 CAGCATTCAA
Statistics
Matches: 82, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
79 3 0.04
80 74 0.90
81 5 0.06
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (80 bp):
CTTCGGGACTTAACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATAAT
AACTAGCACGAAAGA
Found at i:52565529 original size:20 final size:20
Alignment explanation
Indices: 52565504--52565546 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
52565494 AAAAGAAAAG
52565504 AAAGAAGAGAGATTGAGAGA
1 AAAGAAGAGAGATTGAGAGA
** *
52565524 AAAGAATCGAGATTGTGAGA
1 AAAGAAGAGAGATTGAGAGA
52565544 AAA
1 AAA
52565547 ACAAGAGCAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.53, C:0.02, G:0.30, T:0.14
Consensus pattern (20 bp):
AAAGAAGAGAGATTGAGAGA
Found at i:52566923 original size:38 final size:38
Alignment explanation
Indices: 52566881--52566955 Score: 141
Period size: 38 Copynumber: 2.0 Consensus size: 38
52566871 ATTACTTGTT
*
52566881 TTAATTATGTCCTAAGGCTGCTGAATTTAATGTGCAGA
1 TTAATTATGTCCTAAGGCTGCCGAATTTAATGTGCAGA
52566919 TTAATTATGTCCTAAGGCTGCCGAATTTAATGTGCAG
1 TTAATTATGTCCTAAGGCTGCCGAATTTAATGTGCAG
52566956 CATTTTAGTG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.36
Consensus pattern (38 bp):
TTAATTATGTCCTAAGGCTGCCGAATTTAATGTGCAGA
Found at i:52567719 original size:20 final size:19
Alignment explanation
Indices: 52567691--52567740 Score: 66
Period size: 18 Copynumber: 2.6 Consensus size: 19
52567681 CCACTCTCAA
52567691 TCTCTTTTTTCTCTTTTTCAT
1 TCTC-TTTTTCT-TTTTTCAT
*
52567712 TCTCTTTTTCTTTTTTGAT
1 TCTCTTTTTCTTTTTTCAT
52567731 T-TCTTTTTCT
1 TCTCTTTTTCT
52567741 GTCTTTCTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 9 0.32
19 8 0.29
20 7 0.25
21 4 0.14
ACGTcount: A:0.04, C:0.20, G:0.02, T:0.74
Consensus pattern (19 bp):
TCTCTTTTTCTTTTTTCAT
Found at i:52567725 original size:18 final size:17
Alignment explanation
Indices: 52567697--52567740 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 17
52567687 TCAATCTCTT
52567697 TTTTCTCTTTTTCATTCTC
1 TTTT-TCTTTTTCATT-TC
*
52567716 TTTTTCTTTTTTGATTTC
1 TTTTTC-TTTTTCATTTC
52567734 TTTTTCT
1 TTTTTCT
52567741 GTCTTTCTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 1 0.04
18 10 0.43
19 12 0.52
ACGTcount: A:0.05, C:0.18, G:0.02, T:0.75
Consensus pattern (17 bp):
TTTTTCTTTTTCATTTC
Found at i:52570103 original size:23 final size:22
Alignment explanation
Indices: 52570051--52570103 Score: 54
Period size: 23 Copynumber: 2.4 Consensus size: 22
52570041 TCCTTGTCTT
*
52570051 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
* *
52570073 CTTATTTTCTCTTCTTTCTTC-AA
1 TTTCTTTTCT-TTCTTT-TTCTAA
52570096 TTTCTTTT
1 TTTCTTTT
52570104 TCACTTTTCT
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
22 7 0.29
23 14 0.58
24 3 0.12
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:52570117 original size:18 final size:18
Alignment explanation
Indices: 52570096--52570135 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
52570086 CTTTCTTCAA
* * *
52570096 TTTCTTTTTCACTTTTCT
1 TTTCTGTTTCACATTCCT
52570114 TTTCTGTTTCACATTCCT
1 TTTCTGTTTCACATTCCT
52570132 TTTC
1 TTTC
52570136 ACTCTCAATC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.07, C:0.25, G:0.03, T:0.65
Consensus pattern (18 bp):
TTTCTGTTTCACATTCCT
Found at i:52570168 original size:27 final size:27
Alignment explanation
Indices: 52570131--52570183 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
52570121 TTCACATTCC
52570131 TTTTCACTCTCAATCTCTTTTTTCTCT
1 TTTTCACTCTCAATCTCTTTTTTCTCT
* ** *
52570158 TTTTCATTCTCTTTTTCTTTTTTCTC
1 TTTTCACTCTCAATCTCTTTTTTCTC
52570184 ACTTGTTTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.08, C:0.26, G:0.00, T:0.66
Consensus pattern (27 bp):
TTTTCACTCTCAATCTCTTTTTTCTCT
Found at i:52571994 original size:65 final size:65
Alignment explanation
Indices: 52571890--52572019 Score: 260
Period size: 65 Copynumber: 2.0 Consensus size: 65
52571880 GCGACGGACT
52571890 CGGGTACGGGGTGTTACAGGAATACATGAAGTAGACGTTCTTACTTCACTCGCATCTCAGGTATC
1 CGGGTACGGGGTGTTACAGGAATACATGAAGTAGACGTTCTTACTTCACTCGCATCTCAGGTATC
52571955 CGGGTACGGGGTGTTACAGGAATACATGAAGTAGACGTTCTTACTTCACTCGCATCTCAGGTATC
1 CGGGTACGGGGTGTTACAGGAATACATGAAGTAGACGTTCTTACTTCACTCGCATCTCAGGTATC
52572020 TTTAATATCC
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 65 1.00
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.28
Consensus pattern (65 bp):
CGGGTACGGGGTGTTACAGGAATACATGAAGTAGACGTTCTTACTTCACTCGCATCTCAGGTATC
Found at i:52592281 original size:115 final size:115
Alignment explanation
Indices: 52592079--52592310 Score: 428
Period size: 115 Copynumber: 2.0 Consensus size: 115
52592069 CACCAAAGTG
*
52592079 TTTTAAATAGCATTCATAAATAATTCTTTTTGCAGTCCCTGTGGGTAGGATAACTCGACATTTAC
1 TTTTAAATAGCATTCATAAATAATTCTTTTTGCAGTCCCTGTGGGTACGATAACTCGACATTTAC
*
52592144 ATGTCACTTTATTACTTGTTGCGATTGTGTGCACTTGCACATTTTTGTCA
66 ATGTCACTTTATTACTTGTTGCGATTGTGTGCACTTGCACATTTTCGTCA
* *
52592194 TTTTAATTTGCATTCATAAATAATTCTTTTTGCAGTCCCTGTGGGTACGATAACTCGACATTTAC
1 TTTTAAATAGCATTCATAAATAATTCTTTTTGCAGTCCCTGTGGGTACGATAACTCGACATTTAC
52592259 ATGTCACTTTATTACTTGTTGCGATTGTGTGCACTTGCACATTTTCGTCA
66 ATGTCACTTTATTACTTGTTGCGATTGTGTGCACTTGCACATTTTCGTCA
52592309 TT
1 TT
52592311 CCAGTCCCTA
Statistics
Matches: 113, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
115 113 1.00
ACGTcount: A:0.23, C:0.18, G:0.16, T:0.43
Consensus pattern (115 bp):
TTTTAAATAGCATTCATAAATAATTCTTTTTGCAGTCCCTGTGGGTACGATAACTCGACATTTAC
ATGTCACTTTATTACTTGTTGCGATTGTGTGCACTTGCACATTTTCGTCA
Found at i:52592849 original size:26 final size:26
Alignment explanation
Indices: 52592798--52592854 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 26
52592788 AACATGTTAG
* *
52592798 GAAAGAAAGCCTTTGTGGTGTAATAT
1 GAAAGAAAGCCTTTGTGGCGGAATAT
*
52592824 GAAAGAAAGCCTTTGTGGCGGGATAT
1 GAAAGAAAGCCTTTGTGGCGGAATAT
52592850 GAAAG
1 GAAAG
52592855 GAATGCCCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.35, C:0.09, G:0.32, T:0.25
Consensus pattern (26 bp):
GAAAGAAAGCCTTTGTGGCGGAATAT
Found at i:52596927 original size:42 final size:42
Alignment explanation
Indices: 52596848--52596943 Score: 108
Period size: 42 Copynumber: 2.3 Consensus size: 42
52596838 CAAAACACTT
*
52596848 AACGAGCTCGGATGCTCACATCATAATGAATTCAGACCACCC
1 AACGAGCTCGGATGCTCACATCATAATGAACTCAGACCACCC
*
52596890 AACGAGCTCGGATGC-CACAT-ATATCATGAAC-CTAGACCACTC
1 AACGAGCTCGGATGCTCACATCATA--ATGAACTC-AGACCACCC
* *
52596932 AATGAGTTCGGA
1 AACGAGCTCGGA
52596944 CTTCTTAATT
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
40 3 0.06
41 6 0.13
42 38 0.81
ACGTcount: A:0.33, C:0.28, G:0.19, T:0.20
Consensus pattern (42 bp):
AACGAGCTCGGATGCTCACATCATAATGAACTCAGACCACCC
Found at i:52597554 original size:30 final size:30
Alignment explanation
Indices: 52597497--52597555 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
52597487 CAAAAATCAT
* *
52597497 ACTTTTACAAATTTTCATTTTTACCCCTAA
1 ACTTTTACAAATTTACATATTTACCCCTAA
*
52597527 ACTTTTACATATTTACA-ATTTAGCCCCTA
1 ACTTTTACAAATTTACATATTTA-CCCCTA
52597556 GGCTCGTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 4 0.16
30 21 0.84
ACGTcount: A:0.31, C:0.24, G:0.02, T:0.44
Consensus pattern (30 bp):
ACTTTTACAAATTTACATATTTACCCCTAA
Found at i:52602046 original size:17 final size:18
Alignment explanation
Indices: 52602010--52602046 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
52602000 AAACAGGGTC
52602010 ACACGCCCGTGTGCCCTCA
1 ACACGCCCGTGT-CCCTCA
52602029 ACACGCCCGTGT-CCTCA
1 ACACGCCCGTGTCCCTCA
52602046 A
1 A
52602047 GCCGTGTAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.33
19 12 0.67
ACGTcount: A:0.19, C:0.46, G:0.19, T:0.16
Consensus pattern (18 bp):
ACACGCCCGTGTCCCTCA
Found at i:52606360 original size:28 final size:28
Alignment explanation
Indices: 52606320--52606403 Score: 123
Period size: 28 Copynumber: 3.0 Consensus size: 28
52606310 ATGCAATTGA
*
52606320 ATACTCAATATCTCGCACACTAAGTGTC
1 ATACTCGATATCTCGCACACTAAGTGTC
* **
52606348 ATACTTGATATCTCATACACTAAGTGTC
1 ATACTCGATATCTCGCACACTAAGTGTC
*
52606376 ATGCTCGATATCTCGCACACTAAGTGTC
1 ATACTCGATATCTCGCACACTAAGTGTC
52606404 GTACATACCC
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 48 1.00
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.31
Consensus pattern (28 bp):
ATACTCGATATCTCGCACACTAAGTGTC
Found at i:52606456 original size:40 final size:39
Alignment explanation
Indices: 52606388--52606484 Score: 122
Period size: 40 Copynumber: 2.4 Consensus size: 39
52606378 GCTCGATATC
* *
52606388 TCGCACACTAAGTGTCGTACATACCCGAAGCTATCTCAAA
1 TCGCACACTAAGTGCCATACATACCCGAAGCTATCTC-AA
* * * *
52606428 TCGCACACTAAGTGCCATATATAGCCGAAGCTATGTCGA
1 TCGCACACTAAGTGCCATACATACCCGAAGCTATCTCAA
52606467 TACGCACACTAAGTGCCA
1 T-CGCACACTAAGTGCCA
52606485 CCAATAGCTG
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
39 2 0.04
40 48 0.96
ACGTcount: A:0.32, C:0.29, G:0.18, T:0.22
Consensus pattern (39 bp):
TCGCACACTAAGTGCCATACATACCCGAAGCTATCTCAA
Found at i:52617485 original size:34 final size:33
Alignment explanation
Indices: 52617399--52617496 Score: 101
Period size: 34 Copynumber: 3.0 Consensus size: 33
52617389 CTAATTGCAT
* *
52617399 ACTG-TACTAATACTGTAATGGGCTTAGGCCCC
1 ACTGCTACTATTACTGAAATGGGCTTAGGCCCC
* * *
52617431 ACTGGTACTATTACTAAAATGGGCTCT-GGCCCAG
1 ACTGCTACTATTACTGAAATGGGCT-TAGGCCC-C
* *
52617465 ACTGCTACTGTTACTGAAATGGGCTAAGGCCC
1 ACTGCTACTATTACTGAAATGGGCTTAGGCCC
52617497 TAACTGAAAC
Statistics
Matches: 54, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
32 4 0.07
33 22 0.41
34 28 0.52
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.27
Consensus pattern (33 bp):
ACTGCTACTATTACTGAAATGGGCTTAGGCCCC
Found at i:52625005 original size:15 final size:15
Alignment explanation
Indices: 52624985--52625020 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
52624975 AAAAAAAATT
52624985 AAAAAAATTG-AAAG
1 AAAAAAATTGAAAAG
52624999 AAAAAAATTGAAAAG
1 AAAAAAATTGAAAAG
52625014 AAAAAAA
1 AAAAAAA
52625021 AATTGTATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.48
15 11 0.52
ACGTcount: A:0.78, C:0.00, G:0.11, T:0.11
Consensus pattern (15 bp):
AAAAAAATTGAAAAG
Found at i:52626527 original size:22 final size:21
Alignment explanation
Indices: 52626496--52626546 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
52626486 GTCCTTTTGA
52626496 ACCATTACCAATTCATACCAAAT
1 ACCA-TACCAATTCATACC-AAT
* *
52626519 ACCATACCATTTCGTACCAAT
1 ACCATACCAATTCATACCAAT
*
52626540 TCCATAC
1 ACCATAC
52626547 TATTTCGAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 9 0.36
22 12 0.48
23 4 0.16
ACGTcount: A:0.37, C:0.33, G:0.02, T:0.27
Consensus pattern (21 bp):
ACCATACCAATTCATACCAAT
Found at i:52626546 original size:21 final size:21
Alignment explanation
Indices: 52626501--52626563 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
52626491 TTTGAACCAT
* * *
52626501 TACCAATTCATACCAAATACCA
1 TACCATTTCGTACC-AATTCCA
52626523 TACCATTTCGTACCAATTCCA
1 TACCATTTCGTACCAATTCCA
* *
52626544 TACTATTTCGAACCAATTCC
1 TACCATTTCGTACCAATTCC
52626564 CAAATACCAA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
21 24 0.67
22 12 0.33
ACGTcount: A:0.35, C:0.32, G:0.03, T:0.30
Consensus pattern (21 bp):
TACCATTTCGTACCAATTCCA
Found at i:52629492 original size:49 final size:48
Alignment explanation
Indices: 52629435--52629666 Score: 248
Period size: 49 Copynumber: 4.7 Consensus size: 48
52629425 CTGGTACGCA
* *
52629435 TAGTAGCCTGCACTTAGTGCTACACATGCGACCAATTATCCAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTAT-CAGTACACG
* ** ** *
52629484 TAGTAGCCTACACTTAGTACTACACACGTAACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC-AATTATCAG-TACACG
* * * *
52629534 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCA-GTACACG
* * *
52629585 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTAT-CAGTACACG
* *
52629634 TAGTAGCCTACACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC
52629667 TCACAATAGA
Statistics
Matches: 151, Mismatches: 26, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
49 68 0.45
50 45 0.30
51 37 0.25
52 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (48 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCAGTACACG
Found at i:52629663 original size:100 final size:99
Alignment explanation
Indices: 52629435--52629666 Score: 279
Period size: 100 Copynumber: 2.3 Consensus size: 99
52629425 CTGGTACGCA
* * * *
52629435 TAGTAGCCTGCACTTAGTGCTACACATGCGACCAATTATCCAGTACACGTAGTAGCCTACACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCAGTACACATAGTAGCCTACACTTA
* *
52629500 GTACTACACACGTAACCTAACCATCTGATACACG
66 GTACTACACACGCAACCTAACCATCCGATACACG
* * *
52629534 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTAT-CAGGTACGCATAGTAGCCTGCAC
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCCA-GTACACATAGTAGCCTACAC
* * ** * *
52629598 TTAGTACTACACATGCGACC-AATTATCCGGTACATG
63 TTAGTACTACACACGCAACCTAACCATCCGATACACG
*
52629634 TAGTAGCCTACACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
52629667 TCACAATAGA
Statistics
Matches: 113, Mismatches: 17, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
99 29 0.26
100 46 0.41
101 38 0.34
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCAGTACACATAGTAGCCTACACTTA
GTACTACACACGCAACCTAACCATCCGATACACG
Found at i:52634547 original size:49 final size:50
Alignment explanation
Indices: 52634475--52634720 Score: 280
Period size: 49 Copynumber: 4.9 Consensus size: 50
52634465 TAGCCAAAGC
* * * *
52634475 TATCTGGTACGCATAGTAGCCTGCATTTAGTACTACACATGCGA-CTAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCTAAT
* * * *
52634524 TATCTGGTACATGTAGTACCCTGCACTTAGTACTACACACGTGACCTAAC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCTAAT
* ** * * *
52634574 CATCTAATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCTAA-T
* * * *
52634625 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGA-CTAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCTAAT
* * *
52634674 TATCCGGTACACGTAGTAGCCTGAACTTAGTACTACACACGTGACCT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCT
52634721 CACAATAGAT
Statistics
Matches: 163, Mismatches: 31, Indels: 5
0.82 0.16 0.03
Matches are distributed among these distances:
49 76 0.47
50 51 0.31
51 36 0.22
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (50 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCTAAT
Found at i:52634716 original size:100 final size:99
Alignment explanation
Indices: 52634488--52634718 Score: 284
Period size: 100 Copynumber: 2.3 Consensus size: 99
52634478 CTGGTACGCA
* * * * * **
52634488 TAGTAGCCTGCATTTAGTACTACACATGCGACTAATTATCTGGTACATGTAGTACCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACGAATTATCGGGTACACATAGTACCCTGCACTTA
* *
52634553 GTACTACACACGTGACCTAACCATCTAATACACG
66 GTACTACACACGCGACCTAACCATCCAATACACG
* *
52634587 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CGAA-TTATCGGGTACACATAGTACCCTGCACT
* ** **
52634652 TAGTACTACACATGCGA-CTAATTATCCGGTACACG
64 TAGTACTACACACGCGACCTAACCATCCAATACACG
*
52634687 TAGTAGCCTGAACTTAGTACTACACACGTGAC
1 TAGTAGCCTGCACTTAGTACTACACACGTGAC
52634719 CTCACAATAG
Statistics
Matches: 113, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
99 29 0.26
100 46 0.41
101 38 0.34
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACGAATTATCGGGTACACATAGTACCCTGCACTTA
GTACTACACACGCGACCTAACCATCCAATACACG
Found at i:52641609 original size:34 final size:34
Alignment explanation
Indices: 52641571--52641648 Score: 129
Period size: 34 Copynumber: 2.3 Consensus size: 34
52641561 TGGTACTTGC
52641571 ATATATATATTTATGCACATGATCTGTTGGTATG
1 ATATATATATTTATGCACATGATCTGTTGGTATG
* * *
52641605 ATATATATATTTATGCCCATGATGTGTTGGTGTG
1 ATATATATATTTATGCACATGATCTGTTGGTATG
52641639 ATATATATAT
1 ATATATATAT
52641649 GTATATTATC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
34 41 1.00
ACGTcount: A:0.29, C:0.08, G:0.18, T:0.45
Consensus pattern (34 bp):
ATATATATATTTATGCACATGATCTGTTGGTATG
Found at i:52646315 original size:27 final size:26
Alignment explanation
Indices: 52646267--52646398 Score: 156
Period size: 27 Copynumber: 4.9 Consensus size: 26
52646257 GCGAGGCTGC
* * *
52646267 CAGATATTGTGACAAAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
*
52646294 CAGATATTGTGGTAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
52646320 CAGATATATGTGGCAGAGCCACCAGAA
1 CAGATAT-TGTGGCAGAGCCACCAGAA
* *
52646347 CAGATATATGTGCCAGAGCCACCAGAT
1 CAGATAT-TGTGGCAGAGCCACCAGAA
* *
52646374 CAGATAATTGTTGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
52646399 GACGCTTCCT
Statistics
Matches: 93, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
26 8 0.09
27 83 0.89
28 2 0.02
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.20
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:52646740 original size:76 final size:76
Alignment explanation
Indices: 52646648--52646798 Score: 257
Period size: 76 Copynumber: 2.0 Consensus size: 76
52646638 CGCATTTTCT
*
52646648 TACCGACTTGGGCCCGTTGGCCCATTATCCCGTTTTTGGCCCATTAAGCCCCAAAACATCGAAAT
1 TACCGACTTGGGCCCGTTGGCCCATTATCCCGTTTTTGGCCCATTAAGCCCAAAAACATCGAAAT
52646713 GCACGGAATCA
66 GCACGGAATCA
* * * *
52646724 TACCGACTTGGGCCCGTTGGGCTATTATCCCGTTTTTGGCCCATTAAGCCTAAAAATATCGAAAT
1 TACCGACTTGGGCCCGTTGGCCCATTATCCCGTTTTTGGCCCATTAAGCCCAAAAACATCGAAAT
52646789 GCACGGAATC
66 GCACGGAATC
52646799 GCGCACTCTG
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
76 70 1.00
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (76 bp):
TACCGACTTGGGCCCGTTGGCCCATTATCCCGTTTTTGGCCCATTAAGCCCAAAAACATCGAAAT
GCACGGAATCA
Found at i:52648223 original size:148 final size:148
Alignment explanation
Indices: 52647955--52648250 Score: 592
Period size: 148 Copynumber: 2.0 Consensus size: 148
52647945 CTCTCCTTTC
52647955 TCTTCTCTAACTTTCGGCTATGATGAACAATGATGGACAAAACTTTGTTCTTTTCACCCCTTTTT
1 TCTTCTCTAACTTTCGGCTATGATGAACAATGATGGACAAAACTTTGTTCTTTTCACCCCTTTTT
52648020 ATTTTAATAAAATTTCATATTTCATCCATTTAATTCTTTAATACAAAAGACATGAAATGCCCATT
66 ATTTTAATAAAATTTCATATTTCATCCATTTAATTCTTTAATACAAAAGACATGAAATGCCCATT
52648085 ATGGAACATTTACCTAAA
131 ATGGAACATTTACCTAAA
52648103 TCTTCTCTAACTTTCGGCTATGATGAACAATGATGGACAAAACTTTGTTCTTTTCACCCCTTTTT
1 TCTTCTCTAACTTTCGGCTATGATGAACAATGATGGACAAAACTTTGTTCTTTTCACCCCTTTTT
52648168 ATTTTAATAAAATTTCATATTTCATCCATTTAATTCTTTAATACAAAAGACATGAAATGCCCATT
66 ATTTTAATAAAATTTCATATTTCATCCATTTAATTCTTTAATACAAAAGACATGAAATGCCCATT
52648233 ATGGAACATTTACCTAAA
131 ATGGAACATTTACCTAAA
52648251 CCATTATCAT
Statistics
Matches: 148, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
148 148 1.00
ACGTcount: A:0.33, C:0.19, G:0.09, T:0.39
Consensus pattern (148 bp):
TCTTCTCTAACTTTCGGCTATGATGAACAATGATGGACAAAACTTTGTTCTTTTCACCCCTTTTT
ATTTTAATAAAATTTCATATTTCATCCATTTAATTCTTTAATACAAAAGACATGAAATGCCCATT
ATGGAACATTTACCTAAA
Found at i:52648265 original size:26 final size:26
Alignment explanation
Indices: 52648233--52648285 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
52648223 AATGCCCATT
52648233 ATGGAACATTTACCTAAACCATTATC
1 ATGGAACATTTACCTAAACCATTATC
*
52648259 ATGGAACATTTACCTAACCCATTATC
1 ATGGAACATTTACCTAAACCATTATC
52648285 A
1 A
52648286 ATTTGTACCA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.25, G:0.08, T:0.30
Consensus pattern (26 bp):
ATGGAACATTTACCTAAACCATTATC
Found at i:52651926 original size:43 final size:43
Alignment explanation
Indices: 52651861--52652240 Score: 409
Period size: 43 Copynumber: 8.6 Consensus size: 43
52651851 TGGGAAAAAT
* * * * ***
52651861 GCCGCTAAAAGCCATTAATTTTAGCGGCACTTTCTGTACAAAC
1 GCCGCTAAAAGCCATGACTTTTAGCGGCGCTTCCCCAACAAAC
*
52651904 GCCGCTAAAAGCCATGACTTTTAGCGGCGCTTTCCCAACAAAC
1 GCCGCTAAAAGCCATGACTTTTAGCGGCGCTTCCCCAACAAAC
* * *
52651947 GCCGCTAAAAGCCCCTCTAAAAGTCATGCTTTTAGCGGAGCTTCCCTAACAAAC
1 GCCGCTAAAAG---C-C----A-TGA--CTTTTAGCGGCGCTTCCCCAACAAAC
52652001 GCCGCTAAAAGCCATGACTTTTAGCGGCGCTTCCCCAACAAAC
1 GCCGCTAAAAGCCATGACTTTTAGCGGCGCTTCCCCAACAAAC
* * * *
52652044 GCCGCTAAGAGCCGTGACTTTTAGCAGCGCTTACCCAACAAAC
1 GCCGCTAAAAGCCATGACTTTTAGCGGCGCTTCCCCAACAAAC
52652087 GCCGCTAAAAGCCATGACTTTTAGCGGCGCTTCCCCAACAAAC
1 GCCGCTAAAAGCCATGACTTTTAGCGGCGCTTCCCCAACAAAC
* * * *
52652130 GCCGCTAAGAGCCGTGACTTTTAGCAGCGCTTACCCAACAAAC
1 GCCGCTAAAAGCCATGACTTTTAGCGGCGCTTCCCCAACAAAC
* * **** *
52652173 GCCGCTAAAAGCCATGACTTTTAACTGCGCTTTTTTAACAAAG
1 GCCGCTAAAAGCCATGACTTTTAGCGGCGCTTCCCCAACAAAC
* *
52652216 GCCGCTAAAAGTCATGGCTTTTAGC
1 GCCGCTAAAAGCCATGACTTTTAGC
52652241 AGCGATTTTT
Statistics
Matches: 289, Mismatches: 37, Indels: 22
0.83 0.11 0.06
Matches are distributed among these distances:
43 245 0.85
45 2 0.01
46 2 0.01
47 1 0.00
50 1 0.00
51 2 0.01
52 2 0.01
54 34 0.12
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.22
Consensus pattern (43 bp):
GCCGCTAAAAGCCATGACTTTTAGCGGCGCTTCCCCAACAAAC
Found at i:52651998 original size:54 final size:55
Alignment explanation
Indices: 52651908--52652013 Score: 171
Period size: 54 Copynumber: 1.9 Consensus size: 55
52651898 ACAAACGCCG
*
52651908 CTAAAAGCCATGACTTTTAGCGGCGCTTTCCCAACAAACGCCGCTAAAAGCCCCT
1 CTAAAAGCCATGACTTTTAGCGGAGCTTTCCCAACAAACGCCGCTAAAAGCCCCT
*
52651963 CTAAAAGTCATG-CTTTTAGCGGAGC-TTCCCTAACAAACGCCGCTAAAAGCC
1 CTAAAAGCCATGACTTTTAGCGGAGCTTTCCC-AACAAACGCCGCTAAAAGCC
52652014 ATGACTTTTA
Statistics
Matches: 48, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
53 5 0.10
54 32 0.67
55 11 0.23
ACGTcount: A:0.30, C:0.32, G:0.17, T:0.21
Consensus pattern (55 bp):
CTAAAAGCCATGACTTTTAGCGGAGCTTTCCCAACAAACGCCGCTAAAAGCCCCT
Found at i:52656944 original size:6 final size:6
Alignment explanation
Indices: 52656928--52656969 Score: 66
Period size: 6 Copynumber: 7.0 Consensus size: 6
52656918 AGTCCCTTTC
* *
52656928 TTTTTA CTTTTA TTTTTA TTTTTA TTTTTA TTTTTA ATTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
52656970 CCTTTCTGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTTTA
Found at i:52656945 original size:12 final size:12
Alignment explanation
Indices: 52656928--52656989 Score: 61
Period size: 12 Copynumber: 4.9 Consensus size: 12
52656918 AGTCCCTTTC
52656928 TTTTTACTTTTA
1 TTTTTACTTTTA
*
52656940 TTTTTATTTTTA
1 TTTTTACTTTTA
*
52656952 TTTTTATTTTTA
1 TTTTTACTTTTA
* *
52656964 ATTTTACCTTTCTG
1 TTTTTA-CTTT-TA
52656978 TTATTTACTTTT
1 TT-TTTACTTTT
52656990 GAAGACTTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
12 28 0.67
13 4 0.10
14 6 0.14
15 4 0.10
ACGTcount: A:0.16, C:0.08, G:0.02, T:0.74
Consensus pattern (12 bp):
TTTTTACTTTTA
Found at i:52657855 original size:15 final size:16
Alignment explanation
Indices: 52657830--52657859 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
52657820 TAAGAATTTT
52657830 TCCCATTTTTATTAAC
1 TCCCATTTTTATTAAC
52657846 TCCC-TTTTTATTAA
1 TCCCATTTTTATTAA
52657860 GATTTAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.23, C:0.23, G:0.00, T:0.53
Consensus pattern (16 bp):
TCCCATTTTTATTAAC
Found at i:52663111 original size:13 final size:14
Alignment explanation
Indices: 52663095--52663123 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
52663085 TCTGTGCTTA
52663095 TTGTATGTG-GAAT
1 TTGTATGTGTGAAT
52663108 TTGTATGTGTGAAT
1 TTGTATGTGTGAAT
52663122 TT
1 TT
52663124 TCGTGCCTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.21, C:0.00, G:0.28, T:0.52
Consensus pattern (14 bp):
TTGTATGTGTGAAT
Found at i:52665104 original size:43 final size:41
Alignment explanation
Indices: 52665011--52665176 Score: 156
Period size: 43 Copynumber: 3.9 Consensus size: 41
52665001 AATGTGATAT
* ** *
52665011 TCGGGCTTCGGCCTAGCAAGCTTTAA-GCTGGTGAATAATATTA
1 TCGGGCTTCGGCCTAGCAGGCGATAATGCCGGTGAAT-A-A-TA
* *
52665054 TCAGGCTTCTGGCCTAGCAGGCTATAATGCCGGTGAGATAATA
1 TCGGGCTTC-GGCCTAGCAGGCGATAATGCCGGTGA-ATAATA
* *
52665097 TCGGGCTTCGGGCCTAGTAGGCGATAATGCCGGTGAAATGATA
1 TCGGGCTTC-GGCCTAGCAGGCGATAATGCCGGTG-AATAATA
* *
52665140 TCGGGCTTCAAGCCTAGCAGGCGA-AATGCCAGTGAAT
1 TCGGGCTTC-GGCCTAGCAGGCGATAATGCCGGTGAAT
52665177 GAGTTCAAAC
Statistics
Matches: 106, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
41 3 0.03
42 9 0.08
43 67 0.63
44 17 0.16
45 8 0.08
46 2 0.02
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (41 bp):
TCGGGCTTCGGCCTAGCAGGCGATAATGCCGGTGAATAATA
Found at i:52666145 original size:93 final size:93
Alignment explanation
Indices: 52666028--52666228 Score: 377
Period size: 93 Copynumber: 2.2 Consensus size: 93
52666018 AAATCATTAT
**
52666028 AATT-TGTACAAAAAGGGTTATAAGATAAAATTTATATTCTTAGACTCCTTAATGAGTCTAGTTT
1 AATTCTGTACAATGAGGGTTATAAGATAAAATTTATATTCTTAGACTCCTTAATGAGTCTAGTTT
52666092 CAAATGAAATCAATGAGAACATATTTTG
66 CAAATGAAATCAATGAGAACATATTTTG
52666120 AATTCTGTACAATGAGGGTTATAAGATAAAATTTATATTCTTAGACTCCTTAATGAGTCTAGTTT
1 AATTCTGTACAATGAGGGTTATAAGATAAAATTTATATTCTTAGACTCCTTAATGAGTCTAGTTT
52666185 CAAATGAAATCAATGAGAACATATTTTG
66 CAAATGAAATCAATGAGAACATATTTTG
52666213 AATTCTGTACAATGAG
1 AATTCTGTACAATGAG
52666229 AAATTTGATT
Statistics
Matches: 106, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
92 4 0.04
93 102 0.96
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.36
Consensus pattern (93 bp):
AATTCTGTACAATGAGGGTTATAAGATAAAATTTATATTCTTAGACTCCTTAATGAGTCTAGTTT
CAAATGAAATCAATGAGAACATATTTTG
Found at i:52674029 original size:229 final size:229
Alignment explanation
Indices: 52673628--52674085 Score: 907
Period size: 229 Copynumber: 2.0 Consensus size: 229
52673618 CGGTTATTAC
52673628 CGACGATTTGTCAAAGGTTTCTCGATGATAGCCACACCAATGACGAAGCTACTTCAGAAGGATGT
1 CGACGATTTGTCAAAGGTTTCTCGATGATAGCCACACCAATGACGAAGCTACTTCAGAAGGATGT
52673693 TAAGTTCGAATGGACGGAGAAATGTCAGAAAAGCTTCGATCAACTGAAAACTCATTTGACTGAAG
66 TAAGTTCGAATGGACGGAGAAATGTCAGAAAAGCTTCGATCAACTGAAAACTCATTTGACTGAAG
52673758 CTCCAATTTTGGTGCAACCCGAATCGGGTAAAGAGTTTGTCATGTATAGTGACGCATCCCTACTT
131 CTCCAATTTTGGTGCAACCCGAATCGGGTAAAGAGTTTGTCATGTATAGTGACGCATCCCTACTT
52673823 GGGTTGGGTTGCGTATTGATGCAAGAAGGTCGAG
196 GGGTTGGGTTGCGTATTGATGCAAGAAGGTCGAG
52673857 CGACGATTTGTCAAAGGTTTCTCGATGATAGCCACACCAATGACGAAGCTACTTCAGAAGGATGT
1 CGACGATTTGTCAAAGGTTTCTCGATGATAGCCACACCAATGACGAAGCTACTTCAGAAGGATGT
52673922 TAAGTTCGAATGGACGGAGAAATGTCAGAAAAGCTTCGATCAACTGAAAACTCATTTGACTGAAG
66 TAAGTTCGAATGGACGGAGAAATGTCAGAAAAGCTTCGATCAACTGAAAACTCATTTGACTGAAG
52673987 CTCCAATTTTGGTGCAACCCGAATCGGGTAAAGAGTTTGTCATGTATAGTGACGCATCCCTACTT
131 CTCCAATTTTGGTGCAACCCGAATCGGGTAAAGAGTTTGTCATGTATAGTGACGCATCCCTACTT
*
52674052 GGGTTGGGTTGTGTATTGATGCAAGAAGGTCGAG
196 GGGTTGGGTTGCGTATTGATGCAAGAAGGTCGAG
52674086 TTGTGGCCTA
Statistics
Matches: 228, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
229 228 1.00
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (229 bp):
CGACGATTTGTCAAAGGTTTCTCGATGATAGCCACACCAATGACGAAGCTACTTCAGAAGGATGT
TAAGTTCGAATGGACGGAGAAATGTCAGAAAAGCTTCGATCAACTGAAAACTCATTTGACTGAAG
CTCCAATTTTGGTGCAACCCGAATCGGGTAAAGAGTTTGTCATGTATAGTGACGCATCCCTACTT
GGGTTGGGTTGCGTATTGATGCAAGAAGGTCGAG
Found at i:52677756 original size:27 final size:27
Alignment explanation
Indices: 52677725--52677902 Score: 214
Period size: 27 Copynumber: 6.6 Consensus size: 27
52677715 TAAATTGTAC
52677725 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
52677752 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
52677778 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
52677806 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
*
52677834 AGCACTAAGTGTGCGATTTGATTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
52677861 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
52677888 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
52677903 GACTCAATAT
Statistics
Matches: 131, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
27 108 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:52677839 original size:82 final size:81
Alignment explanation
Indices: 52677726--52677881 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
52677716 AAATTGTACA
*
52677726 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTA-GCACTAAGTG
52677790 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
52677807 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTG
*
52677872 TGCGAGTTGA
65 TGCGAATTGA
52677882 TTATATAGCA
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 15 0.22
82 52 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:52677893 original size:82 final size:81
Alignment explanation
Indices: 52677722--52677902 Score: 238
Period size: 82 Copynumber: 2.2 Consensus size: 81
52677712 GATTAAATTG
*
52677722 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
52677787 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
52677803 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGAT-GCACT
* **
52677867 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
52677885 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
52677903 GACTCAATAT
Statistics
Matches: 85, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
81 18 0.21
82 67 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
GTGTGCGAATTGACCA
Found at i:52680861 original size:37 final size:37
Alignment explanation
Indices: 52680811--52680889 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
52680801 TTGTTACGAA
* * *
52680811 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
52680848 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
52680885 GTCTT
1 GTCTT
52680890 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:52681086 original size:47 final size:47
Alignment explanation
Indices: 52681008--52681601 Score: 934
Period size: 47 Copynumber: 12.7 Consensus size: 47
52680998 CCCTTCGGGA
* ** * * * *
52681008 CTTATCACATTTATACACTTTCACAGCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
52681055 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
52681102 CTTATCACATATATACACTTTCAGATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
52681149 CTTATCACATATATACACTTTCAGATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
52681196 CTTATCACATATATACACTTTCAGATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
52681243 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
52681290 CTTATCACATATAT--A--TACAC-TT--TCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
52681330 CTTATCACATATATACACTTTCGCATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
52681377 TTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
52681426 CTTATCACATATATACACTTTCAGATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
52681473 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
52681520 CTTATCACATATATATACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
52681567 CTTATCACATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
52681602 AGAATCCTAA
Statistics
Matches: 512, Mismatches: 25, Indels: 20
0.92 0.04 0.04
Matches are distributed among these distances:
40 32 0.06
42 3 0.01
43 4 0.01
44 3 0.01
45 3 0.01
46 1 0.00
47 421 0.82
49 45 0.09
ACGTcount: A:0.29, C:0.29, G:0.10, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:52681299 original size:22 final size:22
Alignment explanation
Indices: 52681271--52681339 Score: 60
Period size: 22 Copynumber: 3.3 Consensus size: 22
52681261 TTTCACATTC
52681271 ATCACATCGGCCATTAGGCCTT
1 ATCACATCGGCCATTAGGCCTT
**
52681293 ATCACAT-----ATATATACACTT
1 ATCACATCGGCCAT-TAGGC-CTT
52681312 -TCACATCGGCCATTAGGCCTT
1 ATCACATCGGCCATTAGGCCTT
52681333 ATCACAT
1 ATCACAT
52681340 ATATACACTT
Statistics
Matches: 35, Mismatches: 4, Indels: 16
0.64 0.07 0.29
Matches are distributed among these distances:
17 2 0.06
18 9 0.26
19 3 0.09
21 3 0.09
22 16 0.46
23 2 0.06
ACGTcount: A:0.29, C:0.29, G:0.12, T:0.30
Consensus pattern (22 bp):
ATCACATCGGCCATTAGGCCTT
Found at i:52681551 original size:277 final size:275
Alignment explanation
Indices: 52681059--52681580 Score: 981
Period size: 277 Copynumber: 1.9 Consensus size: 275
52681049 CTCGGCCCTG
52681059 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTC
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTC
*
52681124 AGATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCAGATTCATCACATCGGCC
66 ACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCAGATTCATCACATCGGCC
*
52681189 ATTAGGCCTTATCACATATATACACTTTCAGATTCATCACATCGGCCATTAGGCCTTATCACATA
131 ATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
52681254 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATC
196 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATC
52681319 GGCCATTAGGCCTTA
261 GGCCATTAGGCCTTA
* *
52681334 TCACATATATACACTTTCGCATTCATCACATCGGCCATTAGGCTTTATCACATATATATACACTT
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTT
52681399 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCAGATTCATCACATCGG
64 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCAGATTCATCACATCGG
52681464 CCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
129 CCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
*
52681529 TATATATACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
194 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
52681581 GCATGTTCAC
Statistics
Matches: 240, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
275 49 0.20
277 191 0.80
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.33
Consensus pattern (275 bp):
TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTC
ACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCAGATTCATCACATCGGCC
ATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATC
GGCCATTAGGCCTTA
Found at i:52685506 original size:40 final size:40
Alignment explanation
Indices: 52685461--52685652 Score: 267
Period size: 40 Copynumber: 4.8 Consensus size: 40
52685451 ACCAGATGAT
* * * *
52685461 TGCTCTTCGGGACCTAGCCCAGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
** * *
52685501 TGCTCTTCGGGGTTTAGCACGGATATATCTCTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * * *
52685541 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGAACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
52685581 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
52685621 TGCTCTTCGGGACTTAGCCCGGATATATCACT
1 TGCTCTTCGGGACTTAGCCCGGATATATCACT
52685653 CTCAATTCTC
Statistics
Matches: 130, Mismatches: 22, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 130 1.00
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:52693317 original size:46 final size:45
Alignment explanation
Indices: 52693200--52693365 Score: 194
Period size: 46 Copynumber: 3.6 Consensus size: 45
52693190 GTAACCATGT
* *
52693200 CGATGCATGTCCCACACATGTCTTACACTAGC-ACATCTCGTAGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCAACATCTCGAAGC
* * *
52693244 CGACGCATGT-CCAGACATGTCTGACACTGGCTAACATCTCGAAGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGC-AACATCTCGAAGC
* * *
52693289 CAATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTC-AATGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCA-ACATCTCGAA-GC
52693335 CGATGCCATGTCCCAGACATGGTCTTACACT
1 CGATG-CATGTCCCAGACAT-GTCTTACACT
52693366 GGCTTTCATT
Statistics
Matches: 103, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
43 18 0.17
44 9 0.09
45 22 0.21
46 30 0.29
47 14 0.14
48 10 0.10
ACGTcount: A:0.25, C:0.33, G:0.18, T:0.24
Consensus pattern (45 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCAACATCTCGAAGC
Found at i:52693392 original size:47 final size:46
Alignment explanation
Indices: 52693200--52693414 Score: 178
Period size: 46 Copynumber: 4.7 Consensus size: 46
52693190 GTAACCATGT
* * *
52693200 CGATGCATGTCCCACACATGTCTTACACTAGCA--CATCTC-GTAGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCAAT-GC
* * *
52693244 CGACGCATGT-CCAGACATGTCTGACACTGGCTA-ACATCTCGAA-GC
1 CGATGCATGTCCCAGACATGTCTTACACTGGC-ACTCATCTC-AATGC
* * *
52693289 CAATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAATGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCAATGC
** *
52693335 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTTTCAT-T-ATGTGGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCACTCATCTCA-AT-GC
*
52693383 CGATGCATGT-CCAGAACATGTCTAACACTGGC
1 CGATGCATGTCCCAG-ACATGTCTTACACTGGC
52693415 GCACATATCT
Statistics
Matches: 141, Mismatches: 18, Indels: 22
0.78 0.10 0.12
Matches are distributed among these distances:
43 18 0.13
44 10 0.07
45 19 0.13
46 47 0.33
47 25 0.18
48 22 0.16
ACGTcount: A:0.25, C:0.31, G:0.20, T:0.25
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCAATGC
Found at i:52711312 original size:27 final size:27
Alignment explanation
Indices: 52711272--52711383 Score: 138
Period size: 27 Copynumber: 4.1 Consensus size: 27
52711262 AGGAAGCGTC
*
52711272 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
52711299 CTGGTGGCTCTGCCACATATT-TCTGTT
1 CTGGTGGCTCTGCCACA-ATTATCTGAT
*
52711326 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* * *
52711354 CTGGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGAT
52711380 CTGG
1 CTGG
52711384 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
26 8 0.11
27 49 0.65
28 18 0.24
ACGTcount: A:0.15, C:0.24, G:0.23, T:0.38
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:52711378 original size:54 final size:54
Alignment explanation
Indices: 52711272--52711383 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
52711262 AGGAAGCGTC
* *
52711272 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATTTCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
* * *
52711326 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
52711380 CTGG
1 CTGG
52711384 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.15, C:0.24, G:0.23, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:52716943 original size:16 final size:16
Alignment explanation
Indices: 52716922--52716954 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
52716912 AACCCTGTAA
52716922 CACCCCTTACCCATAT
1 CACCCCTTACCCATAT
*
52716938 CACCCCTTACCCGTAT
1 CACCCCTTACCCATAT
52716954 C
1 C
52716955 CAAGGCCGGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.21, C:0.52, G:0.03, T:0.24
Consensus pattern (16 bp):
CACCCCTTACCCATAT
Found at i:52718435 original size:49 final size:49
Alignment explanation
Indices: 52718371--52718558 Score: 259
Period size: 49 Copynumber: 3.8 Consensus size: 49
52718361 TAGACAAGGC
*
52718371 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* * * * * *
52718420 TATCCGGTACACATAGTAGTCTGTACTTAGTACTACACACGTGATCGAAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-T
* **
52718471 TATCGGGTATGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
*
52718520 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACA
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACA
52718559 CGTGACCTCA
Statistics
Matches: 118, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
49 74 0.63
50 6 0.05
51 38 0.32
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
Found at i:52718554 original size:100 final size:100
Alignment explanation
Indices: 52718371--52718563 Score: 332
Period size: 100 Copynumber: 1.9 Consensus size: 100
52718361 TAGACAAGGC
*
52718371 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACATAG
1 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACATAG
* *
52718436 TAGTCTGTACTTAGTACTACACACGTGATCGAAGT
66 TAGCCTGCACTTAGTACTACACACGTGATCGAAGT
* * *
52718471 TATCGGGTATGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGGTACACGTAG
1 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACATAG
52718536 TAGCCTGCACTTAGTACTACACACGTGA
66 TAGCCTGCACTTAGTACTACACACGTGA
52718564 CCTCACAATA
Statistics
Matches: 87, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
100 87 1.00
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.27
Consensus pattern (100 bp):
TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACATAG
TAGCCTGCACTTAGTACTACACACGTGATCGAAGT
Found at i:52718843 original size:27 final size:27
Alignment explanation
Indices: 52718813--52718866 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
52718803 TCATACAACC
* *
52718813 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
52718840 CATGTAACAATAATTTTCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
52718867 TCACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.06, T:0.41
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:52723970 original size:49 final size:49
Alignment explanation
Indices: 52723903--52724031 Score: 143
Period size: 49 Copynumber: 2.6 Consensus size: 49
52723893 ATCAAAGTCG
* *
52723903 ATGCCATGTCCTAGACAGGTCTTACACTGACTTTCATATATCGAG-GCCA
1 ATGCCATGTCCTAAACAGGTCTTACACTGACTCTCATATATCG-GTGCCA
*** * * * * *
52723952 ATGTTGTGTCCTAAACAGGTCTCACACTGGCTCTCATCTATCGGTGTCG
1 ATGCCATGTCCTAAACAGGTCTTACACTGACTCTCATATATCGGTGCCA
*
52724001 ATGCCATGTCCCAAACAGGTCTTACACTGAC
1 ATGCCATGTCCTAAACAGGTCTTACACTGAC
52724032 ATACAACAAG
Statistics
Matches: 63, Mismatches: 16, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
48 1 0.02
49 62 0.98
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (49 bp):
ATGCCATGTCCTAAACAGGTCTTACACTGACTCTCATATATCGGTGCCA
Found at i:52728238 original size:56 final size:56
Alignment explanation
Indices: 52728152--52728271 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
52728142 ACAAGGGATG
52728152 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
52728208 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
52728264 ATGGGCAA
1 ATGGGCAA
52728272 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:52729416 original size:12 final size:12
Alignment explanation
Indices: 52729399--52729427 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
52729389 TGGTGACCAT
52729399 ATCCGGACTAAG
1 ATCCGGACTAAG
52729411 ATCCGGACTAAG
1 ATCCGGACTAAG
52729423 ATCCG
1 ATCCG
52729428 AAGGCATTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.31, C:0.28, G:0.24, T:0.17
Consensus pattern (12 bp):
ATCCGGACTAAG
Found at i:52729462 original size:40 final size:39
Alignment explanation
Indices: 52729411--52729516 Score: 142
Period size: 39 Copynumber: 2.7 Consensus size: 39
52729401 CCGGACTAAG
*
52729411 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTA-
1 ATCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAT
*
52729450 ATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAT
1 A-TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAT
* *
52729490 AACCGGGCTATGTCCCGAAGGCATTTG
1 ATCCGGGCTAAGT-CCGAAGGCATTTG
52729517 AATGAGTAGC
Statistics
Matches: 59, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
39 35 0.59
40 24 0.41
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
ATCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAT
Found at i:52729473 original size:39 final size:40
Alignment explanation
Indices: 52729425--52729516 Score: 143
Period size: 39 Copynumber: 2.3 Consensus size: 40
52729415 GGACTAAGAT
*
52729425 CCGAAGGCATTTGTGCGAGTTACTA-ATTCCGGGCTAAG-C
1 CCGAAGGCATTTGTGCGAGTTACTATA-ACCGGGCTAAGTC
*
52729464 CCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTC
52729504 CCGAAGGCATTTG
1 CCGAAGGCATTTG
52729517 AATGAGTAGC
Statistics
Matches: 49, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
39 34 0.69
40 15 0.31
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTC
Found at i:52734125 original size:328 final size:328
Alignment explanation
Indices: 52733528--52734181 Score: 1191
Period size: 328 Copynumber: 2.0 Consensus size: 328
52733518 TTTTTCCAGA
*
52733528 CAAGCTGTCAGTCTGCGTACTAGTCGCTTTAAAAATCATATCTTGAGCTCTGGAACTCAAAATCC
1 CAAGCTGTCAATCTGCGTACTAGTCGCTTTAAAAATCATATCTTGAGCTCTGGAACTCAAAATCC
*
52733593 AGTTCTGTGAATTTTCCCTGAAACTAGACTCATATTCCCATCTACATATCTTTTTCTAGAATTTT
66 AGTTCCGTGAATTTTCCCTGAAACTAGACTCATATTCCCATCTACATATCTTTTTCTAGAATTTT
52733658 TGGTCGGGCCAATTAGTACAGTTTATTAGTCAAAGTATCCCATGTTACTGGGGTCGACTACACTG
131 TGGTCGGGCCAATTAGTACAGTTTATTAGTCAAAGTATCCCATGTTACTGGGGTCGACTACACTG
*
52733723 ACCTTTGCGCATTACGACCTGGATATCTCCCTGTACAGAACTTCCATACTGATGCCGTTTGTTAC
196 ACCTTTGCGCATTACGACCCGGATATCTCCCTGTACAGAACTTCCATACTGATGCCGTTTGTTAC
* * *
52733788 TATAGAAACTAGACTCAGAGAGGAATCTATACATATATGGTATGACTCCTAATTATCTCTGGTTA
261 TATAGAAACTAGACTCAGAGAGAAATCTATACATATATGGTATGACTCCTAACTATATCTGGTTA
52733853 ACT
326 ACT
*
52733856 CAAGCTGTCAATCTGCGTACTAGTCGCTTTAAAAATCATATCTTGAGCTCTGGAACTCAAAATTC
1 CAAGCTGTCAATCTGCGTACTAGTCGCTTTAAAAATCATATCTTGAGCTCTGGAACTCAAAATCC
*
52733921 AGTTCCGTGAATTTTCCCTGAAACTAGACTCATATTCCCATCTACATATTTTTTTCTAGAATTTT
66 AGTTCCGTGAATTTTCCCTGAAACTAGACTCATATTCCCATCTACATATCTTTTTCTAGAATTTT
*
52733986 TGGTCGGGCCAATTAGTACAGTTTATTAGTCAAAGTCTCCCATGTTACTGGGGTCGACTACACTG
131 TGGTCGGGCCAATTAGTACAGTTTATTAGTCAAAGTATCCCATGTTACTGGGGTCGACTACACTG
* * *
52734051 ACCTTTGCGCATTACGACCCGGATATCTCCCTGTACAGAACTTTCATACTGATGTCGTTTGTTTC
196 ACCTTTGCGCATTACGACCCGGATATCTCCCTGTACAGAACTTCCATACTGATGCCGTTTGTTAC
*
52734116 TATAGAAACTAGACTCAGAGAGAAATCTATACATATATGTTATGACTCCTAACTATATCTGGTTA
261 TATAGAAACTAGACTCAGAGAGAAATCTATACATATATGGTATGACTCCTAACTATATCTGGTTA
52734181 A
326 A
52734182 TTTATAATGA
Statistics
Matches: 313, Mismatches: 13, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
328 313 1.00
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.34
Consensus pattern (328 bp):
CAAGCTGTCAATCTGCGTACTAGTCGCTTTAAAAATCATATCTTGAGCTCTGGAACTCAAAATCC
AGTTCCGTGAATTTTCCCTGAAACTAGACTCATATTCCCATCTACATATCTTTTTCTAGAATTTT
TGGTCGGGCCAATTAGTACAGTTTATTAGTCAAAGTATCCCATGTTACTGGGGTCGACTACACTG
ACCTTTGCGCATTACGACCCGGATATCTCCCTGTACAGAACTTCCATACTGATGCCGTTTGTTAC
TATAGAAACTAGACTCAGAGAGAAATCTATACATATATGGTATGACTCCTAACTATATCTGGTTA
ACT
Found at i:52735269 original size:76 final size:74
Alignment explanation
Indices: 52735180--52735321 Score: 205
Period size: 76 Copynumber: 1.9 Consensus size: 74
52735170 GCAATACACT
* * *
52735180 ACCATCCATTAATAACATTATCACAAGAGGAAACAAAATGGAACGAGGCT-AGTTACTCCATCCA
1 ACCATCCATTAATAAAATTATCACAACAGGAAAC--AATGAAACGAGGCTAAG-TACTCCATCCA
52735244 TACCGATCCACA
63 TACCGATCCACA
* *
52735256 ACCATCCATTAATAAAATTATCACAACAGGAAACAATGAAATGAGGTTAAGTACTCCATCCATAC
1 ACCATCCATTAATAAAATTATCACAACAGGAAACAATGAAACGAGGCTAAGTACTCCATCCATAC
52735321 C
66 C
52735322 AAACTATACC
Statistics
Matches: 60, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
74 26 0.43
75 2 0.03
76 32 0.53
ACGTcount: A:0.42, C:0.25, G:0.12, T:0.21
Consensus pattern (74 bp):
ACCATCCATTAATAAAATTATCACAACAGGAAACAATGAAACGAGGCTAAGTACTCCATCCATAC
CGATCCACA
Found at i:52735700 original size:28 final size:28
Alignment explanation
Indices: 52735634--52735867 Score: 337
Period size: 28 Copynumber: 8.4 Consensus size: 28
52735624 ATATTAAGTC
* * *
52735634 CGCACACTCAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTACATAATCAAACT
*
52735661 CGCACACCTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
52735689 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
52735717 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
52735745 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
52735773 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
* *
52735801 CGCACACTTAGTGCTACATAGTC-AATT
1 CGCACACTTAGTGCTACATAATCAAACT
* * * *
52735828 CGCACACTTAGTGCTGCACAATTTAAACC
1 CGCACACTTAGTGCTACATAA-TCAAACT
52735857 CGCACACTTAG
1 CGCACACTTAG
52735868 CGCCAATCTC
Statistics
Matches: 187, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
27 41 0.22
28 133 0.71
29 13 0.07
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.25
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:52737629 original size:48 final size:48
Alignment explanation
Indices: 52737535--52737638 Score: 122
Period size: 48 Copynumber: 2.2 Consensus size: 48
52737525 TGTGCTAAGC
* * *
52737535 GTAAGACCTATCTGGGATAGGCATCGACACAGCCCAGTGAGTGCTAGT
1 GTAAGACCTATCTGGGATAGGCATCAACACAGCCCAGAGAGAGCTAGT
**
52737583 GTAAGACCTATC-GGGAATAGGCATCAACAC-GGGCAGAGCAGAGCTAGT
1 GTAAGACCTATCTGGG-ATAGGCATCAACACAGCCCAGAG-AGAGCTAGT
*
52737631 ATAAGACC
1 GTAAGACC
52737639 ATAGTAGGAC
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
47 8 0.17
48 40 0.83
ACGTcount: A:0.32, C:0.22, G:0.29, T:0.17
Consensus pattern (48 bp):
GTAAGACCTATCTGGGATAGGCATCAACACAGCCCAGAGAGAGCTAGT
Found at i:52740153 original size:38 final size:38
Alignment explanation
Indices: 52740092--52740192 Score: 148
Period size: 38 Copynumber: 2.6 Consensus size: 38
52740082 ATTTGATGTG
*
52740092 TATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGTAAAA
1 TATCCGGG-TTAAA-TCCCGCAGGCTTCGTGCTGGTAAAA
**
52740132 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAAA
*
52740170 TATCCGGGATAAATCCCGCAGGC
1 TATCCGGGTTAAATCCCGCAGGC
52740193 CTAGTACTGG
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
38 44 0.77
39 5 0.09
40 8 0.14
ACGTcount: A:0.23, C:0.26, G:0.27, T:0.25
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAAA
Found at i:52740203 original size:38 final size:38
Alignment explanation
Indices: 52740108--52740215 Score: 153
Period size: 38 Copynumber: 2.8 Consensus size: 38
52740098 GGCTTAAAGA
** *
52740108 CCCGCAGGCTTCGTGCTGGTAAAATATCCGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTATTATATCCGGGATAAAT
52740146 CCCGCAGGCTTCGTGCTGGTATTATATCCGGGATAAAT
1 CCCGCAGGCTTCGTGCTGGTATTATATCCGGGATAAAT
* * * *
52740184 CCCGCAGGCCTAGTACTGGTATTATATTCGGG
1 CCCGCAGGCTTCGTGCTGGTATTATATCCGGG
52740216 CCTTCGTGCC
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 63 1.00
ACGTcount: A:0.21, C:0.24, G:0.27, T:0.28
Consensus pattern (38 bp):
CCCGCAGGCTTCGTGCTGGTATTATATCCGGGATAAAT
Found at i:52740375 original size:43 final size:43
Alignment explanation
Indices: 52740208--52740362 Score: 265
Period size: 43 Copynumber: 3.6 Consensus size: 43
52740198 ACTGGTATTA
*
52740208 TATTCGGGCCTTCGTGCCTAGTAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* *
52740251 TATTCAGGCCTTCGTGCATAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* *
52740294 TATTCGGGCCTTCGTGCCTAGTAGGCTTCGTGCTGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
52740337 TATTCGGGCCTTCGTGCCTAGCAGGC
1 TATTCGGGCCTTCGTGCCTAGCAGGC
52740363 GTAATGCCGG
Statistics
Matches: 104, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 104 1.00
ACGTcount: A:0.11, C:0.24, G:0.34, T:0.32
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:52742676 original size:30 final size:30
Alignment explanation
Indices: 52742619--52742677 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
52742609 ACATGGGTAC
* * *
52742619 GGGACACGGCCGTGTGTCTTGGCCATGTGA
1 GGGACACGGCCGTGGGACATGGCCATGTGA
* *
52742649 GGGACACGGCCTTGGGACATGGGCATGTG
1 GGGACACGGCCGTGGGACATGGCCATGTG
52742678 CCCTGGCCAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.15, C:0.22, G:0.42, T:0.20
Consensus pattern (30 bp):
GGGACACGGCCGTGGGACATGGCCATGTGA
Found at i:52744584 original size:23 final size:23
Alignment explanation
Indices: 52744556--52744611 Score: 103
Period size: 23 Copynumber: 2.4 Consensus size: 23
52744546 CATCCATCCT
52744556 CTACACTCCAACTCCATCGAACC
1 CTACACTCCAACTCCATCGAACC
*
52744579 CTACACTCCAACTCCGTCGAACC
1 CTACACTCCAACTCCATCGAACC
52744602 CTACACTCCA
1 CTACACTCCA
52744612 TGTGGGAATA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.29, C:0.48, G:0.05, T:0.18
Consensus pattern (23 bp):
CTACACTCCAACTCCATCGAACC
Found at i:52753317 original size:28 final size:27
Alignment explanation
Indices: 52753275--52753330 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 27
52753265 CAAGTCTGCA
*
52753275 TAAGATTTCTGACTATCGGAAGCTACTT
1 TAAGATTTCTAACTATCGG-AGCTACTT
52753303 TAAGATTTCTAACTATCGGAGCTACTT
1 TAAGATTTCTAACTATCGGAGCTACTT
52753330 T
1 T
52753331 CAAACTATCT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
27 9 0.33
28 18 0.67
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.38
Consensus pattern (27 bp):
TAAGATTTCTAACTATCGGAGCTACTT
Found at i:52756307 original size:40 final size:40
Alignment explanation
Indices: 52756248--52756428 Score: 231
Period size: 40 Copynumber: 4.5 Consensus size: 40
52756238 TATTCGGATG
* **
52756248 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCCAGTTCCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
**
52756288 ATGCCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
**
52756328 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * * *
52756368 ATAACCGGGCTAAGACCCGAAGGCATTTGCGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
52756408 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
52756429 ATACTTGGGT
Statistics
Matches: 122, Mismatches: 18, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
39 13 0.11
40 107 0.88
41 2 0.02
ACGTcount: A:0.24, C:0.26, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:52762439 original size:17 final size:17
Alignment explanation
Indices: 52762417--52762454 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
52762407 TTTCTCTGTG
52762417 ATTTGCCACAACATTTT
1 ATTTGCCACAACATTTT
* *
52762434 ATTTGCCATATCATTTT
1 ATTTGCCACAACATTTT
52762451 -TTTG
1 ATTTG
52762455 TTTTTAGCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.24, C:0.18, G:0.08, T:0.50
Consensus pattern (17 bp):
ATTTGCCACAACATTTT
Found at i:52785609 original size:33 final size:33
Alignment explanation
Indices: 52785572--52785636 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
52785562 TATTTTCTCC
52785572 ATAGCCGAATCCTTCTACCACTCTTCCCTACAT
1 ATAGCCGAATCCTTCTACCACTCTTCCCTACAT
* *
52785605 ATAGCCGAATCCTTCTACTACTCTTGCCTACA
1 ATAGCCGAATCCTTCTACCACTCTTCCCTACA
52785637 CCACTTCCTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.37, G:0.08, T:0.31
Consensus pattern (33 bp):
ATAGCCGAATCCTTCTACCACTCTTCCCTACAT
Found at i:52786366 original size:43 final size:42
Alignment explanation
Indices: 52786305--52786389 Score: 152
Period size: 43 Copynumber: 2.0 Consensus size: 42
52786295 AGTTCGTGTG
52786305 TGGATCTCGTCAGCATATCGTCCAAACAGGTGTGTAACTGACA
1 TGGATCTCGTCAGCATATCGTCCAAACAGGTGTGT-ACTGACA
*
52786348 TGGATCTCGTCAGCATATCGTCCAAAGAGGTGTGTACTGACA
1 TGGATCTCGTCAGCATATCGTCCAAACAGGTGTGTACTGACA
52786390 CTCTTTCATA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
42 7 0.17
43 34 0.83
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.26
Consensus pattern (42 bp):
TGGATCTCGTCAGCATATCGTCCAAACAGGTGTGTACTGACA
Found at i:52787209 original size:26 final size:26
Alignment explanation
Indices: 52787180--52787233 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
52787170 TGGGCTTGAG
*
52787180 CTGACTTGGGCTTTGGATGGATTTTC
1 CTGACTTAGGCTTTGGATGGATTTTC
52787206 CTGACTTAGGCTTTGGATGGATTTTC
1 CTGACTTAGGCTTTGGATGGATTTTC
52787232 CT
1 CT
52787234 TACACACTGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.13, C:0.17, G:0.28, T:0.43
Consensus pattern (26 bp):
CTGACTTAGGCTTTGGATGGATTTTC
Found at i:52791496 original size:55 final size:54
Alignment explanation
Indices: 52791357--52791563 Score: 218
Period size: 53 Copynumber: 3.8 Consensus size: 54
52791347 TTCCTTTTTA
* * * * *
52791357 AACTTACCATTTCCATGTCTTCACATGGTCTTACGTGGTATCCTTGCCTTATA-
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * * * * *
52791410 AACTCACCATTGCCACGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATAG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
** * * * * *
52791464 TAGTTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAG
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* *
52791519 AACTTACCAATGCCATGCCTTGGCATGGTCTTACAAGGTATCCTT
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
52791564 AAACCCTAAT
Statistics
Matches: 122, Mismatches: 30, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
53 44 0.36
54 37 0.30
55 41 0.34
ACGTcount: A:0.21, C:0.25, G:0.17, T:0.36
Consensus pattern (54 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
Found at i:52797871 original size:40 final size:40
Alignment explanation
Indices: 52797768--52797990 Score: 335
Period size: 40 Copynumber: 5.6 Consensus size: 40
52797758 CGGATGATAA
* *
52797768 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
52797808 CCGGGCTAAG-CCCGAAGGCATTTGTCCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
52797847 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
52797887 CTGGGCTAAGTCCCGAAGGCATTTGTGCCAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
52797927 CCGGGC-AAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
52797966 CCGGGCTAAGTCCCAAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
52797991 AGCAAGTAGC
Statistics
Matches: 168, Mismatches: 12, Indels: 6
0.90 0.06 0.03
Matches are distributed among these distances:
39 70 0.42
40 98 0.58
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:52797937 original size:79 final size:80
Alignment explanation
Indices: 52797768--52797990 Score: 346
Period size: 79 Copynumber: 2.8 Consensus size: 80
52797758 CGGATGATAA
* * *
52797768 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAG-CCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-ACCGGGCTAAGTCCCGAAGGCATTT
52797831 GTCCGAGTTACTATAT
65 GTCCGAGTTACTATAT
* *
52797847 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACTGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
52797912 TGCC-AGTTACTATAT
66 T-CCGAGTTACTATAT
*
52797927 CCGGGC-AAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCAAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
52797991 AGCAAGTAGC
Statistics
Matches: 133, Mismatches: 8, Indels: 6
0.90 0.05 0.04
Matches are distributed among these distances:
79 99 0.74
80 32 0.24
81 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
TCCGAGTTACTATAT
Found at i:52797975 original size:119 final size:119
Alignment explanation
Indices: 52797764--52797990 Score: 359
Period size: 119 Copynumber: 1.9 Consensus size: 119
52797754 TATTCGGATG
*
52797764 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCAT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCCAGTGACTAATTCCGGGCTAAGCCCGAAGGCAT
* * *
52797829 TTGTCCGAGTTACTATATCTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
66 TTGTCCGAGTTACTATAACCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACT
* *
52797883 ATAACTGGGCTAAGTCCCGAAGGCATTTGTGCCAGTTACT-ATATCCGGGC-AAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCCAGTGACTAAT-TCCGGGCTAAG-CCCGAAGGC
*
52797946 ATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCAAAGGCATTTG
64 ATTTGTCCGAGTTACTATAACCGGGCTAAGTCCCAAAGGCATTTG
52797991 AGCAAGTAGC
Statistics
Matches: 99, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
118 5 0.05
119 94 0.95
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (119 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCCAGTGACTAATTCCGGGCTAAGCCCGAAGGCAT
TTGTCCGAGTTACTATAACCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACT
Found at i:52798981 original size:45 final size:45
Alignment explanation
Indices: 52798901--52798990 Score: 135
Period size: 45 Copynumber: 2.0 Consensus size: 45
52798891 CGTGAAACAG
*
52798901 GGAAAGAGCGATTTCTGGATCCCCTAATCTAACTTTAGAAATTCA
1 GGAAAGAGCGATTTCTGGATCCCCTAATCCAACTTTAGAAATTCA
** * *
52798946 GGAAAGAGCGATTTCTGGATCCCCTGTTCCGACTTTTGAAATTCA
1 GGAAAGAGCGATTTCTGGATCCCCTAATCCAACTTTAGAAATTCA
52798991 CTATAAATTA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (45 bp):
GGAAAGAGCGATTTCTGGATCCCCTAATCCAACTTTAGAAATTCA
Found at i:52806859 original size:21 final size:20
Alignment explanation
Indices: 52806835--52806873 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
52806825 GAAACTGACT
*
52806835 CATTAGAATTGAAATTGAAAC
1 CATTA-AATTGAAAATGAAAC
*
52806856 CATTATATTGAAAATGAA
1 CATTAAATTGAAAATGAA
52806874 TCTACAATCT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.49, C:0.08, G:0.13, T:0.31
Consensus pattern (20 bp):
CATTAAATTGAAAATGAAAC
Done.