Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008243.1 Hibiscus syriacus cultivar Beakdansim tig00110893_pilon, whole genome shotgun sequence
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: 10265705
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 31 of 49
Found at i:6526919 original size:12 final size:10
Alignment explanation
Indices: 6526905--6526945 Score: 57
Period size: 10 Copynumber: 4.1 Consensus size: 10
6526895 ACCTTAAAAA
*
6526905 GAGAGTATTT
1 GAGAGAATTT
6526915 GAGAGAAATTT
1 GAGAG-AATTT
6526926 -AGAGAATTT
1 GAGAGAATTT
6526935 GAGAGAATTT
1 GAGAGAATTT
6526945 G
1 G
6526946 GTGTGATAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 5 0.18
10 19 0.68
11 4 0.14
ACGTcount: A:0.39, C:0.00, G:0.29, T:0.32
Consensus pattern (10 bp):
GAGAGAATTT
Found at i:6527096 original size:50 final size:47
Alignment explanation
Indices: 6527041--6527153 Score: 122
Period size: 50 Copynumber: 2.3 Consensus size: 47
6527031 CTGCACCGCG
6527041 CTATACCCCACGTGTCAGAT-ATCCATGTATAGCGC-GGATCAGGGGGCGCA
1 CTATA-CCCACGTGTCAGATCAT-C--GTATAGCGCGGGA-CAGGGGGCGCA
* *
6527091 CTATACCCACGTGACGTCAGATCATCGTATATCGCGGGACAGGGGGCGCG
1 CTATACCCACGT---GTCAGATCATCGTATAGCGCGGGACAGGGGGCGCA
6527141 CTATACCCACGTG
1 CTATACCCACGTG
6527154 GCGCCAAATC
Statistics
Matches: 56, Mismatches: 2, Indels: 13
0.79 0.03 0.18
Matches are distributed among these distances:
47 1 0.02
49 7 0.12
50 35 0.62
51 3 0.05
52 8 0.14
53 2 0.04
ACGTcount: A:0.23, C:0.29, G:0.28, T:0.19
Consensus pattern (47 bp):
CTATACCCACGTGTCAGATCATCGTATAGCGCGGGACAGGGGGCGCA
Found at i:6527185 original size:50 final size:49
Alignment explanation
Indices: 6527067--6527170 Score: 131
Period size: 50 Copynumber: 2.1 Consensus size: 49
6527057 AGATATCCAT
* * *
6527067 GTATAGCGC-GGATCAGGGGGCGCACTATACCCACGTGACGTCAGATCATC
1 GTATATCGCGGGA-CAGGGGGCGCACTATACCCACGTGACGCCAAATCA-C
* *
6527117 GTATATCGCGGGACAGGGGGCGCGCTATACCCACGTGGCGCCAAATCA-
1 GTATATCGCGGGACAGGGGGCGCACTATACCCACGTGACGCCAAATCAC
6527165 GTATAT
1 GTATAT
6527171 AACGCGATGC
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
48 6 0.12
50 39 0.81
51 3 0.06
ACGTcount: A:0.24, C:0.27, G:0.31, T:0.18
Consensus pattern (49 bp):
GTATATCGCGGGACAGGGGGCGCACTATACCCACGTGACGCCAAATCAC
Found at i:6535391 original size:30 final size:30
Alignment explanation
Indices: 6535322--6535396 Score: 100
Period size: 29 Copynumber: 2.5 Consensus size: 30
6535312 ATTTAACTTT
*
6535322 TCGGTCAAAGTCAACGGTCAACGGTTAGAC
1 TCGGTCAAAGTCAACGGTCAACAGTTAGAC
* *
6535352 -CGATCAAAGTCAACTGTCAACCAGTT-GAC
1 TCGGTCAAAGTCAACGGTCAA-CAGTTAGAC
6535381 TCGGTCAAAGTCAACG
1 TCGGTCAAAGTCAACG
6535397 TGTTGACCCA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
29 21 0.55
30 17 0.45
ACGTcount: A:0.32, C:0.25, G:0.23, T:0.20
Consensus pattern (30 bp):
TCGGTCAAAGTCAACGGTCAACAGTTAGAC
Found at i:6540821 original size:23 final size:23
Alignment explanation
Indices: 6540787--6540846 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 23
6540777 CCAAAGAACC
* *
6540787 ACATAGATTTGTCCCGAATGACA
1 ACATAGAATTGTCCCAAATGACA
** *
6540810 ATGTAGAATTGTCCCAAATGACC
1 ACATAGAATTGTCCCAAATGACA
6540833 ACATAGAATTGTCC
1 ACATAGAATTGTCC
6540847 AGAAGGACCG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.27
Consensus pattern (23 bp):
ACATAGAATTGTCCCAAATGACA
Found at i:6540855 original size:23 final size:23
Alignment explanation
Indices: 6540784--6540855 Score: 74
Period size: 23 Copynumber: 3.1 Consensus size: 23
6540774 AGACCAAAGA
* *
6540784 ACCACATAGATTTGTCCCGAATG
1 ACCACATAGAATTGTCCAGAATG
* **
6540807 ACAATGTAGAATTGTCCCA-AATG
1 ACCACATAGAATTGT-CCAGAATG
*
6540830 ACCACATAGAATTGTCCAGAAGG
1 ACCACATAGAATTGTCCAGAATG
6540853 ACC
1 ACC
6540856 GCGTAGAACC
Statistics
Matches: 38, Mismatches: 9, Indels: 4
0.75 0.18 0.08
Matches are distributed among these distances:
22 3 0.08
23 33 0.87
24 2 0.05
ACGTcount: A:0.36, C:0.24, G:0.18, T:0.22
Consensus pattern (23 bp):
ACCACATAGAATTGTCCAGAATG
Found at i:6540862 original size:23 final size:23
Alignment explanation
Indices: 6540777--6540863 Score: 68
Period size: 23 Copynumber: 3.8 Consensus size: 23
6540767 GCCACGTAGA
* * *
6540777 CCAAAGAACCACATAGATTTGTC
1 CCAAAGGACCACGTAGAATTGTC
* * * *
6540800 CCGAATGACAATGTAGAATTGTC
1 CCAAAGGACCACGTAGAATTGTC
* *
6540823 CCAAATGACCACATAGAATTGT-
1 CCAAAGGACCACGTAGAATTGTC
*
6540845 CCAGAAGGACCGCGTAGAA
1 CCA-AAGGACCACGTAGAA
6540864 CCCTCGACTT
Statistics
Matches: 49, Mismatches: 14, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
22 3 0.06
23 46 0.94
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.20
Consensus pattern (23 bp):
CCAAAGGACCACGTAGAATTGTC
Found at i:6541213 original size:21 final size:21
Alignment explanation
Indices: 6541189--6541231 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
6541179 CTCAATCTCT
6541189 TTATTACATCGATTCGTTCGA
1 TTATTACATCGATTCGTTCGA
*
6541210 TTATTGCATCGATTCGTTCGA
1 TTATTACATCGATTCGTTCGA
6541231 T
1 T
6541232 ACTTGGTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.21, C:0.19, G:0.16, T:0.44
Consensus pattern (21 bp):
TTATTACATCGATTCGTTCGA
Found at i:6543629 original size:17 final size:17
Alignment explanation
Indices: 6543609--6543643 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
6543599 AATCTTTTCC
6543609 AGATTCTAATTATATTG
1 AGATTCTAATTATATTG
6543626 AGATTCTAATTATATTG
1 AGATTCTAATTATATTG
6543643 A
1 A
6543644 CCTTGGAGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.37, C:0.06, G:0.11, T:0.46
Consensus pattern (17 bp):
AGATTCTAATTATATTG
Found at i:6547161 original size:24 final size:24
Alignment explanation
Indices: 6547130--6547184 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
6547120 CGAAACTGCA
* *
6547130 ACGTAGAATTTACACCGAAGTGTC
1 ACGTAGAATATACACCGAAGTGCC
*
6547154 ACGTAGAATATGCACCGAAGTGCC
1 ACGTAGAATATACACCGAAGTGCC
*
6547178 ACATAGA
1 ACGTAGA
6547185 TTTGTCCCGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (24 bp):
ACGTAGAATATACACCGAAGTGCC
Found at i:6547233 original size:23 final size:23
Alignment explanation
Indices: 6547207--6547251 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
6547197 GACCGGGTAG
* *
6547207 AATTATCCTGAATGACCACATAA
1 AATTATCCCGAAGGACCACATAA
* *
6547230 AATTGTCCCGAAGGACCTCATA
1 AATTATCCCGAAGGACCACATA
6547252 GAACTCTCGA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.38, C:0.24, G:0.13, T:0.24
Consensus pattern (23 bp):
AATTATCCCGAAGGACCACATAA
Found at i:6550341 original size:2 final size:2
Alignment explanation
Indices: 6550324--6550400 Score: 58
Period size: 2 Copynumber: 40.5 Consensus size: 2
6550314 TCATATTTTT
* * *
6550324 TA TA T- TA TA -A TA -A TA TA TA TG TA TT TA TA T- TC TA -A TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
6550361 TCA TA GTA CA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA T
1 T-A TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6550401 TTTATATGTA
Statistics
Matches: 60, Mismatches: 7, Indels: 16
0.72 0.08 0.19
Matches are distributed among these distances:
1 6 0.10
2 50 0.83
3 4 0.07
ACGTcount: A:0.45, C:0.04, G:0.03, T:0.48
Consensus pattern (2 bp):
TA
Found at i:6550406 original size:25 final size:26
Alignment explanation
Indices: 6550322--6550412 Score: 71
Period size: 25 Copynumber: 3.4 Consensus size: 26
6550312 TGTCATATTT
*
6550322 TTTATATTATA-ATAATATATATGTA
1 TTTATATTATATATAATATATATATA
* * *
6550347 TTTATATTCTAATATCATAGTACATATA
1 TTTATATTAT-ATATAATA-TATATATA
*
6550375 -ATATA-TATATATATATATATATATA
1 TTTATATTATATATA-ATATATATATA
6550400 TTTTATATGTATA
1 -TTTATAT-TATA
6550413 GTTATTTATT
Statistics
Matches: 49, Mismatches: 9, Indels: 12
0.70 0.13 0.17
Matches are distributed among these distances:
25 20 0.41
26 6 0.12
27 13 0.27
28 6 0.12
29 4 0.08
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (26 bp):
TTTATATTATATATAATATATATATA
Found at i:6550441 original size:2 final size:2
Alignment explanation
Indices: 6550434--6550466 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
6550424 ACGCCCAGTT
6550434 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6550467 GTTCTGGTTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6550681 original size:20 final size:20
Alignment explanation
Indices: 6550656--6550708 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
6550646 TCCTCGTAAA
6550656 CAAATTATTTTAATAGAAAT
1 CAAATTATTTTAATAGAAAT
6550676 CAAATTATTTTAATAGAAAT
1 CAAATTATTTTAATAGAAAT
6550696 CAAATTATATTTA
1 CAAATTAT-TTTA
6550709 TTTTTTGTGG
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 28 0.88
21 4 0.12
ACGTcount: A:0.49, C:0.06, G:0.04, T:0.42
Consensus pattern (20 bp):
CAAATTATTTTAATAGAAAT
Found at i:6552372 original size:23 final size:24
Alignment explanation
Indices: 6552340--6552424 Score: 77
Period size: 23 Copynumber: 3.6 Consensus size: 24
6552330 GAGTTGAGGG
*
6552340 TTCTACGTGGTCCTTT-ATGACAT
1 TTCTACGTGGTCCTTTCAGGACAT
* *
6552363 TTCTATGTGGT-CTTTCGGGACAT
1 TTCTACGTGGTCCTTTCAGGACAT
* * *
6552386 TTCTACGTGGT-CATTCGGGACAAA
1 TTCTACGTGGTCCTTTCAGGAC-AT
*
6552410 TTCTACGCGGTCCTT
1 TTCTACGTGGTCCTT
6552425 CGGAAAAAAT
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
22 4 0.08
23 34 0.67
24 11 0.22
25 2 0.04
ACGTcount: A:0.16, C:0.22, G:0.22, T:0.39
Consensus pattern (24 bp):
TTCTACGTGGTCCTTTCAGGACAT
Found at i:6552421 original size:24 final size:24
Alignment explanation
Indices: 6552371--6552440 Score: 79
Period size: 24 Copynumber: 3.0 Consensus size: 24
6552361 ATTTCTATGT
* * *
6552371 GGTCTTTCGGGAC-ATTTCTACGT
1 GGTCATTCGGGACAAATTCTACGC
6552394 GGTCATTCGGGACAAATTCTACGC
1 GGTCATTCGGGACAAATTCTACGC
* * *
6552418 GGTCCTTCGGAAAAAATTCTACG
1 GGTCATTCGGGACAAATTCTACG
6552441 TTGCTCTTCG
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
23 12 0.30
24 28 0.70
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.30
Consensus pattern (24 bp):
GGTCATTCGGGACAAATTCTACGC
Found at i:6559859 original size:7 final size:7
Alignment explanation
Indices: 6559850--6559891 Score: 66
Period size: 7 Copynumber: 6.0 Consensus size: 7
6559840 TGTATATAGG
*
6559850 TGGAAGG
1 TGGAAGA
*
6559857 TGGAAGG
1 TGGAAGA
6559864 TGGAAGA
1 TGGAAGA
6559871 TGGAAGA
1 TGGAAGA
6559878 TGGAAGA
1 TGGAAGA
6559885 TGGAAGA
1 TGGAAGA
6559892 AATTGTAGTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 34 1.00
ACGTcount: A:0.38, C:0.00, G:0.48, T:0.14
Consensus pattern (7 bp):
TGGAAGA
Found at i:6560762 original size:22 final size:22
Alignment explanation
Indices: 6560734--6560784 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
6560724 AAAATACGGT
6560734 ATGAACAATACCGTGAACAGTA
1 ATGAACAATACCGTGAACAGTA
6560756 ATGAACAATACCGTGAACAGTA
1 ATGAACAATACCGTGAACAGTA
*
6560778 CTGAACA
1 ATGAACA
6560785 GTGCTATAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.45, C:0.20, G:0.18, T:0.18
Consensus pattern (22 bp):
ATGAACAATACCGTGAACAGTA
Found at i:6562091 original size:20 final size:20
Alignment explanation
Indices: 6562066--6562117 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
6562056 AATTCCCATG
6562066 CATCGATGCACCCCTTACTA
1 CATCGATGCACCCCTTACTA
* *
6562086 CATCGATGCACCCCTTATTG
1 CATCGATGCACCCCTTACTA
6562106 CATCGATGCACC
1 CATCGATGCACC
6562118 TTCAAAAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.23, C:0.38, G:0.13, T:0.25
Consensus pattern (20 bp):
CATCGATGCACCCCTTACTA
Found at i:6563005 original size:27 final size:27
Alignment explanation
Indices: 6562954--6563006 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
6562944 TTCAAATTTG
* **
6562954 ATTTTTTTTATTTTTAATATGATTTTA
1 ATTTTTTTTATTTTAAATAAAATTTTA
6562981 ATTTTTTTTATTTTAAATAAAATTTT
1 ATTTTTTTTATTTTAAATAAAATTTT
6563007 TAAAATTTCT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (27 bp):
ATTTTTTTTATTTTAAATAAAATTTTA
Found at i:6563195 original size:2 final size:2
Alignment explanation
Indices: 6563190--6563221 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
6563180 TTTTTTTCAA
6563190 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6563222 TAATAATTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6563317 original size:17 final size:15
Alignment explanation
Indices: 6563295--6563360 Score: 53
Period size: 17 Copynumber: 4.1 Consensus size: 15
6563285 TCTTATGATG
6563295 AAATAAGTTTATATAAT
1 AAATAA-TTT-TATAAT
6563312 AAATAAATTTTTATAAATT
1 AAAT-AA-TTTTAT-AA-T
*
6563331 TAATAATTTTATAAT
1 AAATAATTTTATAAT
*
6563346 AAATCATTTT-TAAT
1 AAATAATTTTATAAT
6563360 A
1 A
6563361 GAATTTTGGA
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
14 5 0.12
15 9 0.21
16 2 0.05
17 13 0.31
18 9 0.21
19 4 0.10
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
AAATAATTTTATAAT
Found at i:6563349 original size:34 final size:37
Alignment explanation
Indices: 6563296--6563366 Score: 96
Period size: 34 Copynumber: 2.0 Consensus size: 37
6563286 CTTATGATGA
6563296 AATAAGTTTATATAATAAATAAATTTTT-ATA-AATTT
1 AATAAGTTTATATAATAAAT-AATTTTTAATAGAATTT
*
6563332 AATAA-TTT-TATAATAAATCATTTTTAATAGAATTT
1 AATAAGTTTATATAATAAATAATTTTTAATAGAATTT
6563367 TGGAATTGGT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
33 6 0.19
34 13 0.41
35 8 0.25
36 5 0.16
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.48
Consensus pattern (37 bp):
AATAAGTTTATATAATAAATAATTTTTAATAGAATTT
Found at i:6565110 original size:398 final size:398
Alignment explanation
Indices: 6564374--6565166 Score: 1254
Period size: 398 Copynumber: 2.0 Consensus size: 398
6564364 GGGACTCAAG
* * * *
6564374 AACTTTGGCCTCTGTTGTACAATAACACACAAATTTTGATGATCAAAAATGGGTTTTTTTCCAAA
1 AACTTTGGCCTCTGTTGTACAAGAACACACAAATTTTCATGATCAAAAATGGGATTTTTCCCAAA
* * * *
6564439 AAAAAAAGTTTAAGAAAAATGGCAGATTGAGGATTAAGATAATACCTTTGTTTACAGAACTGACT
66 AAAAAAAGTTGAAGAAAAATGACAGATTGAGGATCAAGATAAGACCTTTGTTTACAGAACTGACT
*
6564504 TGGATGTTGTGTACAAAAGCTCTCATTTTTCAACAAGTTGGATTCAAGAGGCTCCTTTACCTCAT
131 TGGATGTTGTGTACAAAAGCTCTCATTTTTCAACAAGTTGGATTCAAGAGGCTCATTTACCTCAT
* *
6564569 TCACTGCCTCGAGTTTGAGTGCAGCCTGATTCACAATAGAAACCCCATTAATGAACAAATAAGAA
196 TCACTGCCTCGAGTTTGAGTGCAGCCTGATTCACAACAAAAACCCCATTAATGAACAAATAAGAA
* * ** *
6564634 CAAACGAAGAAGATCATTTGATTTTCATGAAAAAAATACAACAAATGGTTTACTATAATTAACCT
261 CAAACGAAGAAGATCACTTGATTTTCATGAAAAAAATACAACAAAGGGACTACCATAATTAACCT
6564699 GATCCACACGCTCTCGATCCTCTGGGTAGCCTCGGCGCCACAATCGAGAGGTGCTATGGCATAAA
326 GATCCACACGCTCTCGATCCTCTGGGTAGCCTCGGCGCCACAATCGAGAGGTGCTATGGCATAAA
6564764 AAAAGTTT
391 AAAAGTTT
*
6564772 AACTTTGGCCTCTGTTGTACAAGAACGCACAAATTTTCATGATCAAAAAT-GGATTTTTCCCAAA
1 AACTTTGGCCTCTGTTGTACAAGAACACACAAATTTTCATGATCAAAAATGGGATTTTTCCC-AA
* *
6564836 AAAAAAAAGTTGAAGAGAAATGACAGATTGAGGATCAAGATAAGACCTTTGTTTATAGAACTGAC
65 AAAAAAAAGTTGAAGAAAAATGACAGATTGAGGATCAAGATAAGACCTTTGTTTACAGAACTGAC
*
6564901 TTGGATGTTGTGTATAAAAGCTCTCATTTTTCATTCAACAAGTTGGATTCAAGAGGCTCATTTAC
130 TTGGATGTTGTGTACAAAAGCTCTCA--TTT--TTCAACAAGTTGGATTCAAGAGGCTCATTTAC
* * * *
6564966 CTCATTCACTGCCTCGAGTTTGAGTGTAGCCT-ATTCATAACAAAAACCCCATTGATGAACAAGT
191 CTCATTCACTGCCTCGAGTTTGAGTGCAGCCTGATTCACAACAAAAACCCCATTAATGAACAAAT
* *
6565030 AAGAACAAACGAAGAAGATCACTTGA-TTTC-TTAAAGAAA-ACAACAAAGGGACTACCATAATT
256 AAGAACAAACGAAGAAGATCACTTGATTTTCATGAAAAAAATACAACAAAGGGACTACCATAATT
* *
6565092 AACCTGGTCCACACGCTCTCGATCCTCTGGGTAGCCTCGGCGCCACGATCGAGAGGTGCTATGGC
321 AACCTGATCCACACGCTCTCGATCCTCTGGGTAGCCTCGGCGCCACAATCGAGAGGTGCTATGGC
6565157 ATAAAAAAAG
386 ATAAAAAAAG
6565167 CTCATATTTG
Statistics
Matches: 362, Mismatches: 28, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
397 9 0.02
398 225 0.62
399 7 0.02
400 7 0.02
401 52 0.14
402 62 0.17
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.27
Consensus pattern (398 bp):
AACTTTGGCCTCTGTTGTACAAGAACACACAAATTTTCATGATCAAAAATGGGATTTTTCCCAAA
AAAAAAAGTTGAAGAAAAATGACAGATTGAGGATCAAGATAAGACCTTTGTTTACAGAACTGACT
TGGATGTTGTGTACAAAAGCTCTCATTTTTCAACAAGTTGGATTCAAGAGGCTCATTTACCTCAT
TCACTGCCTCGAGTTTGAGTGCAGCCTGATTCACAACAAAAACCCCATTAATGAACAAATAAGAA
CAAACGAAGAAGATCACTTGATTTTCATGAAAAAAATACAACAAAGGGACTACCATAATTAACCT
GATCCACACGCTCTCGATCCTCTGGGTAGCCTCGGCGCCACAATCGAGAGGTGCTATGGCATAAA
AAAAGTTT
Found at i:6565882 original size:22 final size:22
Alignment explanation
Indices: 6565865--6565931 Score: 134
Period size: 22 Copynumber: 3.0 Consensus size: 22
6565855 CTCGTATAAA
6565865 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
6565887 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
6565909 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
6565931 T
1 T
6565932 ATGTCCATAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.19
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:6566188 original size:30 final size:31
Alignment explanation
Indices: 6566147--6566206 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
6566137 TAGACATAGT
*
6566147 ATTTCCATACCTTTAACACATAG-GCATATC
1 ATTTACATACCTTTAACACATAGTGCATATC
*
6566177 ATTTACATACCTTTATCACATAGTGCATAT
1 ATTTACATACCTTTAACACATAGTGCATAT
6566207 AACTTTTTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 21 0.78
31 6 0.22
ACGTcount: A:0.33, C:0.23, G:0.07, T:0.37
Consensus pattern (31 bp):
ATTTACATACCTTTAACACATAGTGCATATC
Found at i:6566284 original size:28 final size:28
Alignment explanation
Indices: 6566221--6566319 Score: 155
Period size: 28 Copynumber: 3.5 Consensus size: 28
6566211 TTTTCTGCAC
6566221 ATTCATGTCATGTAATACATATAATATGA
1 ATTCATGTCATGTAATACATAT-ATATGA
6566250 ATTCATGTCATGTAATACATATATATGA
1 ATTCATGTCATGTAATACATATATATGA
* *
6566278 ATTCATGTCATGTAATACATTTA-ATACA
1 ATTCATGTCATGTAATACATATATAT-GA
6566306 ATTCATGTCATGTA
1 ATTCATGTCATGTA
6566320 TCATAATGGA
Statistics
Matches: 67, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
27 2 0.03
28 43 0.64
29 22 0.33
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.39
Consensus pattern (28 bp):
ATTCATGTCATGTAATACATATATATGA
Found at i:6566749 original size:66 final size:66
Alignment explanation
Indices: 6566616--6566763 Score: 174
Period size: 67 Copynumber: 2.2 Consensus size: 66
6566606 TTTTTCTCAT
* * * * *
6566616 GGGGAATCGTTTCCCCCCTTAGGGGTATCGATTCCCCTCAAGCAATCTGGAATTTCTATACGATG
1 GGGGTATCGGTTCCCCCCCTAGGGGTACCGATTCCCCTCAAGCAATCTGGAAATTCTATACGATG
6566681 A
66 A
* * * * *
6566682 GGGGGTATCGGTTCCCCCCCTGGGGGTACCGATT-CCCTCTAGCATTCTGGAAATTC-ATTTCGT
1 -GGGGTATCGGTTCCCCCCCTAGGGGTACCGATTCCCCTCAAGCAATCTGGAAATTCTA-TACGA
6566745 TGA
64 TGA
6566748 GGGGTATCGGTTCCCC
1 GGGGTATCGGTTCCCC
6566764 TTGAATGGGT
Statistics
Matches: 70, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
65 17 0.24
66 25 0.36
67 28 0.40
ACGTcount: A:0.18, C:0.27, G:0.26, T:0.29
Consensus pattern (66 bp):
GGGGTATCGGTTCCCCCCCTAGGGGTACCGATTCCCCTCAAGCAATCTGGAAATTCTATACGATG
A
Found at i:6569919 original size:22 final size:22
Alignment explanation
Indices: 6569891--6569935 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
6569881 AAATTGAATC
6569891 ATATGCTCTTAAACCATCATAG
1 ATATGCTCTTAAACCATCATAG
6569913 ATATGCTCTTAAACCATCATAG
1 ATATGCTCTTAAACCATCATAG
6569935 A
1 A
6569936 ATACATATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.38, C:0.22, G:0.09, T:0.31
Consensus pattern (22 bp):
ATATGCTCTTAAACCATCATAG
Found at i:6574216 original size:27 final size:26
Alignment explanation
Indices: 6574163--6574218 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 26
6574153 TGATATTTAA
* *
6574163 ATAAAATATATAAATTAATGCATAAC
1 ATAAAATATATAAATTAATACAAAAC
* *
6574189 ATAAAATTTGATAAATTAATATAAAAC
1 ATAAAATAT-ATAAATTAATACAAAAC
6574216 ATA
1 ATA
6574219 GCTAAACTAC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
26 8 0.32
27 17 0.68
ACGTcount: A:0.59, C:0.05, G:0.04, T:0.32
Consensus pattern (26 bp):
ATAAAATATATAAATTAATACAAAAC
Found at i:6575196 original size:50 final size:51
Alignment explanation
Indices: 6575079--6575200 Score: 174
Period size: 51 Copynumber: 2.4 Consensus size: 51
6575069 AGTAAAGCGT
** *
6575079 GCCCCTGCACCGCGCTATACGATGATTTGGCGCCACGTGGGATATAGCGCG
1 GCCCCTGCACCGCGCTATACGATGAGCTGGCGCCACATGGGATATAGCGCG
* *
6575130 CCCCCTGCACCGCGCTATACGGTGAGCTGGCGCCACATGGG-TATAGCGCG
1 GCCCCTGCACCGCGCTATACGATGAGCTGGCGCCACATGGGATATAGCGCG
* *
6575180 GCCCCTGCAGCACGCTATACG
1 GCCCCTGCACCGCGCTATACG
6575201 CCACGTAGGG
Statistics
Matches: 63, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
50 27 0.43
51 36 0.57
ACGTcount: A:0.17, C:0.35, G:0.30, T:0.17
Consensus pattern (51 bp):
GCCCCTGCACCGCGCTATACGATGAGCTGGCGCCACATGGGATATAGCGCG
Found at i:6578221 original size:20 final size:20
Alignment explanation
Indices: 6578196--6578237 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
6578186 GGATCCTGTA
6578196 TACCTACTATCTGAAGTTTT
1 TACCTACTATCTGAAGTTTT
6578216 TACCTACTATCTGAAGTTTT
1 TACCTACTATCTGAAGTTTT
6578236 TA
1 TA
6578238 AGGTATACGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.26, C:0.19, G:0.10, T:0.45
Consensus pattern (20 bp):
TACCTACTATCTGAAGTTTT
Found at i:6578772 original size:16 final size:16
Alignment explanation
Indices: 6578752--6578804 Score: 74
Period size: 16 Copynumber: 3.4 Consensus size: 16
6578742 ATTACAATTT
6578752 AACAAAATA-AAGTAAA
1 AACAAAATATAA-TAAA
*
6578768 TAC-AAATATAATAAA
1 AACAAAATATAATAAA
6578783 AACAAAATATAATAAA
1 AACAAAATATAATAAA
6578799 AACAAA
1 AACAAA
6578805 TCTATCGATG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
15 11 0.33
16 22 0.67
ACGTcount: A:0.74, C:0.08, G:0.02, T:0.17
Consensus pattern (16 bp):
AACAAAATATAATAAA
Found at i:6579096 original size:160 final size:158
Alignment explanation
Indices: 6578802--6579116 Score: 612
Period size: 160 Copynumber: 2.0 Consensus size: 158
6578792 TAATAAAAAC
6578802 AAATCTATCGATGCATGCGACGCGAAGTGTTCCACAAGGCGGTGGCTGTCGTCTCGAGGAGGATT
1 AAATCTATCGATGCATGCGACGCGAAGTGTTCCACAAGGCGGTGGCTGTCGTCTCGAGGAGGATT
6578867 TCTTCGTATCACTGGTCTGACTCCTCGTTATCATCATCATCACCATCGTCGCCGTCGTCGTCTTG
66 TCTTCGTATCACTGGTCTGACTCCTCGTTATCATCATCATCACCATCGTCGCCGTCGTCGTCTTG
6578932 CGCAGGTACATGAGGAGCTGATGACACA
131 CGCAGGTACATGAGGAGCTGATGACACA
6578960 AAATCTATCGATGCATGCGACGCGAATGTGTTCCACAAGGCGGTGGCTGTCGTCTCGAGGAGGAT
1 AAATCTATCGATGCATGCGACGCGAA-GTGTTCCACAAGGCGGTGGCTGTCGTCTCGAGGAGGAT
6579025 TTCTTCGTATCACTGGTTCTGACTCCTCGTTATCATCATCATCACCATCGTCGCCGTCGTCGTCT
65 TTCTTCGTATCACTGG-TCTGACTCCTCGTTATCATCATCATCACCATCGTCGCCGTCGTCGTCT
6579090 TGCGCAGGTACATGAGGAGCTGATGAC
129 TGCGCAGGTACATGAGGAGCTGATGAC
6579117 GATGAATCAC
Statistics
Matches: 155, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
158 26 0.17
159 54 0.35
160 75 0.48
ACGTcount: A:0.20, C:0.26, G:0.26, T:0.27
Consensus pattern (158 bp):
AAATCTATCGATGCATGCGACGCGAAGTGTTCCACAAGGCGGTGGCTGTCGTCTCGAGGAGGATT
TCTTCGTATCACTGGTCTGACTCCTCGTTATCATCATCATCACCATCGTCGCCGTCGTCGTCTTG
CGCAGGTACATGAGGAGCTGATGACACA
Found at i:6579453 original size:18 final size:18
Alignment explanation
Indices: 6579430--6579470 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
6579420 AAAGGCGATG
6579430 GCGGTATCATATATGGTT
1 GCGGTATCATATATGGTT
6579448 GCGGTATCATATATGGTT
1 GCGGTATCATATATGGTT
6579466 GCGGT
1 GCGGT
6579471 GGTTGCTGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.20, C:0.12, G:0.32, T:0.37
Consensus pattern (18 bp):
GCGGTATCATATATGGTT
Found at i:6580584 original size:49 final size:50
Alignment explanation
Indices: 6580467--6580589 Score: 135
Period size: 49 Copynumber: 2.4 Consensus size: 50
6580457 TTATACAAAA
6580467 CGCGGTACCTATCCCGCGCTATATAAAATTATGTCAAGAGTAAAAGTATGT
1 CGCGGTACCTAT-CCGCGCTATATAAAATTATGTCAAGAGTAAAAGTATGT
* * ** * *
6580518 TGCGGTATCTGCCCCGCGCTATATAAAATTAT-T-AGGAGTAAAGGTATAG-
1 CGCGGTACCT-ATCCGCGCTATATAAAATTATGTCAAGAGTAAAAGTAT-GT
6580567 CGCGGTACCTAATCCGCGCTATA
1 CGCGGTACCT-ATCCGCGCTATA
6580590 CCCCTACGTG
Statistics
Matches: 59, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
49 30 0.51
50 2 0.03
51 27 0.46
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (50 bp):
CGCGGTACCTATCCGCGCTATATAAAATTATGTCAAGAGTAAAAGTATGT
Found at i:6580679 original size:50 final size:51
Alignment explanation
Indices: 6580622--6580728 Score: 135
Period size: 51 Copynumber: 2.1 Consensus size: 51
6580612 CTGCAGGGGC
* * ** *
6580622 CGCGCTATA-CCCACTTGGCGCCAGCTCACCGTATAGCGCGGTGCAAAGGG
1 CGCGCTATACCCCACGTGACGCCAAATCACCGTATAACGCGGTGCAAAGGG
* **
6580672 CGCGCTATACCCCACGTGACGCCAAATCATCGTATAACGCGGTGCAGGGGG
1 CGCGCTATACCCCACGTGACGCCAAATCACCGTATAACGCGGTGCAAAGGG
6580723 CGCGCT
1 CGCGCT
6580729 TTACTGCTAA
Statistics
Matches: 48, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
50 9 0.19
51 39 0.81
ACGTcount: A:0.21, C:0.34, G:0.30, T:0.16
Consensus pattern (51 bp):
CGCGCTATACCCCACGTGACGCCAAATCACCGTATAACGCGGTGCAAAGGG
Found at i:6581030 original size:19 final size:19
Alignment explanation
Indices: 6581000--6581090 Score: 119
Period size: 19 Copynumber: 4.8 Consensus size: 19
6580990 TTTTTAACTT
* *
6581000 TTTATATCATTTTAATTAG
1 TTTATATTATTTTAATTAC
* *
6581019 TTTTTTTTATTTTAATTAC
1 TTTATATTATTTTAATTAC
* *
6581038 TTTATATTCTTTTAATTAG
1 TTTATATTATTTTAATTAC
*
6581057 TTTATGTTATTTTAATTAC
1 TTTATATTATTTTAATTAC
6581076 TTTATATTATTTTAA
1 TTTATATTATTTTAA
6581091 CTAATATTTT
Statistics
Matches: 60, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 60 1.00
ACGTcount: A:0.27, C:0.04, G:0.03, T:0.65
Consensus pattern (19 bp):
TTTATATTATTTTAATTAC
Found at i:6581051 original size:38 final size:38
Alignment explanation
Indices: 6581000--6581109 Score: 143
Period size: 38 Copynumber: 2.8 Consensus size: 38
6580990 TTTTTAACTT
6581000 TTTATA-TCATTTTAATTAGTTTTTTTTATTTTAATTAC
1 TTTATATTC-TTTTAATTAGTTTTTTTTATTTTAATTAC
* *
6581038 TTTATATTCTTTTAATTAGTTTATGTTATTTTAATTAC
1 TTTATATTCTTTTAATTAGTTTTTTTTATTTTAATTAC
*
6581076 TTTATATTATTTTAACTAATA-TTTTTTTTATTTT
1 TTTATATTCTTTTAA-T--TAGTTTTTTTTATTTT
6581110 TCTCATCTTT
Statistics
Matches: 63, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
38 47 0.75
39 3 0.05
40 11 0.17
41 2 0.03
ACGTcount: A:0.26, C:0.05, G:0.03, T:0.66
Consensus pattern (38 bp):
TTTATATTCTTTTAATTAGTTTTTTTTATTTTAATTAC
Found at i:6581070 original size:10 final size:10
Alignment explanation
Indices: 6580999--6581089 Score: 75
Period size: 10 Copynumber: 9.5 Consensus size: 10
6580989 TTTTTTAACT
*
6580999 TTTTATATCA
1 TTTTATATTA
6581009 TTTTA-ATTA
1 TTTTATATTA
*
6581018 GTTTT-TTTTA
1 -TTTTATATTA
6581028 TTTTA-ATTA
1 TTTTATATTA
* *
6581037 CTTTATATTC
1 TTTTATATTA
6581047 TTTTA-ATTA
1 TTTTATATTA
* *
6581056 GTTTATGTTA
1 TTTTATATTA
6581066 TTTTA-ATTA
1 TTTTATATTA
*
6581075 CTTTATATTA
1 TTTTATATTA
6581085 TTTTA
1 TTTTA
6581090 ACTAATATTT
Statistics
Matches: 62, Mismatches: 13, Indels: 12
0.71 0.15 0.14
Matches are distributed among these distances:
9 28 0.45
10 34 0.55
ACGTcount: A:0.26, C:0.04, G:0.03, T:0.66
Consensus pattern (10 bp):
TTTTATATTA
Found at i:6582149 original size:17 final size:17
Alignment explanation
Indices: 6582127--6582168 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
6582117 TAGTTTATCT
6582127 TATATATAATATAATA-A
1 TATATATAATA-AATATA
6582144 TATATATAATAAATATA
1 TATATATAATAAATATA
*
6582161 TAAATATA
1 TATATATA
6582169 TTCTTTTCGG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 4 0.17
17 19 0.83
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
TATATATAATAAATATA
Found at i:6582158 original size:21 final size:17
Alignment explanation
Indices: 6582127--6582169 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 17
6582117 TAGTTTATCT
6582127 TATATATAATATAATAATA
1 TATATATAATAT-ATAA-A
6582146 TATATAATAAATATATAAA
1 TATAT-AT-AATATATAAA
6582165 TATAT
1 TATAT
6582170 TCTTTTCGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 11 0.50
20 6 0.27
21 5 0.23
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
TATATATAATATATAAA
Found at i:6582931 original size:12 final size:12
Alignment explanation
Indices: 6582916--6582942 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
6582906 GAATCAAATT
6582916 ATTCAAAACTGA
1 ATTCAAAACTGA
6582928 ATTCAAAACTGA
1 ATTCAAAACTGA
6582940 ATT
1 ATT
6582943 ATTCAATAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.48, C:0.15, G:0.07, T:0.30
Consensus pattern (12 bp):
ATTCAAAACTGA
Found at i:6582946 original size:15 final size:15
Alignment explanation
Indices: 6582912--6582948 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 15
6582902 AATTGAATCA
6582912 AATTATTCAAAACTG
1 AATTATTCAAAACTG
6582927 -A--ATTCAAAACTG
1 AATTATTCAAAACTG
6582939 AATTATTCAA
1 AATTATTCAA
6582949 TAATTTAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 6
0.76 0.00 0.24
Matches are distributed among these distances:
12 11 0.58
13 1 0.05
14 1 0.05
15 6 0.32
ACGTcount: A:0.49, C:0.14, G:0.05, T:0.32
Consensus pattern (15 bp):
AATTATTCAAAACTG
Found at i:6584011 original size:12 final size:12
Alignment explanation
Indices: 6583996--6584038 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
6583986 ATATGGAAAA
6583996 AATAAAAATAAT
1 AATAAAAATAAT
**
6584008 AATACTAATAAT
1 AATAAAAATAAT
* *
6584020 AATAAAAAAAAA
1 AATAAAAATAAT
6584032 AATAAAA
1 AATAAAA
6584039 TACATATATT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (12 bp):
AATAAAAATAAT
Found at i:6585629 original size:32 final size:32
Alignment explanation
Indices: 6585568--6585629 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
6585558 TAATTTTATT
* * *
6585568 AATAAAAATATTAATATTGGTATATTTATTGA
1 AATAAAAATATTAAAATTGATATAATTATTGA
6585600 AATAAAAATATTAAAATT-ATATTAATTATT
1 AATAAAAATATTAAAATTGATA-TAATTATT
6585630 ATTAAAGTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 2 0.08
32 24 0.92
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.44
Consensus pattern (32 bp):
AATAAAAATATTAAAATTGATATAATTATTGA
Found at i:6585756 original size:8 final size:8
Alignment explanation
Indices: 6585743--6585772 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
6585733 ATTATTATTA
6585743 TTAATAAT
1 TTAATAAT
6585751 TTAATAAT
1 TTAATAAT
6585759 TTAATAAT
1 TTAATAAT
6585767 TTAATA
1 TTAATA
6585773 TATTATTCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (8 bp):
TTAATAAT
Found at i:6585873 original size:20 final size:20
Alignment explanation
Indices: 6585839--6585886 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
6585829 TTTAAAATAA
*
6585839 AATATAATATCTTATATTAT
1 AATATAATATATTATATTAT
*
6585859 AATATAATTTATTAT-TT-T
1 AATATAATATATTATATTAT
*
6585877 ATTATAATAT
1 AATATAATAT
6585887 TAAAAATATA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
18 9 0.38
19 2 0.08
20 13 0.54
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (20 bp):
AATATAATATATTATATTAT
Found at i:6585896 original size:32 final size:33
Alignment explanation
Indices: 6585859--6585939 Score: 89
Period size: 29 Copynumber: 2.5 Consensus size: 33
6585849 CTTATATTAT
* *
6585859 AATATAATTTATTATTTTATTATAA-TATTAA-A
1 AATATAATTTA-TATATTATTAGAACTATTAATA
6585891 AATATAA--TATATATTATTAGAACTATTAATA
1 AATATAATTTATATATTATTAGAACTATTAATA
* *
6585922 AATATATTTTAAATATTA
1 AATATAATTTATATATTA
6585940 ATAATTAATT
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
29 11 0.27
30 8 0.20
31 7 0.17
32 7 0.17
33 8 0.20
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (33 bp):
AATATAATTTATATATTATTAGAACTATTAATA
Found at i:6585929 original size:21 final size:22
Alignment explanation
Indices: 6585884--6585943 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
6585874 TTTATTATAA
* *
6585884 TATTAAAAATA-TAATATATAT
1 TATTAGAAATATTAATAAATAT
*
6585905 TATTAGAACTATTAATAAATA-
1 TATTAGAAATATTAATAAATAT
**
6585926 TATTTTAAATATTAATAA
1 TATTAGAAATATTAATAA
6585944 TTAATTTTGA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
21 24 0.75
22 8 0.25
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (22 bp):
TATTAGAAATATTAATAAATAT
Found at i:6587084 original size:22 final size:21
Alignment explanation
Indices: 6587038--6587090 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
6587028 TTTATTCATG
*
6587038 ATGGTATAGATACTCACCCTT
1 ATGGTATCGATACTCACCCTT
6587059 ATGGTATCGATAC-CACTCTCTT
1 ATGGTATCGATACTCAC-C-CTT
6587081 ATGGTATCGA
1 ATGGTATCGA
6587091 CACTGCCCGA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 3 0.10
21 13 0.45
22 13 0.45
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.34
Consensus pattern (21 bp):
ATGGTATCGATACTCACCCTT
Found at i:6588805 original size:35 final size:35
Alignment explanation
Indices: 6588763--6588839 Score: 120
Period size: 35 Copynumber: 2.2 Consensus size: 35
6588753 ACCGAATTAA
6588763 ACGGGGAT-GGAGAAAACCGTTTATGCTAAACGGGG
1 ACGGGGATAGG-GAAAACCGTTTATGCTAAACGGGG
*
6588798 ACGGGGATAGGGAAAACTGTTTATGCTAAACGGGG
1 ACGGGGATAGGGAAAACCGTTTATGCTAAACGGGG
*
6588833 ATGGGGA
1 ACGGGGA
6588840 CGGGATTGGT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
35 37 0.95
36 2 0.05
ACGTcount: A:0.31, C:0.12, G:0.39, T:0.18
Consensus pattern (35 bp):
ACGGGGATAGGGAAAACCGTTTATGCTAAACGGGG
Found at i:6590165 original size:14 final size:14
Alignment explanation
Indices: 6590148--6590188 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
6590138 AATATGTTCA
6590148 TTTATGTTTGTTTG
1 TTTATGTTTGTTTG
*
6590162 TTTATGTTTGTTCG
1 TTTATGTTTGTTTG
*
6590176 TTTATATTTGTTT
1 TTTATGTTTGTTT
6590189 ATGTTCTCCA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.10, C:0.02, G:0.17, T:0.71
Consensus pattern (14 bp):
TTTATGTTTGTTTG
Found at i:6590388 original size:14 final size:14
Alignment explanation
Indices: 6590369--6590405 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
6590359 TCCATTTAAT
6590369 TTTATGTTCGTTCA
1 TTTATGTTCGTTCA
*
6590383 TTTATGTTCGTTCG
1 TTTATGTTCGTTCA
*
6590397 TTTGTGTTC
1 TTTATGTTC
6590406 ATTTACATTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.08, C:0.14, G:0.19, T:0.59
Consensus pattern (14 bp):
TTTATGTTCGTTCA
Found at i:6599829 original size:14 final size:14
Alignment explanation
Indices: 6599810--6599839 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
6599800 TGTAAAATTC
*
6599810 AAAATAATTATTTA
1 AAAATAATAATTTA
6599824 AAAATAATAATTTA
1 AAAATAATAATTTA
6599838 AA
1 AA
6599840 TTTTTTTAGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
AAAATAATAATTTA
Found at i:6601600 original size:3 final size:3
Alignment explanation
Indices: 6601592--6601616 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
6601582 ATTAATGTGT
6601592 ACA ACA ACA ACA ACA ACA ACA ACA A
1 ACA ACA ACA ACA ACA ACA ACA ACA A
6601617 AACCCTATTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
ACA
Found at i:6603353 original size:18 final size:18
Alignment explanation
Indices: 6603330--6603377 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
6603320 AAATTGTCCT
*
6603330 TATTATATATTTGTATAA
1 TATTATATATTTGTAAAA
*
6603348 TATTATA-AATTGTAAAA
1 TATTATATATTTGTAAAA
6603365 TATTTATATATTT
1 TA-TTATATATTT
6603378 TCTTTAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
17 10 0.40
18 12 0.48
19 3 0.12
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (18 bp):
TATTATATATTTGTAAAA
Found at i:6604713 original size:3 final size:3
Alignment explanation
Indices: 6604705--6604754 Score: 73
Period size: 3 Copynumber: 16.7 Consensus size: 3
6604695 ATTGACTGAA
* * *
6604705 AAG AAG AAG AAG AAG TAG TAG TAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
6604753 AA
1 AA
6604755 AGAGATCGAC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.62, C:0.00, G:0.32, T:0.06
Consensus pattern (3 bp):
AAG
Found at i:6611502 original size:36 final size:36
Alignment explanation
Indices: 6611455--6611610 Score: 276
Period size: 36 Copynumber: 4.3 Consensus size: 36
6611445 ATTAAAAGAT
6611455 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
6611491 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
*
6611527 TTTGTTTCAAGGGAAACTTTCTCAAGAGAGACAAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGAC-AAAA
* *
6611564 ATTGTTTCAAGGGAAACTGTCTCGAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
6611600 TTTGTTTCAAG
1 TTTGTTTCAAG
6611611 TTGGGTCAAT
Statistics
Matches: 114, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
36 81 0.71
37 33 0.29
ACGTcount: A:0.38, C:0.13, G:0.22, T:0.27
Consensus pattern (36 bp):
TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
Found at i:6611528 original size:101 final size:101
Alignment explanation
Indices: 6611291--6611610 Score: 317
Period size: 101 Copynumber: 3.1 Consensus size: 101
6611281 AGATATTTGA
* * * * * * *
6611291 TGTTTCATGAGAAACGGTCTCAAG-GTAAACAAAATTTTCTTTAAAGGGAAATAAATTCAAAGAT
1 TGTTTCAAGAGAAACTGTCTCAAGAG-AGACAAAA-TTTGTTTAAAGGAAAATAGATTAAAAGA-
* *
6611355 TTTGTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAA--
63 TTT-TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
* *
6611393 T-TTTCAAGAGAAACTGTCTCGAGAGAGACGAAATTTGTTTAAAGGAAAATAGATTAAAAGATTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTAAAGGAAAATAGATTAAAAGATTT
6611457 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
66 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
* * * *
6611493 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTTTCTCAAGA-GAG
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTT-AAAGGAAA----AT--AGATTA-
* ** *
6611557 ACAAAAAATTGTTTCAAGGGAAACTGTCTCGAGAGAGACAAAATT
58 A-AAGATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
6611602 TGTTTCAAG
1 TGTTTCAAG
6611611 TTGGGTCAAT
Statistics
Matches: 184, Mismatches: 21, Indels: 19
0.82 0.09 0.08
Matches are distributed among these distances:
98 32 0.17
99 3 0.02
100 25 0.14
101 61 0.33
102 9 0.05
106 1 0.01
107 1 0.01
108 4 0.02
109 48 0.26
ACGTcount: A:0.40, C:0.12, G:0.21, T:0.28
Consensus pattern (101 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTAAAGGAAAATAGATTAAAAGATTT
TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
Found at i:6611600 original size:73 final size:72
Alignment explanation
Indices: 6611455--6611610 Score: 276
Period size: 73 Copynumber: 2.2 Consensus size: 72
6611445 ATTAAAAGAT
*
6611455 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAAATTGTTTCAAGGGAAACTGTCTCAAGAGA
6611520 GACAAAA
66 GACAAAA
* *
6611527 TTTGTTTCAAGGGAAACTTTCTCAAGAGAGACAAAAAATTGTTTCAAGGGAAACTGTCTCGAGAG
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGAC-AAAAATTGTTTCAAGGGAAACTGTCTCAAGAG
6611592 AGACAAAA
65 AGACAAAA
6611600 TTTGTTTCAAG
1 TTTGTTTCAAG
6611611 TTGGGTCAAT
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
72 31 0.39
73 49 0.61
ACGTcount: A:0.38, C:0.13, G:0.22, T:0.27
Consensus pattern (72 bp):
TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAAATTGTTTCAAGGGAAACTGTCTCAAGAGA
GACAAAA
Found at i:6612117 original size:43 final size:43
Alignment explanation
Indices: 6612056--6612158 Score: 181
Period size: 43 Copynumber: 2.4 Consensus size: 43
6612046 GTCAACCGCC
*
6612056 CCTTCGTTGTGAAGTTGAGCTTGTGCTGTCTTGAGTCTAATAT
1 CCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTTGAGTCTAATAT
*
6612099 CCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTTGAGTCTAATAT
1 CCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTTGAGTCTAATAT
6612142 -CTTCGCTGTGAAGTTGA
1 CCTTCGCTGTGAAGTTGA
6612159 AATTGACTCT
Statistics
Matches: 58, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
42 17 0.29
43 41 0.71
ACGTcount: A:0.17, C:0.17, G:0.26, T:0.41
Consensus pattern (43 bp):
CCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTTGAGTCTAATAT
Found at i:6612291 original size:101 final size:101
Alignment explanation
Indices: 6612099--6612422 Score: 560
Period size: 101 Copynumber: 3.2 Consensus size: 101
6612089 AGTCTAATAT
6612099 CCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTTGAGTCTAATAT-CTTCGCTGTGAAGTTGAAATT
1 CCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTTGAGTCTAATATCCTTCGCTGTGAAGTTGAAATT
6612163 GACTCTGAAGAAGTTGTTTGTTGACAGTCAGCCGCC
66 GACTCTGAAGAAGTTGTTTGTTGACAGTCAGCCGCC
* *
6612199 CCTTCGCTGTGACGTTGAGCTTGTGTTGTCTTGAGTCTAATATCCTTCACTGTGAAGTTGAAATT
1 CCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTTGAGTCTAATATCCTTCGCTGTGAAGTTGAAATT
*
6612264 GACTCTGAAAAAGTTGTTTGTTGACAGTCAGCCGCC
66 GACTCTGAAGAAGTTGTTTGTTGACAGTCAGCCGCC
* *
6612300 CCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTTGAGTCTAATATCCTTCGTTGTGAAGTCGAAATT
1 CCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTTGAGTCTAATATCCTTCGCTGTGAAGTTGAAATT
* * *
6612365 GACTCTGAAGAAGTTTTTTGTTGACAGACAGTCGCC
66 GACTCTGAAGAAGTTGTTTGTTGACAGTCAGCCGCC
*
6612401 CCTTCACTGTGAAGTTGAGCTT
1 CCTTCGCTGTGAAGTTGAGCTT
6612423 TGACTTGAAT
Statistics
Matches: 211, Mismatches: 12, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
100 42 0.20
101 169 0.80
ACGTcount: A:0.20, C:0.19, G:0.25, T:0.36
Consensus pattern (101 bp):
CCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTTGAGTCTAATATCCTTCGCTGTGAAGTTGAAATT
GACTCTGAAGAAGTTGTTTGTTGACAGTCAGCCGCC
Found at i:6613717 original size:83 final size:89
Alignment explanation
Indices: 6613619--6613842 Score: 280
Period size: 95 Copynumber: 2.5 Consensus size: 89
6613609 CTAGCTGAAC
6613619 CCATAAAGCCGGGGCGTTTAACCAATTGCTTTAGAGGGACAGCTC-C-A-TAT-GTA-AAT-ACC
1 CCATAAAGCCGGGGCGTTTAACCAATTGCTTTAGAGGGACAGCTCACTATTATAGTATAATCACC
* * *
6613678 TTTATCAGGTTAGCTTAATCTTAT
66 TTTATCAGGCTAGCTGAATATTAT
* * *
6613702 CCATAAAGCTGGGGCGTTTAACTAATTGCCTTAGAGGGACAGCTCAAGCTTTATTGTATAGTATA
1 CCATAAAGCCGGGGCGTTTAACCAATTGCTTTAGAGGGACAGCTC-A-C--TA-T-TATAGTATA
6613767 ATCACCTTTATCAGGCTAGCTGAATATTAT
60 ATCACCTTTATCAGGCTAGCTGAATATTAT
* *
6613797 CCATAAAGCCGGGGCGTTTAACCAATTGCTCTAGAGGGACAACTCA
1 CCATAAAGCCGGGGCGTTTAACCAATTGCTTTAGAGGGACAGCTCA
6613843 AGCTTTATTG
Statistics
Matches: 118, Mismatches: 11, Indels: 13
0.83 0.08 0.09
Matches are distributed among these distances:
83 42 0.36
86 1 0.01
89 1 0.01
92 3 0.03
93 3 0.03
94 4 0.03
95 64 0.54
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (89 bp):
CCATAAAGCCGGGGCGTTTAACCAATTGCTTTAGAGGGACAGCTCACTATTATAGTATAATCACC
TTTATCAGGCTAGCTGAATATTAT
Found at i:6613843 original size:95 final size:95
Alignment explanation
Indices: 6613675--6613856 Score: 294
Period size: 95 Copynumber: 1.9 Consensus size: 95
6613665 ATATGTAAAT
* * * * *
6613675 ACCTTTATCAGGTTAGCTTAATCTTATCCATAAAGCTGGGGCGTTTAACTAATTGCCTTAGAGGG
1 ACCTTTATCAGGCTAGCTGAATATTATCCATAAAGCCGGGGCGTTTAACCAATTGCCTTAGAGGG
*
6613740 ACAGCTCAAGCTTTATTGTATAGTATAATC
66 ACAACTCAAGCTTTATTGTATAGTATAATC
6613770 ACCTTTATCAGGCTAGCTGAATATTATCCATAAAGCCGGGGCGTTTAACCAATTG-CTCTAGAGG
1 ACCTTTATCAGGCTAGCTGAATATTATCCATAAAGCCGGGGCGTTTAACCAATTGCCT-TAGAGG
6613834 GACAACTCAAGCTTTATTGTATA
65 GACAACTCAAGCTTTATTGTATA
6613857 TAAATAATAT
Statistics
Matches: 80, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
94 2 0.03
95 78 0.98
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.32
Consensus pattern (95 bp):
ACCTTTATCAGGCTAGCTGAATATTATCCATAAAGCCGGGGCGTTTAACCAATTGCCTTAGAGGG
ACAACTCAAGCTTTATTGTATAGTATAATC
Found at i:6619572 original size:14 final size:14
Alignment explanation
Indices: 6619555--6619582 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
6619545 CAGAACATGT
6619555 AAATAACATATATA
1 AAATAACATATATA
6619569 AAATAACATATATA
1 AAATAACATATATA
6619583 TTATATATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.07, G:0.00, T:0.29
Consensus pattern (14 bp):
AAATAACATATATA
Found at i:6619589 original size:7 final size:7
Alignment explanation
Indices: 6619577--6619604 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
6619567 TAAAATAACA
6619577 TATATAT
1 TATATAT
6619584 TATATAT
1 TATATAT
6619591 TATATAT
1 TATATAT
6619598 TATATAT
1 TATATAT
6619605 ATAGTTATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (7 bp):
TATATAT
Found at i:6620776 original size:21 final size:21
Alignment explanation
Indices: 6620743--6620782 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
6620733 TAAGGGTTCT
6620743 TATTTTTATATTATTAAAATA
1 TATTTTTATATTATTAAAATA
6620764 TATTCTTTA-ATTATTAAAA
1 TATT-TTTATATTATTAAAA
6620783 CATAGAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (21 bp):
TATTTTTATATTATTAAAATA
Found at i:6622576 original size:41 final size:40
Alignment explanation
Indices: 6622496--6622577 Score: 103
Period size: 41 Copynumber: 2.0 Consensus size: 40
6622486 AATAATGTTT
*
6622496 TAATAATGATTACTATTAATTTGATAATATTTTAGATTAA
1 TAATAATGATTACTATTAATTTGATAATATTTGAGATTAA
* * *
6622536 TAATAATGATTTATTATTAATTT-TTAATGATTTGATATTAA
1 TAATAATGA-TTACTATTAATTTGATAAT-ATTTGAGATTAA
6622577 T
1 T
6622578 GATTAGTAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
40 13 0.36
41 23 0.64
ACGTcount: A:0.40, C:0.01, G:0.07, T:0.51
Consensus pattern (40 bp):
TAATAATGATTACTATTAATTTGATAATATTTGAGATTAA
Found at i:6622601 original size:24 final size:24
Alignment explanation
Indices: 6622574--6622654 Score: 83
Period size: 24 Copynumber: 3.4 Consensus size: 24
6622564 GATTTGATAT
*
6622574 TAATGATTAGTAATAATGAAATT-A
1 TAATGATTACTAATAATG-AATTAA
* *
6622598 TAATAATTACTAATAATGATTTAA
1 TAATGATTACTAATAATGAATTAA
* * *
6622622 TAACGATTACTAATAATTATTTAA
1 TAATGATTACTAATAATGAATTAA
*
6622646 TAATAATTA
1 TAATGATTA
6622655 AATATTTAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
23 3 0.06
24 45 0.94
ACGTcount: A:0.49, C:0.04, G:0.06, T:0.41
Consensus pattern (24 bp):
TAATGATTACTAATAATGAATTAA
Found at i:6622740 original size:22 final size:22
Alignment explanation
Indices: 6622707--6622748 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
6622697 ATAGTTGAAC
6622707 TTATAACAAGTCGAATTTATAT
1 TTATAACAAGTCGAATTTATAT
6622729 TTATAA-ATAGTCGAATTTAT
1 TTATAACA-AGTCGAATTTAT
6622749 TCTTTTTAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 1 0.05
22 18 0.95
ACGTcount: A:0.40, C:0.07, G:0.10, T:0.43
Consensus pattern (22 bp):
TTATAACAAGTCGAATTTATAT
Found at i:6622746 original size:16 final size:16
Alignment explanation
Indices: 6622685--6622727 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
6622675 TCAATTTAAA
6622685 TCGAATTTATAA-ATAG
1 TCGAATTTATAACA-AG
* *
6622701 TTGAACTTATAACAAG
1 TCGAATTTATAACAAG
6622717 TCGAATTTATA
1 TCGAATTTATA
6622728 TTTATAAATA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 21 0.95
17 1 0.05
ACGTcount: A:0.42, C:0.09, G:0.12, T:0.37
Consensus pattern (16 bp):
TCGAATTTATAACAAG
Found at i:6623177 original size:21 final size:21
Alignment explanation
Indices: 6623151--6623210 Score: 77
Period size: 21 Copynumber: 2.9 Consensus size: 21
6623141 TTATTGTTGA
*
6623151 AAACTCTAAAACCTAAACCTT
1 AAACTCTAAAACCTAAACCCT
*
6623172 AAACTCTAAAACATAAACCCT
1 AAACTCTAAAACCTAAACCCT
* *
6623193 AAACCCT-AAACCTTAACC
1 AAACTCTAAAACCTAAACC
6623211 ATTCTCTCTC
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 9 0.26
21 25 0.74
ACGTcount: A:0.48, C:0.32, G:0.00, T:0.20
Consensus pattern (21 bp):
AAACTCTAAAACCTAAACCCT
Found at i:6623915 original size:17 final size:15
Alignment explanation
Indices: 6623892--6623932 Score: 55
Period size: 17 Copynumber: 2.6 Consensus size: 15
6623882 TTGGGGTTAT
6623892 ATTAAATATTATTAAA
1 ATTAAATATTA-TAAA
*
6623908 ACTTAAATATTATAAT
1 A-TTAAATATTATAAA
6623924 ATTAAATAT
1 ATTAAATAT
6623933 GCATGTCTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 8 0.35
16 5 0.22
17 10 0.43
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
ATTAAATATTATAAA
Found at i:6623986 original size:22 final size:22
Alignment explanation
Indices: 6623961--6624002 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
6623951 TGTAAAAAGA
6623961 ATAAATTCGACTAT-TTATAAAT
1 ATAAATTCGACT-TGTTATAAAT
*
6623983 ATAAATTTGACTTGTTATAA
1 ATAAATTCGACTTGTTATAA
6624003 GTTCAACTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 1 0.06
22 17 0.94
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (22 bp):
ATAAATTCGACTTGTTATAAAT
Found at i:6624074 original size:14 final size:14
Alignment explanation
Indices: 6624055--6624104 Score: 75
Period size: 14 Copynumber: 3.6 Consensus size: 14
6624045 TTTAAATATT
6624055 TAATTATTATTAAA
1 TAATTATTATTAAA
*
6624069 TAATTATTAGT-AA
1 TAATTATTATTAAA
*
6624082 TCATTATTATTAAA
1 TAATTATTATTAAA
6624096 TAATTATTA
1 TAATTATTA
6624105 GAAATCATTA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
13 11 0.35
14 20 0.65
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (14 bp):
TAATTATTATTAAA
Found at i:6624082 original size:24 final size:24
Alignment explanation
Indices: 6624055--6624148 Score: 91
Period size: 27 Copynumber: 3.8 Consensus size: 24
6624045 TTTAAATATT
*
6624055 TAATTATTATTAAATAATTATTAG
1 TAATCATTATTAAATAATTATTAG
6624079 TAATCATTATTATTAAATAATTATTAG
1 TAATC---ATTATTAAATAATTATTAG
* * * *
6624106 AAATCATTA-TAATTTATTATTAC
1 TAATCATTATTAAATAATTATTAG
* *
6624129 TAATCATTACTAAATCATTA
1 TAATCATTATTAAATAATTA
6624149 ATATCAAATC
Statistics
Matches: 58, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
23 19 0.33
24 16 0.28
27 23 0.40
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.47
Consensus pattern (24 bp):
TAATCATTATTAAATAATTATTAG
Found at i:6624094 original size:27 final size:27
Alignment explanation
Indices: 6624057--6624115 Score: 109
Period size: 27 Copynumber: 2.2 Consensus size: 27
6624047 TAAATATTTA
*
6624057 ATTATTATTAAATAATTATTAGTAATC
1 ATTATTATTAAATAATTATTAGAAATC
6624084 ATTATTATTAAATAATTATTAGAAATC
1 ATTATTATTAAATAATTATTAGAAATC
6624111 ATTAT
1 ATTAT
6624116 AATTTATTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.47
Consensus pattern (27 bp):
ATTATTATTAAATAATTATTAGAAATC
Found at i:6628792 original size:25 final size:25
Alignment explanation
Indices: 6628764--6628832 Score: 120
Period size: 25 Copynumber: 2.8 Consensus size: 25
6628754 TATATATATA
6628764 TCCCGAAGGACCGCGTAGAATATTG
1 TCCCGAAGGACCGCGTAGAATATTG
*
6628789 TCCCGAAGGACAGCGTAGAATATTG
1 TCCCGAAGGACCGCGTAGAATATTG
*
6628814 TCCCGAAAGACCGCGTAGA
1 TCCCGAAGGACCGCGTAGA
6628833 CCCTCTACTC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.30, C:0.25, G:0.28, T:0.17
Consensus pattern (25 bp):
TCCCGAAGGACCGCGTAGAATATTG
Found at i:6630391 original size:21 final size:21
Alignment explanation
Indices: 6630367--6630411 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
6630357 TGTTGTTCGT
* *
6630367 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
6630388 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
6630409 TTG
1 TTG
6630412 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:6633414 original size:23 final size:23
Alignment explanation
Indices: 6633388--6633432 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
6633378 CACCACAGCT
* *
6633388 CGTATAAATGCACCGAAGTGCCG
1 CGTAGAAATACACCGAAGTGCCG
* *
6633411 CGTAGAATTACACCGTAGTGCC
1 CGTAGAAATACACCGAAGTGCC
6633433 ATATAATGAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.29, C:0.27, G:0.24, T:0.20
Consensus pattern (23 bp):
CGTAGAAATACACCGAAGTGCCG
Found at i:6633575 original size:25 final size:25
Alignment explanation
Indices: 6633540--6633615 Score: 125
Period size: 25 Copynumber: 3.0 Consensus size: 25
6633530 CAAAGAATAT
6633540 ATATATATCCCGAAGGACCGCGTAGA
1 ATAT-TATCCCGAAGGACCGCGTAGA
* *
6633566 ATATTGTCCCGAAGGACCGCATAGA
1 ATATTATCCCGAAGGACCGCGTAGA
6633591 ATATTATCCCGAAGGACCGCGTAGA
1 ATATTATCCCGAAGGACCGCGTAGA
6633616 CCCTCTACTC
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
25 42 0.91
26 4 0.09
ACGTcount: A:0.33, C:0.24, G:0.24, T:0.20
Consensus pattern (25 bp):
ATATTATCCCGAAGGACCGCGTAGA
Found at i:6635169 original size:21 final size:21
Alignment explanation
Indices: 6635145--6635189 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
6635135 TGTTGTTCGT
* *
6635145 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
6635166 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
6635187 TTG
1 TTG
6635190 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:6636463 original size:38 final size:38
Alignment explanation
Indices: 6636370--6636463 Score: 109
Period size: 38 Copynumber: 2.5 Consensus size: 38
6636360 TATTCGATTT
* *
6636370 GTTTATGTTCATGAATAACCTAGTCTATCAACTCATTC
1 GTTTATGTTCATGAACAAACTAGTCTATCAACTCATTC
** * * *
6636408 GTTTATGTTCACAAACAAATTCA-TCTATCTACTCGTTC
1 GTTTATGTTCATGAACAAACT-AGTCTATCAACTCATTC
6636446 GTTTATGTTCATGAACAA
1 GTTTATGTTCATGAACAA
6636464 GCTTTTTCAT
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
38 45 0.98
39 1 0.02
ACGTcount: A:0.30, C:0.20, G:0.11, T:0.39
Consensus pattern (38 bp):
GTTTATGTTCATGAACAAACTAGTCTATCAACTCATTC
Found at i:6636915 original size:10 final size:10
Alignment explanation
Indices: 6636900--6636934 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
6636890 TGACATATGA
6636900 TTTTTAATAT
1 TTTTTAATAT
6636910 TTTTT-ATAT
1 TTTTTAATAT
6636919 TTTTTAATAT
1 TTTTTAATAT
6636929 TATTTT
1 T-TTTT
6636935 GTGTCCTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 9 0.39
10 10 0.43
11 4 0.17
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (10 bp):
TTTTTAATAT
Found at i:6643653 original size:23 final size:21
Alignment explanation
Indices: 6643627--6643682 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
6643617 AATTTTAATT
6643627 TTTTTAATTTAGTTTGATTGTAA
1 TTTTTAATTTA-TTTGATT-TAA
*
6643650 TTTTTAATTTATTTTATTTAA
1 TTTTTAATTTATTTGATTTAA
* *
6643671 TCTATAATTTAT
1 TTTTTAATTTAT
6643683 AAATTTGATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
21 13 0.43
22 6 0.20
23 11 0.37
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.64
Consensus pattern (21 bp):
TTTTTAATTTATTTGATTTAA
Found at i:6646260 original size:49 final size:49
Alignment explanation
Indices: 6646198--6646294 Score: 131
Period size: 49 Copynumber: 2.0 Consensus size: 49
6646188 ATATTCAACC
* * *
6646198 TTTCTTATCCATAAAATTTCGTCTTCAATTATCAACGTAATCATAAACA
1 TTTCCTATCCATAAAACTACGTCTTCAATTATCAACGTAATCATAAACA
* * * *
6646247 TTTCCTATCCATAAAACTACGTTTTCAATTATTAATGTAATTATAAAC
1 TTTCCTATCCATAAAACTACGTCTTCAATTATCAACGTAATCATAAAC
6646295 TATGAGATAG
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
49 41 1.00
ACGTcount: A:0.37, C:0.19, G:0.04, T:0.40
Consensus pattern (49 bp):
TTTCCTATCCATAAAACTACGTCTTCAATTATCAACGTAATCATAAACA
Found at i:6649473 original size:25 final size:24
Alignment explanation
Indices: 6649426--6649474 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
6649416 TATTAATCAG
*
6649426 ATAAATAATTAAATTTCATAACAT
1 ATAAATAATTAAATTTCAAAACAT
6649450 ATAAATCAATTAAATTAT-AAAACAT
1 ATAAAT-AATTAAATT-TCAAAACAT
6649475 GCAAAACATG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 6 0.27
25 15 0.68
26 1 0.05
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.35
Consensus pattern (24 bp):
ATAAATAATTAAATTTCAAAACAT
Found at i:6662313 original size:27 final size:27
Alignment explanation
Indices: 6662283--6662341 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
6662273 TTGAGTTACA
* *
6662283 TTTATTATTTTGAGGCATTTATGATAT
1 TTTATTATTTTGAAGCAATTATGATAT
* * *
6662310 TTTAATGTTTTGAAGTAATTATGATAT
1 TTTATTATTTTGAAGCAATTATGATAT
6662337 TTTAT
1 TTTAT
6662342 GCTTCATCTC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.29, C:0.02, G:0.14, T:0.56
Consensus pattern (27 bp):
TTTATTATTTTGAAGCAATTATGATAT
Found at i:6663838 original size:18 final size:18
Alignment explanation
Indices: 6663815--6663850 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
6663805 AAAAATCATT
6663815 TTATT-AATATGATTTTTA
1 TTATTAAATAT-ATTTTTA
6663833 TTATTAAATATATTTTTA
1 TTATTAAATATATTTTTA
6663851 ATAACTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (18 bp):
TTATTAAATATATTTTTA
Found at i:6666098 original size:31 final size:31
Alignment explanation
Indices: 6666061--6666123 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
6666051 TTAAGTCAAA
6666061 TAATTAAATTGAGGAGTTATAATTTATAATT
1 TAATTAAATTGAGGAGTTATAATTTATAATT
6666092 TAATTAAATTGAGGAGTTATAATTTATAATT
1 TAATTAAATTGAGGAGTTATAATTTATAATT
6666123 T
1 T
6666124 TTTTTTTCAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.41, C:0.00, G:0.13, T:0.46
Consensus pattern (31 bp):
TAATTAAATTGAGGAGTTATAATTTATAATT
Found at i:6667910 original size:21 final size:21
Alignment explanation
Indices: 6667867--6667911 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
6667857 CTCTTTTTTA
**
6667867 AAAAATAATAATATTTTCGGT
1 AAAAATAATAATATTTTAAGT
*
6667888 AAAAATTATAATATTTTAAGT
1 AAAAATAATAATATTTTAAGT
6667909 AAA
1 AAA
6667912 TTTTTATTAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.53, C:0.02, G:0.07, T:0.38
Consensus pattern (21 bp):
AAAAATAATAATATTTTAAGT
Found at i:6669649 original size:31 final size:31
Alignment explanation
Indices: 6669614--6669677 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
6669604 AAAATATAAT
* *
6669614 ATTTAGTCACTTTCGTTTTTATTTAATTAAG
1 ATTTACTCACTTTCGTTTTCATTTAATTAAG
*
6669645 ATTTACTCACTTTTGTTTTCATTTAATTAAG
1 ATTTACTCACTTTCGTTTTCATTTAATTAAG
6669676 AT
1 AT
6669678 GTGGTTAGTG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.27, C:0.11, G:0.08, T:0.55
Consensus pattern (31 bp):
ATTTACTCACTTTCGTTTTCATTTAATTAAG
Found at i:6677184 original size:18 final size:19
Alignment explanation
Indices: 6677143--6677184 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
6677133 TCATACTATT
*
6677143 TTTTTTGTATTTTTTCTGA
1 TTTTTTATATTTTTTCTGA
6677162 -TTTTTATA-TTTTTCTGA
1 TTTTTTATATTTTTTCTGA
6677179 TTTTTT
1 TTTTTT
6677185 TAAATTTACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.12, C:0.05, G:0.07, T:0.76
Consensus pattern (19 bp):
TTTTTTATATTTTTTCTGA
Found at i:6677316 original size:7 final size:7
Alignment explanation
Indices: 6677304--6677328 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
6677294 AACCTAGGTG
6677304 TTTCAAA
1 TTTCAAA
6677311 TTTCAAA
1 TTTCAAA
6677318 TTTCAAA
1 TTTCAAA
6677325 TTTC
1 TTTC
6677329 CACGAGCCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.36, C:0.16, G:0.00, T:0.48
Consensus pattern (7 bp):
TTTCAAA
Found at i:6693504 original size:59 final size:58
Alignment explanation
Indices: 6693351--6693525 Score: 165
Period size: 60 Copynumber: 2.9 Consensus size: 58
6693341 TAATTCAAGA
* * **
6693351 ATGAAATTAGAGTATTCAAAAGTTTAAGGACCAATTTAAAAAAAATGTTATAGTTTACAG
1 ATGAAATTAAAATATTCAAAAGTTTAAGGATTAATTTAAAAAAAA--TTATAGTTTACAG
* * * * * *
6693411 AT-AAAATAAGAATGTTCAAAAGTTTAGGGTTTAATATAAAAAAAATTCATAGTTTGA-GG
1 ATGAAATTAA-AATATTCAAAAGTTTAAGGATTAATTTAAAAAAAATT-ATAGTTT-ACAG
* *
6693470 GTGAAATTAAAATATTCAAAAGTTTAAAGATTAATTTAAAATAAAAATTATAGTTT
1 ATGAAATTAAAATATTCAAAAGTTTAAGGATTAATTT-AAA-AAAAATTATAGTTT
6693526 TAAGACATGA
Statistics
Matches: 92, Mismatches: 17, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
58 2 0.02
59 36 0.39
60 47 0.51
61 7 0.08
ACGTcount: A:0.49, C:0.04, G:0.14, T:0.34
Consensus pattern (58 bp):
ATGAAATTAAAATATTCAAAAGTTTAAGGATTAATTTAAAAAAAATTATAGTTTACAG
Found at i:6693673 original size:23 final size:23
Alignment explanation
Indices: 6693643--6693690 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
6693633 CACCATCTTT
6693643 CACCATGATTCAACGTTAAGCTC
1 CACCATGATTCAACGTTAAGCTC
*
6693666 CACCATGATTCAACGTTGAGCTC
1 CACCATGATTCAACGTTAAGCTC
6693689 CA
1 CA
6693691 TGAATGTTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.29, C:0.31, G:0.15, T:0.25
Consensus pattern (23 bp):
CACCATGATTCAACGTTAAGCTC
Found at i:6697689 original size:65 final size:65
Alignment explanation
Indices: 6697557--6697716 Score: 213
Period size: 65 Copynumber: 2.5 Consensus size: 65
6697547 TGCACTAAGA
* *
6697557 GTGCACCGATGCATGAAGA-GCATTCGATG-TTTCAAAATAGCCTGCATGCATCGATGCATGGCT
1 GTGCATCGATGCATGAA-ATGCATTCGATGTTTTCAAAATAACCTGCATGCATCGATGCATGGCT
6697620 T
65 T
* *
6697621 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAA-AACCTG-AGTGCATCGATGCGTGG-
1 GTGCATCGATGCATGAAATGCATTCGATGTTTTCA-AAATAACCTGCA-TGCATCGATGCATGGC
6697683 TAT
64 T-T
6697686 GTGCATCGATGCATGAAATGCATTCGATGTT
1 GTGCATCGATGCATGAAATGCATTCGATGTT
6697717 CAATTTATTC
Statistics
Matches: 86, Mismatches: 5, Indels: 9
0.86 0.05 0.09
Matches are distributed among these distances:
63 1 0.01
64 27 0.31
65 55 0.64
66 3 0.03
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.29
Consensus pattern (65 bp):
GTGCATCGATGCATGAAATGCATTCGATGTTTTCAAAATAACCTGCATGCATCGATGCATGGCTT
Found at i:6698464 original size:20 final size:20
Alignment explanation
Indices: 6698439--6698477 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
6698429 CAACAAATTT
*
6698439 AAACATCCAAAGCAATCCAG
1 AAACATCAAAAGCAATCCAG
*
6698459 AAACATCAAAATCAATCCA
1 AAACATCAAAAGCAATCCA
6698478 AGTATTAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.54, C:0.28, G:0.05, T:0.13
Consensus pattern (20 bp):
AAACATCAAAAGCAATCCAG
Found at i:6701054 original size:3 final size:3
Alignment explanation
Indices: 6701046--6701088 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
6701036 ATATTAGTAA
*
6701046 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AGT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
6701089 AGTGTGTTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:6703324 original size:30 final size:30
Alignment explanation
Indices: 6703259--6703324 Score: 71
Period size: 30 Copynumber: 2.2 Consensus size: 30
6703249 ATATTTTTAC
* *
6703259 TATTTTAGTCTTTTAAATTTCTGTTTGTGT
1 TATTTTAGTCCTTTAAATTTCTATTTGTGT
* * *
6703289 CATTTTAGTCCTTTAATTTTTTAATTT-TGT
1 TATTTTAGTCCTTTAAATTTCT-ATTTGTGT
6703319 TATTTT
1 TATTTT
6703325 GATTCTTAAG
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
30 26 0.90
31 3 0.10
ACGTcount: A:0.18, C:0.08, G:0.09, T:0.65
Consensus pattern (30 bp):
TATTTTAGTCCTTTAAATTTCTATTTGTGT
Found at i:6714783 original size:9 final size:9
Alignment explanation
Indices: 6714721--6714783 Score: 55
Period size: 8 Copynumber: 7.6 Consensus size: 9
6714711 TATGCTTGAA
*
6714721 GAAAAAAAA
1 GAAAAAAAT
*
6714730 GAAACAAAT
1 GAAAAAAAT
*
6714739 -AAAAAGAT
1 GAAAAAAAT
6714747 GAAAAAAAT
1 GAAAAAAAT
6714756 G-AAAAAA-
1 GAAAAAAAT
*
6714763 -AAAGAAAT
1 GAAAAAAAT
6714771 -AAAAAAAT
1 GAAAAAAAT
6714779 GAAAA
1 GAAAA
6714784 GAGAAAAATG
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
7 5 0.12
8 19 0.44
9 19 0.44
ACGTcount: A:0.79, C:0.02, G:0.11, T:0.08
Consensus pattern (9 bp):
GAAAAAAAT
Found at i:6715909 original size:136 final size:136
Alignment explanation
Indices: 6715665--6716150 Score: 796
Period size: 136 Copynumber: 3.6 Consensus size: 136
6715655 GAACCAACAC
*
6715665 TTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAATGAGA
1 TTCCAATGAAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAATGAGA
** *
6715730 AGAGCTTGTTCAACCTATCACTCGATTCAGGACATTTCGAATCAGTGACACCTTGCTTGAGGGAT
66 AGAGCTTGTTCAACCTATCACTCGATTCACAACATTTCGAATCAGTGACACCTCGCTTGAGGGAT
*
6715795 CAGTAT
131 CAATAT
*
6715801 TTCCAAT-AGAGAGTTCATAATGAGAAGAACTCGTCCGACAGAGGGAGAAGAAGTTCATAATGAG
1 TTCCAATGA-AGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAATGAG
* *
6715865 AAGAGCTTGTTCAACATATCACTCGATTCACAACATTTTGAATCAGTGACACCTCGCTTGAGGGA
65 AAGAGCTTGTTCAACCTATCACTCGATTCACAACATTTCGAATCAGTGACACCTCGCTTGAGGGA
*
6715930 TCAACAT
130 TCAATAT
* *
6715937 TTCCAGTGAAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAAAAGTTCATAATGAGA
1 TTCCAATGAAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAATGAGA
*
6716002 AGAGCTTGTTCAACCTATCACTCGATTCACAATATTTCGAATCAGTGACACCTCGCTTGAGGGAT
66 AGAGCTTGTTCAACCTATCACTCGATTCACAACATTTCGAATCAGTGACACCTCGCTTGAGGGAT
6716067 CAATAT
131 CAATAT
* * * *
6716073 TTCCAGTGAAGAGTTCATAATGAGAAGAAATCATCCAAC-GAGGAAGAAGAAGTTCATAATGAGA
1 TTCCAATGAAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAATGAGA
*
6716137 AGAACTTGTTCAAC
66 AGAGCTTGTTCAAC
6716151 TTCGCATCAA
Statistics
Matches: 327, Mismatches: 21, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
135 36 0.11
136 290 0.89
137 1 0.00
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.24
Consensus pattern (136 bp):
TTCCAATGAAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAATGAGA
AGAGCTTGTTCAACCTATCACTCGATTCACAACATTTCGAATCAGTGACACCTCGCTTGAGGGAT
CAATAT
Found at i:6716669 original size:332 final size:331
Alignment explanation
Indices: 6716063--6717034 Score: 1518
Period size: 332 Copynumber: 2.9 Consensus size: 331
6716053 CTCGCTTGAG
* * * * * * *
6716063 GGATCAATATTTCCAGTGAAGAGTTCATAATGAGAAGAAATCATCCAACGAG-GAAGAAGAAGTT
1 GGATCAACATTTCCAATGGAGAGTTCATAATAAGAAGAACTCATCCAATGAGAG-AGAATAAGTT
*
6716127 CATAATGAGAAGAACTTGTTCAACTTCGCATCAACATTTTCAATGGAGAGCTCATAATGAGAAGA
65 CATAATGAGAAGAACTTGTCCAACTTCGCATCAACATTTTCAATGGAGAGCTCATAATGAGAAGA
* * * * * *
6716192 ACTCGTCCGAAAGAGGTAGAAGAAGTTCATAATGAGAAGAGCCTATTCGACCTATTATTAGATTC
130 ACTCGTCCGAAAGAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCGACCTATCACTCGATTC
* * * *
6716257 ACGGCATTTCAAATTAGTGACACCTCGCTTGAGGGATTGATATTTTCAGAAGAGTTCATAATGAG
195 ATGACATTTCGAATTAGTGACACCTC-CTTGAGGGATTGACATTTTCAGAAGAGTTCATAATGAG
6716322 AAGAACTCGTCCTAAAGGAGAAAGTTCATAATGAGAAGAACTTGTTCCTTTCAAGTCCATCACAG
259 AAGAACTCGTCCTAAAGGAGAAAGTTCATAATGAGAAGAACTTGTTCCTTTCAAGTCCATCACAG
6716387 AAAGAGAT
324 AAAGAGAT
*
6716395 GGATCAACATTTTCAATGGAGAGTTCATAATAAGAAGAACTCATCCAATGAGAGAGAATAAGTTC
1 GGATCAACATTTCCAATGGAGAGTTCATAATAAGAAGAACTCATCCAATGAGAGAGAATAAGTTC
* *
6716460 ATAATGAGAAGAACTTGTCCAACTTTGCATTAACATTTTCAATGGAGAGCTCATAATGAGAAGAA
66 ATAATGAGAAGAACTTGTCCAACTTCGCATCAACATTTTCAATGGAGAGCTCATAATGAGAAGAA
* *
6716525 CTCGTCCGAAAGAGGGAGAAGAAGTTAATAATGAGAAGAGCTTGTTCGACCTATCACTCGATTCA
131 CTCGTCCGAAAGAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCGACCTATCACTCGATTCA
6716590 TGACATTTCGAATTAGTGACACCTCACTTGAGGGATTGACATTTTCAGAAGAGTTCATAATGAGA
196 TGACATTTCGAATTAGTGACACCTC-CTTGAGGGATTGACATTTTCAGAAGAGTTCATAATGAGA
**
6716655 AGAACTCGTCCTAAAGGAGAAAGTTCATAATGAGAAGAACTTGTTTGTTTCAAGTCCATCACAGA
260 AGAACTCGTCCTAAAGGAGAAAGTTCATAATGAGAAGAACTTGTTCCTTTCAAGTCCATCACAGA
6716720 AAGAGAT
325 AAGAGAT
*
6716727 GGATCAACATTTCCAATGGAGAGTTCATAATAAGAAGAACTCATCCAATGAGAGAGAATAAATTC
1 GGATCAACATTTCCAATGGAGAGTTCATAATAAGAAGAACTCATCCAATGAGAGAGAATAAGTTC
*
6716792 ATAATGAGAAGAACTTGTCCAACTTCACATCAACATTTTCAATGGAGAGCTCATAATGAGAAGAA
66 ATAATGAGAAGAACTTGTCCAACTTCGCATCAACATTTTCAATGGAGAGCTCATAATGAGAAGAA
* *
6716857 CTCATCC-AATGAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCGACCTATCACTCGATTCA
131 CTCGTCCGAAAGAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCGACCTATCACTCGATTCA
* * * * *
6716921 TGACATTTCGAATCAGTGACGCCTCGTTAGAGGGATTGACATTTCCAAAAGAGTTCATAATGAGA
196 TGACATTTCGAATTAGTGACACCTCCTT-GAGGGATTGACATTTTCAGAAGAGTTCATAATGAGA
* * *
6716986 AGAACTCATCC-ACGAGAAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
260 AGAACTCGTCCTA-AAG-GAG-A-AAGTTCATAATGAGAAGAACTTGTTC
6717035 AATCTAACGA
Statistics
Matches: 591, Mismatches: 43, Indels: 10
0.92 0.07 0.02
Matches are distributed among these distances:
330 3 0.01
331 123 0.21
332 438 0.74
333 2 0.00
334 25 0.04
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.25
Consensus pattern (331 bp):
GGATCAACATTTCCAATGGAGAGTTCATAATAAGAAGAACTCATCCAATGAGAGAGAATAAGTTC
ATAATGAGAAGAACTTGTCCAACTTCGCATCAACATTTTCAATGGAGAGCTCATAATGAGAAGAA
CTCGTCCGAAAGAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCGACCTATCACTCGATTCA
TGACATTTCGAATTAGTGACACCTCCTTGAGGGATTGACATTTTCAGAAGAGTTCATAATGAGAA
GAACTCGTCCTAAAGGAGAAAGTTCATAATGAGAAGAACTTGTTCCTTTCAAGTCCATCACAGAA
AGAGAT
Found at i:6716884 original size:91 final size:91
Alignment explanation
Indices: 6716729--6716900 Score: 274
Period size: 91 Copynumber: 1.9 Consensus size: 91
6716719 AAAGAGATGG
* *
6716729 ATCAACATTTCCAATGGAGAGTTCATAATAAGAAGAACTCATCCAATGAGAGAGAATAAATTCAT
1 ATCAACATTTCCAATGGAGAGCTCATAATAAGAAGAACTCATCCAATGAGAGAGAAGAAATTCAT
6716794 AATGAGAAGAACTTGTCCAACTTCAC
66 AATGAGAAGAACTTGTCCAACTTCAC
* * *
6716820 ATCAACATTTTCAATGGAGAGCTCATAATGAGAAGAACTCATCCAATGAG-GAAGAAGAAGTTCA
1 ATCAACATTTCCAATGGAGAGCTCATAATAAGAAGAACTCATCCAATGAGAG-AGAAGAAATTCA
*
6716884 TAATGAGAAGAGCTTGT
65 TAATGAGAAGAACTTGT
6716901 TCGACCTATC
Statistics
Matches: 74, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
90 1 0.01
91 73 0.99
ACGTcount: A:0.42, C:0.16, G:0.19, T:0.24
Consensus pattern (91 bp):
ATCAACATTTCCAATGGAGAGCTCATAATAAGAAGAACTCATCCAATGAGAGAGAAGAAATTCAT
AATGAGAAGAACTTGTCCAACTTCAC
Found at i:6717175 original size:3 final size:3
Alignment explanation
Indices: 6717160--6717202 Score: 61
Period size: 3 Copynumber: 14.7 Consensus size: 3
6717150 GGGTTAAAAA
* *
6717160 TAT TAT TA- AAT TAT TAT TAT TAT TAT TAT TAG TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
6717203 AGTGTGTTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
2 1 0.03
3 34 0.97
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:6719437 original size:30 final size:30
Alignment explanation
Indices: 6719372--6719437 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
6719362 ATATTTTTAC
* *
6719372 TATTTTAGTCTTTTAAATTTTTGTTTGTGT
1 TATTTTAGTCCTTTAAATTTTTATTTGTGT
* *
6719402 CATTTTAGTCCTTTAATTTTTTAATTT-TGT
1 TATTTTAGTCCTTTAAATTTTT-ATTTGTGT
6719432 TATTTT
1 TATTTT
6719438 GATTCTTAAG
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
30 27 0.90
31 3 0.10
ACGTcount: A:0.18, C:0.06, G:0.09, T:0.67
Consensus pattern (30 bp):
TATTTTAGTCCTTTAAATTTTTATTTGTGT
Found at i:6724051 original size:65 final size:65
Alignment explanation
Indices: 6723916--6724075 Score: 193
Period size: 65 Copynumber: 2.5 Consensus size: 65
6723906 TGCACTAAGA
* * * * *
6723916 GTGCATCGATGCATGAAGA-GCATTCGATG-TTTCAAAATAGCCTGCGTGCATCGATGCATGGCT
1 GTGCATCGATGCATCAA-ATGCATTCGATGTTTTCAAAATACCCTGAGTGCATCGATGCATCGAT
6723979 T
65 T
*
6723980 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAA-ACCCTGAGTGTATCGATGCA-CGAT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTTCA-AAATACCCTGAGTGCATCGATGCATCGAT
6724043 AT
65 -T
* *
6724045 GTGCATCGATGCATTAAATGTATTCGATGTT
1 GTGCATCGATGCATCAAATGCATTCGATGTT
6724076 CAATTTATTC
Statistics
Matches: 84, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
63 1 0.01
64 28 0.33
65 52 0.62
66 3 0.04
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (65 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTTCAAAATACCCTGAGTGCATCGATGCATCGATT
Found at i:6727179 original size:30 final size:30
Alignment explanation
Indices: 6727143--6727232 Score: 171
Period size: 30 Copynumber: 3.0 Consensus size: 30
6727133 CCTGTCAGAT
*
6727143 TAAATGTCATAGGTTTCTAATTGATAGTGC
1 TAAATGTCATACGTTTCTAATTGATAGTGC
6727173 TAAATGTCATACGTTTCTAATTGATAGTGC
1 TAAATGTCATACGTTTCTAATTGATAGTGC
6727203 TAAATGTCATACGTTTCTAATTGATAGTGC
1 TAAATGTCATACGTTTCTAATTGATAGTGC
6727233 ATTCTTATTT
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 59 1.00
ACGTcount: A:0.30, C:0.12, G:0.18, T:0.40
Consensus pattern (30 bp):
TAAATGTCATACGTTTCTAATTGATAGTGC
Found at i:6732391 original size:2 final size:2
Alignment explanation
Indices: 6732380--6732419 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
6732370 ATTCAAAGCA
6732380 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6732420 AACACTTTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6744380 original size:43 final size:43
Alignment explanation
Indices: 6744332--6744416 Score: 161
Period size: 43 Copynumber: 2.0 Consensus size: 43
6744322 TAAACCAGTT
6744332 AAAATCTAAAATTTTATGTGAAACCCATGATGGACCCCTACAA
1 AAAATCTAAAATTTTATGTGAAACCCATGATGGACCCCTACAA
*
6744375 AAAATCTAAAATTTTATGTGAAACCCATGATGGATCCCTACA
1 AAAATCTAAAATTTTATGTGAAACCCATGATGGACCCCTACA
6744417 TAATTCCGAA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.41, C:0.20, G:0.12, T:0.27
Consensus pattern (43 bp):
AAAATCTAAAATTTTATGTGAAACCCATGATGGACCCCTACAA
Found at i:6744461 original size:31 final size:31
Alignment explanation
Indices: 6744426--6744537 Score: 188
Period size: 31 Copynumber: 3.6 Consensus size: 31
6744416 ATAATTCCGA
*
6744426 ATCGTGTCGTGATAGTACAATCGTAGGTCGT
1 ATCGTGTCGTGATAGTACAATTGTAGGTCGT
*
6744457 ATCGTGTTGTGATAGTACAATTGTAGGTCGT
1 ATCGTGTCGTGATAGTACAATTGTAGGTCGT
*
6744488 ATCATGTCGTGATAGTACAATTGTAGGTCGT
1 ATCGTGTCGTGATAGTACAATTGTAGGTCGT
*
6744519 ATCGTGTAGTGATAGTACA
1 ATCGTGTCGTGATAGTACA
6744538 TGTGCAACCA
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 75 1.00
ACGTcount: A:0.25, C:0.12, G:0.28, T:0.35
Consensus pattern (31 bp):
ATCGTGTCGTGATAGTACAATTGTAGGTCGT
Found at i:6747493 original size:14 final size:15
Alignment explanation
Indices: 6747466--6747504 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
6747456 TAAACTTAAA
6747466 ATTAAAATTAAAAAT
1 ATTAAAATTAAAAAT
6747481 ATTAAAA-TAAAAAT
1 ATTAAAATTAAAAAT
*
6747495 TTTATAAATT
1 ATTA-AAATT
6747505 TTATTTAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 10 0.48
15 10 0.48
16 1 0.05
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
ATTAAAATTAAAAAT
Found at i:6747676 original size:9 final size:8
Alignment explanation
Indices: 6747653--6747679 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
6747643 TAAAATTATC
6747653 AAATTTTT
1 AAATTTTT
6747661 AAATTTTT
1 AAATTTTT
6747669 AAATTTTT
1 AAATTTTT
6747677 AAA
1 AAA
6747680 AAATGCTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (8 bp):
AAATTTTT
Found at i:6753516 original size:13 final size:13
Alignment explanation
Indices: 6753498--6753527 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
6753488 AAGGAGGGGT
6753498 TCATGGATTTTTC
1 TCATGGATTTTTC
6753511 TCATGGATTTTTC
1 TCATGGATTTTTC
6753524 TCAT
1 TCAT
6753528 TCTCCACTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.17, C:0.17, G:0.13, T:0.53
Consensus pattern (13 bp):
TCATGGATTTTTC
Found at i:6754446 original size:20 final size:22
Alignment explanation
Indices: 6754418--6754460 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 22
6754408 TTAAATTATT
*
6754418 TCTTCAATTA-TTT-ATTTTAA
1 TCTTAAATTATTTTGATTTTAA
6754438 TCTTAAATTATTTTGATTTTAA
1 TCTTAAATTATTTTGATTTTAA
6754460 T
1 T
6754461 TGTAATTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 9 0.45
21 3 0.15
22 8 0.40
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.60
Consensus pattern (22 bp):
TCTTAAATTATTTTGATTTTAA
Found at i:6754497 original size:15 final size:13
Alignment explanation
Indices: 6754446--6754490 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
6754436 AATCTTAAAT
*
6754446 TATTTTGATTTTA
1 TATTTTTATTTTA
* *
6754459 -ATTGTAATTTTA
1 TATTTTTATTTTA
6754471 TATTTTTATTTTA
1 TATTTTTATTTTA
6754484 TATTTTT
1 TATTTTT
6754491 TTATTTTTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
12 10 0.37
13 17 0.63
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.71
Consensus pattern (13 bp):
TATTTTTATTTTA
Found at i:6755378 original size:20 final size:22
Alignment explanation
Indices: 6755353--6755395 Score: 72
Period size: 20 Copynumber: 2.0 Consensus size: 22
6755343 TTAAATTATT
6755353 TCTTAAATTA-TTT-ATTTTAA
1 TCTTAAATTATTTTGATTTTAA
6755373 TCTTAAATTATTTTGATTTTAA
1 TCTTAAATTATTTTGATTTTAA
6755395 T
1 T
6755396 TGTAATTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 10 0.48
21 3 0.14
22 8 0.38
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (22 bp):
TCTTAAATTATTTTGATTTTAA
Found at i:6755574 original size:17 final size:19
Alignment explanation
Indices: 6755544--6755581 Score: 53
Period size: 17 Copynumber: 2.1 Consensus size: 19
6755534 GATTTTTCTA
*
6755544 AAAATATAATATAAATTTT
1 AAAATATAATATAAATATT
6755563 AAAATA-AA-ATAAATATT
1 AAAATATAATATAAATATT
6755580 AA
1 AA
6755582 CTGAGTATCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 10 0.56
18 2 0.11
19 6 0.33
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (19 bp):
AAAATATAATATAAATATT
Done.