Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold107
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: 2327068
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 25 characters in sequence are not A, C, G, or T
File 5 of 15
Found at i:620241 original size:28 final size:28
Alignment explanation
Indices: 620078--620245 Score: 149
Period size: 28 Copynumber: 5.8 Consensus size: 28
620068 CTTTGGAAAA
* **
620078 GATGCCACCGACTTGTGGGCTTCGAAAAAG
1 GATGCCACTGACTTGTGGGCTT--TTAAAG
* * *
620108 GGTGCCACTGATTTGTGGGC-TTTGAAG
1 GATGCCACTGACTTGTGGGCTTTTAAAG
* *
620135 GTTGCCACTGACTTGTGGGCTTTTGAAAAAA
1 GATGCCACTGACTTGTGGGCTTTT---AAAG
* * * *
620166 AATGACACTGACTTGTGGGCTTTGAAAAA
1 GATGCCACTGACTTGTGGGCTTT-TAAAG
*
620195 GATGCCACTGACTTATGGGCTTTTAAAG
1 GATGCCACTGACTTGTGGGCTTTTAAAG
*
620223 GTTGCCACTGACTTGTGGGCTTT
1 GATGCCACTGACTTGTGGGCTTT
620246 GAAAAATATG
Statistics
Matches: 112, Mismatches: 21, Indels: 12
0.77 0.14 0.08
Matches are distributed among these distances:
27 21 0.19
28 27 0.24
29 25 0.22
30 17 0.15
31 22 0.20
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.30
Consensus pattern (28 bp):
GATGCCACTGACTTGTGGGCTTTTAAAG
Found at i:620250 original size:57 final size:57
Alignment explanation
Indices: 620068--620280 Score: 205
Period size: 57 Copynumber: 3.7 Consensus size: 57
620058 GAGTTGTCGA
* * ** * *
620068 CTTTGGAAAAGATGCCACCGACTTGTGGGCTTCGAAAAAGGGTGCCACTGATTTGTGGG
1 CTTTGAAAAAGATGCCACTGACTTGTGGGCTT--TTAAAGGATGCCACTGACTTGTGGG
* * ** *
620127 CTTTG--AAGGTTGCCACTGACTTGTGGGCTTTTGAAAAAAAATGACACTGACTTGTGGG
1 CTTTGAAAAAGATGCCACTGACTTGTGGGCTTTT---AAAGGATGCCACTGACTTGTGGG
* *
620185 CTTTGAAAAAGATGCCACTGACTTATGGGCTTTTAAAGGTTGCCACTGACTTGTGGG
1 CTTTGAAAAAGATGCCACTGACTTGTGGGCTTTTAAAGGATGCCACTGACTTGTGGG
* * * * *
620242 CTTTGAAAAATATGCCACTAACTTTTGGACTTTTGAAGG
1 CTTTGAAAAAGATGCCACTGACTTGTGGGCTTTTAAAGG
620281 GTGAGAAATG
Statistics
Matches: 127, Mismatches: 22, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
57 75 0.59
58 23 0.18
59 5 0.04
60 24 0.19
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.31
Consensus pattern (57 bp):
CTTTGAAAAAGATGCCACTGACTTGTGGGCTTTTAAAGGATGCCACTGACTTGTGGG
Found at i:621659 original size:1 final size:1
Alignment explanation
Indices: 621653--621702 Score: 55
Period size: 1 Copynumber: 50.0 Consensus size: 1
621643 TCCGGACCCC
* * * * *
621653 TTTTTTTTGTTTTTGTTTTTTTTTTTTGTTTTTGTTTTGTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
621703 GTGGAGGACG
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
1 39 1.00
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (1 bp):
T
Found at i:621667 original size:6 final size:6
Alignment explanation
Indices: 621656--621704 Score: 64
Period size: 6 Copynumber: 8.2 Consensus size: 6
621646 GGACCCCTTT
* *
621656 TTTTTG TTTTTG TTTTTTT TTTTTG TTTTTG -TTTTG TTTTTT TTTTTG
1 TTTTTG TTTTTG -TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG
621704 T
1 T
621705 GGAGGACGTC
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
5 5 0.14
6 27 0.73
7 5 0.14
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (6 bp):
TTTTTG
Found at i:621675 original size:19 final size:20
Alignment explanation
Indices: 621653--621699 Score: 87
Period size: 19 Copynumber: 2.4 Consensus size: 20
621643 TCCGGACCCC
621653 TTTTTTTTGTTTTTGTTTT-
1 TTTTTTTTGTTTTTGTTTTG
621672 TTTTTTTTGTTTTTGTTTTG
1 TTTTTTTTGTTTTTGTTTTG
621692 TTTTTTTT
1 TTTTTTTT
621700 TTTGTGGAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 19 0.70
20 8 0.30
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (20 bp):
TTTTTTTTGTTTTTGTTTTG
Found at i:621684 original size:25 final size:24
Alignment explanation
Indices: 621656--621702 Score: 85
Period size: 24 Copynumber: 1.9 Consensus size: 24
621646 GGACCCCTTT
621656 TTTTTGTTTTTGTTTTTTTTTTTTG
1 TTTTTG-TTTTGTTTTTTTTTTTTG
621681 TTTTTGTTTTGTTTTTTTTTTT
1 TTTTTGTTTTGTTTTTTTTTTT
621703 GTGGAGGACG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 16 0.73
25 6 0.27
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (24 bp):
TTTTTGTTTTGTTTTTTTTTTTTG
Found at i:635622 original size:52 final size:51
Alignment explanation
Indices: 635544--635692 Score: 235
Period size: 52 Copynumber: 2.9 Consensus size: 51
635534 CGAAATATGA
635544 AAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTG-ATAGTGTATCGATACATCTGGGC
* *
635596 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTGATAGTGTATCGATACATCTGGGC
**
635648 AAATTTGCCTGCATGTATCGATACAAAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTGAT-AGTGTATCGATACA
635693 ATGTATCGAT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
51 2 0.02
52 85 0.96
53 2 0.02
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTGATAGTGTATCGATACATCTGGGC
Found at i:635699 original size:13 final size:13
Alignment explanation
Indices: 635681--635705 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
635671 CAAAGATCAG
635681 TGTATCGATACAA
1 TGTATCGATACAA
635694 TGTATCGATACA
1 TGTATCGATACA
635706 TTTAGGTGAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:637257 original size:13 final size:13
Alignment explanation
Indices: 637239--637268 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
637229 ACAAAATACA
637239 AAAAATAAAAAAT
1 AAAAATAAAAAAT
*
637252 AAAAATAAAATAT
1 AAAAATAAAAAAT
637265 AAAA
1 AAAA
637269 GATTGAGTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (13 bp):
AAAAATAAAAAAT
Found at i:637797 original size:52 final size:50
Alignment explanation
Indices: 637683--637798 Score: 142
Period size: 52 Copynumber: 2.3 Consensus size: 50
637673 TAGACAGTAC
****
637683 ATGTATCGATACATTCTATTTTTTACCCAGATGTATCGATACATTTTTCA
1 ATGTATCGATACATTCTATTTTTTACCCAGATGTATCGATACATTGAAAA
* * * *
637733 ATCTATCAATACATTTTGTTCTTTTACCCTAGATGTATCGATACATTGAAAA
1 ATGTATCGATACATTCTATT-TTTTACCC-AGATGTATCGATACATTGAAAA
637785 ATGTATCGATACAT
1 ATGTATCGATACAT
637799 CTAGTTAATT
Statistics
Matches: 54, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
50 16 0.30
51 8 0.15
52 30 0.56
ACGTcount: A:0.31, C:0.17, G:0.10, T:0.41
Consensus pattern (50 bp):
ATGTATCGATACATTCTATTTTTTACCCAGATGTATCGATACATTGAAAA
Found at i:642241 original size:19 final size:21
Alignment explanation
Indices: 642196--642249 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
642186 ATTCAACAAT
642196 TTGTATCGATACAAACAGTAA
1 TTGTATCGATACAAACAGTAA
* *
642217 TTGTATCGATACATA-AGT-G
1 TTGTATCGATACAAACAGTAA
642236 TTGTATCGATACAA
1 TTGTATCGATACAA
642250 TGTATCGCTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
19 13 0.43
20 3 0.10
21 14 0.47
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (21 bp):
TTGTATCGATACAAACAGTAA
Found at i:646307 original size:33 final size:33
Alignment explanation
Indices: 646283--646358 Score: 107
Period size: 33 Copynumber: 2.3 Consensus size: 33
646273 AATTCATCAT
*
646283 GTATTGATACATTGCATCGATACAATGTGCCAC
1 GTATCGATACATTGCATCGATACAATGTGCCAC
* * *
646316 GTATCGATACATTGTATCGATACAATGTGACAT
1 GTATCGATACATTGCATCGATACAATGTGCCAC
*
646349 ATATCGATAC
1 GTATCGATAC
646359 CGTAGACACC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Consensus pattern (33 bp):
GTATCGATACATTGCATCGATACAATGTGCCAC
Found at i:646817 original size:20 final size:19
Alignment explanation
Indices: 646792--646865 Score: 94
Period size: 20 Copynumber: 3.7 Consensus size: 19
646782 TTTACCCAGA
646792 TGTATCGATACATTTTGCAT
1 TGTATCGATACATTTT-CAT
*
646812 TGTATCGATACATTGCTCAT
1 TGTATCGATACATT-TTCAT
*
646832 TGTATCGATACATTTTACAA
1 TGTATCGATACATTTT-CAT
*
646852 TGTATCGACACATT
1 TGTATCGATACATT
646866 CAAGCATTTT
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
19 1 0.02
20 46 0.96
21 1 0.02
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.41
Consensus pattern (19 bp):
TGTATCGATACATTTTCAT
Found at i:649232 original size:51 final size:50
Alignment explanation
Indices: 649171--649332 Score: 204
Period size: 51 Copynumber: 3.2 Consensus size: 50
649161 TTCATCTCGA
* *
649171 GGATACTCCAA-TCTCGGTTTCATTTCCAAAACATCAATTTTTCTTAATCGG
1 GGATACTCCAACTC-CGGTTTTATTTCTAAAACATCAATTTTTC-TAATCGG
* * * * *
649222 GGATACTCCAACTCCGATTTTATTTCTAAAACACCCATTTTCCATAATCGA
1 GGATACTCCAACTCCGGTTTTATTTCTAAAACATCAATTTTTC-TAATCGG
*
649273 GAATACTCCAACTCCGGTTTTATTTCTAAAACATCAATTTTTC--ATCGG
1 GGATACTCCAACTCCGGTTTTATTTCTAAAACATCAATTTTTCTAATCGG
649321 GGATACTCCAAC
1 GGATACTCCAAC
649333 CCCGTTATTT
Statistics
Matches: 95, Mismatches: 15, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
48 15 0.16
51 78 0.82
52 2 0.02
ACGTcount: A:0.30, C:0.25, G:0.10, T:0.35
Consensus pattern (50 bp):
GGATACTCCAACTCCGGTTTTATTTCTAAAACATCAATTTTTCTAATCGG
Found at i:649366 original size:76 final size:76
Alignment explanation
Indices: 649275--649498 Score: 279
Period size: 76 Copynumber: 2.9 Consensus size: 76
649265 ATAATCGAGA
*
649275 ATACTCCAACTCCGGTTTTATTTCTAAAACATCAATTTTTCATCGGGGATACTCCAACCCCGTTA
1 ATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATCGGGGATACTCCAACCCCGTTA
*
649340 TTTTCGAGGGG
66 TTTCCGAGGGG
* * * *
649351 ATACTCCAACCCCGGTATTATTTCTAAAACATCAAATTTTCATC-TGGATACTCCAACCTCGTTA
1 ATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATCGGGGATACTCCAACCCCGTTA
649415 TTTCCGAGGGG
66 TTTCCGAGGGG
* * * * * * *
649426 ATACTCCAACCGCGGCTTTATATGTAAAAACACCCATTTTTCATAATCGGGGGTACTCCAACCCC
1 ATACTCCAACCCCGGTTTTATTTCT-AAAACATCAATTTTTC---ATCGGGGATACTCCAACCCC
*
649491 ATTATTTC
62 GTTATTTC
649499 ATCGAGGATA
Statistics
Matches: 125, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
75 48 0.38
76 54 0.43
79 3 0.02
80 20 0.16
ACGTcount: A:0.27, C:0.27, G:0.14, T:0.32
Consensus pattern (76 bp):
ATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATCGGGGATACTCCAACCCCGTTA
TTTCCGAGGGG
Found at i:649510 original size:28 final size:27
Alignment explanation
Indices: 649479--649547 Score: 86
Period size: 28 Copynumber: 2.5 Consensus size: 27
649469 TAATCGGGGG
649479 TACTCCAACCCCATTATTTCATCGA-GGA
1 TACTCCAACCCCATTATTT--TCGAGGGA
* *
649507 TACTCTAATCCCATTATTTTCGAGGGGA
1 TACTCCAACCCCATTATTTTCGA-GGGA
649535 TACTCCAACCCCA
1 TACTCCAACCCCA
649548 ATTTTTATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
26 4 0.11
28 31 0.89
ACGTcount: A:0.28, C:0.32, G:0.12, T:0.29
Consensus pattern (27 bp):
TACTCCAACCCCATTATTTTCGAGGGA
Found at i:649682 original size:79 final size:78
Alignment explanation
Indices: 649504--649750 Score: 271
Period size: 80 Copynumber: 3.1 Consensus size: 78
649494 ATTTCATCGA
* * * * *
649504 GGATACTCTAATCCCATTATTTTCGAGGGGATACTCCAACCCCAATTTTTATTTTCAAAACACCA
1 GGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGATTTTTA-TTTCAAAACACGA
* * **
649569 ATTTCTCACAATTGG
65 TTTTCT-ATAATCAG
* * *
649584 GGATACTCCAACCCCGTTATTTTTGCGGGGATACTCCAACCCCGA-TTTTAGTTTCAAAATATCG
1 GGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGATTTTTA-TTTCAAAACA-CG
649648 ATTTTCTATAATCAG
64 ATTTTCTATAATCAG
* ** *
649663 GGATACTCCAACCCTGTTATTTTCGAGGGGATACTCCAACCTTGATTTTTATTTCTAGAACACCG
1 GGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGATTTTTATTTC-AAAACA-CG
* *
649728 ATATTCCATAATCAG
64 ATTTTCTATAATCAG
649743 GGATACTC
1 GGATACTC
649751 TAGCCCAGTT
Statistics
Matches: 141, Mismatches: 23, Indels: 6
0.83 0.14 0.04
Matches are distributed among these distances:
79 63 0.45
80 78 0.55
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (78 bp):
GGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGATTTTTATTTCAAAACACGAT
TTTCTATAATCAG
Found at i:650734 original size:19 final size:19
Alignment explanation
Indices: 650691--650763 Score: 94
Period size: 20 Copynumber: 3.7 Consensus size: 19
650681 CTGGAAGTTT
*
650691 CATGTATCGATACAATTGTA
1 CATGTATCGATACAA-TGAA
650711 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
*
650730 CATGTATCGATACAAAGCATA
1 CATGTATCGATACAATG-A-A
650751 -ATGTATCGATACA
1 CATGTATCGATACA
650764 TCTAGGTGTG
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
19 19 0.39
20 29 0.59
21 1 0.02
ACGTcount: A:0.40, C:0.16, G:0.15, T:0.29
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:651350 original size:21 final size:21
Alignment explanation
Indices: 651319--651366 Score: 80
Period size: 22 Copynumber: 2.3 Consensus size: 21
651309 AGGTATCGTT
651319 TAAAAAATTTCT-CCCCTTGA
1 TAAAAAATTTCTCCCCCTTGA
651339 TAAAAAATTTTCTCCCCCTTGA
1 TAAAAAA-TTTCTCCCCCTTGA
651361 TAAAAA
1 TAAAAA
651367 TTTATTTTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 7 0.27
21 5 0.19
22 14 0.54
ACGTcount: A:0.40, C:0.23, G:0.04, T:0.33
Consensus pattern (21 bp):
TAAAAAATTTCTCCCCCTTGA
Found at i:651367 original size:21 final size:20
Alignment explanation
Indices: 651319--651369 Score: 75
Period size: 21 Copynumber: 2.5 Consensus size: 20
651309 AGGTATCGTT
*
651319 TAAAAAATTTCTCCCCTTGA
1 TAAAAATTTTCTCCCCTTGA
651339 TAAAAAATTTTCTCCCCCTTGA
1 T-AAAAATTTTCT-CCCCTTGA
651361 TAAAAATTT
1 TAAAAATTT
651370 ATTTTCAAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 1 0.04
21 18 0.64
22 9 0.32
ACGTcount: A:0.37, C:0.22, G:0.04, T:0.37
Consensus pattern (20 bp):
TAAAAATTTTCTCCCCTTGA
Found at i:653236 original size:13 final size:13
Alignment explanation
Indices: 653214--653247 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
653204 AAATAGTAAC
653214 CAATGAATCGATA
1 CAATGAATCGATA
*
653227 CAATGTATCGATA
1 CAATGAATCGATA
*
653240 CAAAGAAT
1 CAATGAAT
653248 ATTGTATCGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.47, C:0.15, G:0.15, T:0.24
Consensus pattern (13 bp):
CAATGAATCGATA
Found at i:654698 original size:34 final size:34
Alignment explanation
Indices: 654655--654722 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
654645 TCTATTAAAA
654655 CCTTTTTCAATCAAAAATTTT-AAAAGCCTTTCGT
1 CCTTTTTCAATCAAAAATTTTGAAAA-CCTTTCGT
654689 CCTTTTTCAATCAAAAATTTTGAAAACCTTTCGT
1 CCTTTTTCAATCAAAAATTTTGAAAACCTTTCGT
654723 ACGAAGCTCG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
34 29 0.88
35 4 0.12
ACGTcount: A:0.32, C:0.21, G:0.06, T:0.41
Consensus pattern (34 bp):
CCTTTTTCAATCAAAAATTTTGAAAACCTTTCGT
Found at i:656104 original size:13 final size:13
Alignment explanation
Indices: 656086--656111 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
656076 TACAGCAAGT
656086 ATGTATCGATACA
1 ATGTATCGATACA
656099 ATGTATCGATACA
1 ATGTATCGATACA
656112 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:658359 original size:21 final size:21
Alignment explanation
Indices: 658326--658371 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
658316 TTGCAAGTTG
*
658326 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
658348 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
658368 AAAT
1 AAAT
658372 GAAAACTTGC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 6 0.27
21 9 0.41
22 7 0.32
ACGTcount: A:0.52, C:0.04, G:0.20, T:0.24
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:662294 original size:20 final size:20
Alignment explanation
Indices: 662215--662294 Score: 79
Period size: 20 Copynumber: 3.8 Consensus size: 20
662205 AATGTCCAAA
*
662215 ATGTATCGATACATGTTTCT
1 ATGTATCGATACATTTTTCT
* *
662235 GTGTATCGATACATCTGAAAATTCT
1 ATGTATCGATACAT-T----TTTCT
662260 ATGTATCGATACATTTTTCT
1 ATGTATCGATACATTTTTCT
*
662280 TTGTATCGATACATT
1 ATGTATCGATACATT
662295 GTATCGATAC
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
20 31 0.63
24 1 0.02
25 17 0.35
ACGTcount: A:0.28, C:0.15, G:0.14, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCT
Found at i:662298 original size:13 final size:13
Alignment explanation
Indices: 662280--662318 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
662270 ACATTTTTCT
662280 TTGTATCGATACA
1 TTGTATCGATACA
662293 TTGTATCGATACA
1 TTGTATCGATACA
*
662306 CTGTATCGATACA
1 TTGTATCGATACA
662319 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:664872 original size:13 final size:13
Alignment explanation
Indices: 664854--664879 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
664844 TACAGCAACT
664854 ATGTATCGATACA
1 ATGTATCGATACA
664867 ATGTATCGATACA
1 ATGTATCGATACA
664880 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:669236 original size:33 final size:33
Alignment explanation
Indices: 669194--669258 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
669184 TTTGAAGCAA
669194 TGTATCGATACAAT-T-CATCATGTATCAATACAT
1 TGTATCGATACAATGTGC--CATGTATCAATACAT
669227 TGTATCGATACAATGTGCCATGTATCAATACA
1 TGTATCGATACAATGTGCCATGTATCAATACA
669259 AACATTGGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
33 28 0.93
34 1 0.03
35 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.34
Consensus pattern (33 bp):
TGTATCGATACAATGTGCCATGTATCAATACAT
Found at i:669315 original size:96 final size:96
Alignment explanation
Indices: 669193--669417 Score: 398
Period size: 96 Copynumber: 2.3 Consensus size: 96
669183 ATTTGAAGCA
669193 ATGTATCGATACAATTCATCATGTATCAATACATTGTATCGATACAATGTGCCATGTATCAATAC
1 ATGTATCGATACAATTCATCATGTATCAATACATTGTATCGATACAATGTGCCATGTATCAATAC
669258 AAACATTGGTAGGGTAGCTACTGCCTGTTTC
66 AAACATTGGTAGGGTAGCTACTGCCTGTTTC
* *
669289 ATGTATCGATATAATTCATCATGTATCAATACATTGTATCGATACAATGTGCCATGTATCGATAC
1 ATGTATCGATACAATTCATCATGTATCAATACATTGTATCGATACAATGTGCCATGTATCAATAC
669354 AAACATTGGTAGGGTAGCTACTGCCTGTTTC
66 AAACATTGGTAGGGTAGCTACTGCCTGTTTC
* *
669385 ATGTATCGATACAATT-GTACATGTATCGATACA
1 ATGTATCGATACAATTCAT-CATGTATCAATACA
669418 ATGAACATGT
Statistics
Matches: 123, Mismatches: 5, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
95 1 0.01
96 122 0.99
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.34
Consensus pattern (96 bp):
ATGTATCGATACAATTCATCATGTATCAATACATTGTATCGATACAATGTGCCATGTATCAATAC
AAACATTGGTAGGGTAGCTACTGCCTGTTTC
Found at i:669409 original size:20 final size:20
Alignment explanation
Indices: 669384--669441 Score: 84
Period size: 19 Copynumber: 3.0 Consensus size: 20
669374 CTGCCTGTTT
669384 CATGTATCGATACAATTGTA
1 CATGTATCGATACAATTGTA
*
669404 CATGTATCGATACAA-TGAA
1 CATGTATCGATACAATTGTA
*
669423 CATGTATCAATAC-ATTGTA
1 CATGTATCGATACAATTGTA
669442 TCGATACAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
18 1 0.03
19 18 0.53
20 15 0.44
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.33
Consensus pattern (20 bp):
CATGTATCGATACAATTGTA
Found at i:669442 original size:32 final size:33
Alignment explanation
Indices: 669402--669470 Score: 99
Period size: 33 Copynumber: 2.2 Consensus size: 33
669392 GATACAATTG
*
669402 TACA-TGTATCGATACAATG-A-ACATGTATCAA
1 TACATTGTATCGATACAAAGCATA-ATGTATCAA
669433 TACATTGTATCGATACAAAGCATAATGTATCAA
1 TACATTGTATCGATACAAAGCATAATGTATCAA
669466 TACAT
1 TACAT
669471 CTGGGTGTGT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
31 4 0.12
32 14 0.41
33 15 0.44
34 1 0.03
ACGTcount: A:0.42, C:0.16, G:0.12, T:0.30
Consensus pattern (33 bp):
TACATTGTATCGATACAAAGCATAATGTATCAA
Found at i:669625 original size:21 final size:22
Alignment explanation
Indices: 669573--669629 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 22
669563 GAAGTATTTT
*
669573 TACTTAAAAACATTTGATTTAA
1 TACTCAAAAACATTTGATTTAA
*
669595 TATTCAAAAACATTTG-TTT-A
1 TACTCAAAAACATTTGATTTAA
*
669615 TAACTCTAAAACATT
1 T-ACTCAAAAACATT
669630 CGTTGATATA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 2 0.07
21 14 0.47
22 14 0.47
ACGTcount: A:0.44, C:0.12, G:0.04, T:0.40
Consensus pattern (22 bp):
TACTCAAAAACATTTGATTTAA
Found at i:670903 original size:13 final size:13
Alignment explanation
Indices: 670885--670909 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
670875 CATTTTACTA
670885 TGTATCGATACAT
1 TGTATCGATACAT
670898 TGTATCGATACA
1 TGTATCGATACA
670910 AACAGTGATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:670962 original size:20 final size:20
Alignment explanation
Indices: 670937--670993 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
670927 TACTATCAGT
670937 TTCATGTATCGATACAATTC
1 TTCATGTATCGATACAATTC
* * *
670957 TTCATGTATTGATATAA-TG
1 TTCATGTATCGATACAATTC
* *
670976 ATCATGTATCGATGCAAT
1 TTCATGTATCGATACAAT
670994 GTTTTGATAC
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
19 14 0.48
20 15 0.52
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.40
Consensus pattern (20 bp):
TTCATGTATCGATACAATTC
Found at i:670994 original size:19 final size:19
Alignment explanation
Indices: 670938--670994 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
670928 ACTATCAGTT
**
670938 TCATGTATCGATACAATTCT
1 TCATGTATCGATACAA-TGA
* *
670958 TCATGTATTGATATAATGA
1 TCATGTATCGATACAATGA
*
670977 TCATGTATCGATGCAATG
1 TCATGTATCGATACAATG
670995 TTTTGATACA
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
19 16 0.53
20 14 0.47
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.39
Consensus pattern (19 bp):
TCATGTATCGATACAATGA
Found at i:674000 original size:10 final size:10
Alignment explanation
Indices: 673982--674023 Score: 52
Period size: 10 Copynumber: 4.4 Consensus size: 10
673972 AATGAAGGAG
673982 ATTGATACCA
1 ATTGATACCA
*
673992 ATTGTTACCA
1 ATTGATACCA
*
674002 ATTGAT-GCA
1 ATTGATACCA
674011 A-TGATACCA
1 ATTGATACCA
674020 ATTG
1 ATTG
674024 TTGAAAGATT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
8 4 0.15
9 6 0.23
10 16 0.62
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33
Consensus pattern (10 bp):
ATTGATACCA
Found at i:675074 original size:36 final size:34
Alignment explanation
Indices: 674988--675085 Score: 114
Period size: 36 Copynumber: 2.9 Consensus size: 34
674978 CCTTACAACA
*
674988 CTATC-TTTCAAGGCTAAGATAGAA--AC-CTCC
1 CTATCTTTTCAAGGCTAAGATAGAACCTCTCTCC
* *
675018 CTATCTTTTCACGAGTTAAGATAGAACCTCTCTCC
1 CTATCTTTTCAAG-GCTAAGATAGAACCTCTCTCC
675053 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTC-AAGGCTAAGATAGAACCTCTC
675086 AATCACTTCA
Statistics
Matches: 56, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
30 5 0.09
31 6 0.11
32 11 0.20
34 1 0.02
35 9 0.16
36 22 0.39
37 2 0.04
ACGTcount: A:0.30, C:0.27, G:0.12, T:0.32
Consensus pattern (34 bp):
CTATCTTTTCAAGGCTAAGATAGAACCTCTCTCC
Found at i:675549 original size:22 final size:22
Alignment explanation
Indices: 675523--675588 Score: 75
Period size: 22 Copynumber: 3.1 Consensus size: 22
675513 ACTATTCATA
675523 ATGTATCGATACATGAACAGTG
1 ATGTATCGATACATGAACAGTG
* **
675545 ATGTATCAATACTATTCACA---
1 ATGTATCGATAC-ATGAACAGTG
675565 ATGTATCGATACATGAACAGTG
1 ATGTATCGATACATGAACAGTG
675587 AT
1 AT
675589 TAATAGTGAT
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
19 5 0.15
20 11 0.32
22 13 0.38
23 5 0.15
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (22 bp):
ATGTATCGATACATGAACAGTG
Found at i:680482 original size:21 final size:21
Alignment explanation
Indices: 680443--680496 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
680433 TACTTGCAAC
*
680443 TCATTTATTTTCTCCTCTAGT
1 TCATTTATTTTCTCCTCTAAT
**
680464 TCATTTATTTTCTTTTCTAAT
1 TCATTTATTTTCTCCTCTAAT
*
680485 TCACTTAATTTT
1 TCA-TTTATTTT
680497 TTATCAAGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
21 21 0.75
22 7 0.25
ACGTcount: A:0.19, C:0.19, G:0.02, T:0.61
Consensus pattern (21 bp):
TCATTTATTTTCTCCTCTAAT
Found at i:687791 original size:29 final size:29
Alignment explanation
Indices: 687749--687806 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
687739 AAACATATTA
687749 GTATGATGGTGAATGAAATAATACAACAT
1 GTATGATGGTGAATGAAATAATACAACAT
*
687778 GTATGATGGTGAATGAAATAATATAACAT
1 GTATGATGGTGAATGAAATAATACAACAT
687807 AGTTCATTCA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.45, C:0.05, G:0.21, T:0.29
Consensus pattern (29 bp):
GTATGATGGTGAATGAAATAATACAACAT
Found at i:695690 original size:20 final size:21
Alignment explanation
Indices: 695654--695692 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
695644 TATTATTATT
*
695654 TTTTAAATATAATAATAATTA
1 TTTTAAATATAAAAATAATTA
695675 TTTTAAA-ATAAAAATAAT
1 TTTTAAATATAAAAATAAT
695693 CATATAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
TTTTAAATATAAAAATAATTA
Found at i:702931 original size:19 final size:20
Alignment explanation
Indices: 702907--702960 Score: 83
Period size: 19 Copynumber: 2.8 Consensus size: 20
702897 AGATAATGCT
**
702907 TTGTATCGATACATGTTC-A
1 TTGTATCGATACATGCACAA
702926 TTGTATCGATACATGCACAA
1 TTGTATCGATACATGCACAA
702946 TTGTATCGATACATG
1 TTGTATCGATACATG
702961 AAACTAGCTG
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 16 0.50
20 16 0.50
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.37
Consensus pattern (20 bp):
TTGTATCGATACATGCACAA
Found at i:704646 original size:15 final size:15
Alignment explanation
Indices: 704623--704653 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
704613 ATCAAAGATA
704623 ATGAAGATAATGATG
1 ATGAAGATAATGATG
*
704638 ATGATGATAATGATG
1 ATGAAGATAATGATG
704653 A
1 A
704654 AGTTGACTCG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.26, T:0.29
Consensus pattern (15 bp):
ATGAAGATAATGATG
Found at i:712308 original size:52 final size:52
Alignment explanation
Indices: 712220--712337 Score: 161
Period size: 52 Copynumber: 2.3 Consensus size: 52
712210 TGAAAATTCG
*
712220 CTGCATGTATCGAT-CATTGAATAGTGTATCGATACATCTGGGCAAATTTAC
1 CTGCATGTATCGATACATTGAATAATGTATCGATACATCTGGGCAAATTTAC
* * ** *
712271 GTGCATGTATCGATACCTTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTGAATAATGTATCGATACATCTGGGCAAATTTAC
712323 CTGCA--TATCGATACA
1 CTGCATGTATCGATACA
712338 AAGACAGTGT
Statistics
Matches: 58, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
50 9 0.16
51 13 0.22
52 36 0.62
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.34
Consensus pattern (52 bp):
CTGCATGTATCGATACATTGAATAATGTATCGATACATCTGGGCAAATTTAC
Found at i:712363 original size:13 final size:13
Alignment explanation
Indices: 712345--712402 Score: 58
Period size: 13 Copynumber: 4.9 Consensus size: 13
712335 ACAAAGACAG
712345 TGTATCGATACAA
1 TGTATCGATACAA
712358 TGTATCGATAC-A
1 TGTATCGATACAA
712370 T-T-T-GAGT--AA
1 TGTATCGA-TACAA
712379 TGTA-CGATACAA
1 TGTATCGATACAA
712391 TGTATCGATACA
1 TGTATCGATACA
712403 TTTGAGAATG
Statistics
Matches: 37, Mismatches: 0, Indels: 16
0.70 0.00 0.30
Matches are distributed among these distances:
9 4 0.11
10 4 0.11
11 3 0.08
12 8 0.22
13 18 0.49
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:712392 original size:33 final size:33
Alignment explanation
Indices: 712345--712422 Score: 140
Period size: 33 Copynumber: 2.4 Consensus size: 33
712335 ACAAAGACAG
712345 TGTATCGATACAATGTATCGATACATTTGAGTAA
1 TGTATCGATACAATGTATCGATACATTTGAG-AA
712379 TGTA-CGATACAATGTATCGATACATTTGAGAA
1 TGTATCGATACAATGTATCGATACATTTGAGAA
712411 TGTATCGATACA
1 TGTATCGATACA
712423 TTTTTGGTAG
Statistics
Matches: 43, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
32 6 0.14
33 33 0.77
34 4 0.09
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (33 bp):
TGTATCGATACAATGTATCGATACATTTGAGAA
Found at i:712414 original size:20 final size:20
Alignment explanation
Indices: 712356--712425 Score: 75
Period size: 20 Copynumber: 3.9 Consensus size: 20
712346 GTATCGATAC
712356 AATGTATCGATACATTTGAG
1 AATGTATCGATACATTTGAG
712376 TAATGTA-CGATAC-------
1 -AATGTATCGATACATTTGAG
712389 AATGTATCGATACATTTGAG
1 AATGTATCGATACATTTGAG
712409 AATGTATCGATACATTT
1 AATGTATCGATACATTT
712426 TTGGTAGTAG
Statistics
Matches: 41, Mismatches: 0, Indels: 17
0.71 0.00 0.29
Matches are distributed among these distances:
12 6 0.15
13 6 0.15
20 23 0.56
21 6 0.15
ACGTcount: A:0.36, C:0.11, G:0.17, T:0.36
Consensus pattern (20 bp):
AATGTATCGATACATTTGAG
Found at i:713178 original size:19 final size:19
Alignment explanation
Indices: 713125--713179 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
713115 CAAATTATAA
*
713125 CTTCCCTTTAAAAAAATTT
1 CTTCCCTTTTAAAAAATTT
** *
713144 C-TCCCCATTAGTAAAATTT
1 CTTCCCTTTTA-AAAAATTT
713163 CTTCCCTTTTAAAAAAT
1 CTTCCCTTTTAAAAAAT
713180 ATCTCTCCCC
Statistics
Matches: 27, Mismatches: 7, Indels: 4
0.71 0.18 0.11
Matches are distributed among these distances:
18 6 0.22
19 14 0.52
20 7 0.26
ACGTcount: A:0.35, C:0.24, G:0.02, T:0.40
Consensus pattern (19 bp):
CTTCCCTTTTAAAAAATTT
Found at i:714600 original size:20 final size:20
Alignment explanation
Indices: 714577--714631 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
714567 ACATCATGCT
* *
714577 TTGTATCGATACATGTGTTA
1 TTGTATCGATACATGTATAA
*
714597 TTGTATCGATACATATATAA
1 TTGTATCGATACATGTATAA
*
714617 TTGTATCAATACATG
1 TTGTATCGATACATG
714632 AAACTGGCAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.42
Consensus pattern (20 bp):
TTGTATCGATACATGTATAA
Found at i:724105 original size:52 final size:51
Alignment explanation
Indices: 724027--724175 Score: 217
Period size: 52 Copynumber: 2.9 Consensus size: 51
724017 CGAAATATGA
724027 AAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTG-ATAGTGTATCGATACATCTGGGC
* * * *
724079 AAATTTACGTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTGATAGTGTATCGATACATCTGGGC
**
724131 AAATTTGCCTGCATGTATCGATACAAAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTGAT-AGTGTATCGATACA
724176 ATGTATCGAT
Statistics
Matches: 85, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
51 2 0.02
52 81 0.95
53 2 0.02
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.33
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTGATAGTGTATCGATACATCTGGGC
Found at i:724182 original size:13 final size:13
Alignment explanation
Indices: 724164--724222 Score: 67
Period size: 13 Copynumber: 4.9 Consensus size: 13
724154 CAAAGATCAG
724164 TGTATCGATACAA
1 TGTATCGATACAA
724177 TGTATCGATAC-A
1 TGTATCGATACAA
724189 T-T-T-GAGT--AA
1 TGTATCGA-TACAA
724198 TGTATCGATACAA
1 TGTATCGATACAA
724211 TGTATCGATACA
1 TGTATCGATACA
724223 TTTGAGTAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
9 4 0.10
10 3 0.08
11 3 0.08
12 4 0.10
13 25 0.64
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:724207 original size:34 final size:34
Alignment explanation
Indices: 724164--724243 Score: 160
Period size: 34 Copynumber: 2.4 Consensus size: 34
724154 CAAAGATCAG
724164 TGTATCGATACAATGTATCGATACATTTGAGTAA
1 TGTATCGATACAATGTATCGATACATTTGAGTAA
724198 TGTATCGATACAATGTATCGATACATTTGAGTAA
1 TGTATCGATACAATGTATCGATACATTTGAGTAA
724232 TGTATCGATACA
1 TGTATCGATACA
724244 TTTTTTGGTA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 46 1.00
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.35
Consensus pattern (34 bp):
TGTATCGATACAATGTATCGATACATTTGAGTAA
Found at i:724300 original size:33 final size:33
Alignment explanation
Indices: 724263--724329 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
724253 AGTAGCTTAA
*
724263 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTACCGATACAAAAAAATATGTATCGATAC
* ***
724296 ATTGTACCGATACAACACTTTATGTATCGATAC
1 ATTGTACCGATACAAAAAAATATGTATCGATAC
724329 A
1 A
724330 AATCGTTGAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.31
Consensus pattern (33 bp):
ATTGTACCGATACAAAAAAATATGTATCGATAC
Found at i:725017 original size:19 final size:19
Alignment explanation
Indices: 724963--725018 Score: 51
Period size: 19 Copynumber: 2.9 Consensus size: 19
724953 CAAATTATAA
*
724963 CTTCCCTTTAAAAAAAATTT
1 CTTCCCTTT-TAAAAAATTT
** *
724983 C-TCCCCATTAGTAAAATTT
1 CTTCCCTTTTA-AAAAATTT
725002 CTTCCCTTTTAAAAAAT
1 CTTCCCTTTTAAAAAAT
725019 ATCTCTCCCC
Statistics
Matches: 27, Mismatches: 7, Indels: 5
0.69 0.18 0.13
Matches are distributed among these distances:
18 1 0.04
19 18 0.67
20 8 0.30
ACGTcount: A:0.36, C:0.23, G:0.02, T:0.39
Consensus pattern (19 bp):
CTTCCCTTTTAAAAAATTT
Found at i:726460 original size:19 final size:20
Alignment explanation
Indices: 726436--726489 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 20
726426 ACATCATGCT
*
726436 TTGTATCGATACATGT-TTA
1 TTGTATCGATACATGTATAA
*
726455 TTGTATCGATACATATATAA
1 TTGTATCGATACATGTATAA
*
726475 TTGTATCAATACATG
1 TTGTATCGATACATG
726490 AAACTGGCAA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.33, C:0.11, G:0.13, T:0.43
Consensus pattern (20 bp):
TTGTATCGATACATGTATAA
Found at i:728186 original size:3 final size:3
Alignment explanation
Indices: 728178--728209 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
728168 AACCATCAAA
*
728178 GAT GAT GAT GAT GAT GAT GAT GAT AAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
728210 AGTTGACTCG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.31, T:0.31
Consensus pattern (3 bp):
GAT
Found at i:730507 original size:13 final size:13
Alignment explanation
Indices: 730489--730513 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
730479 CATAAAGTGT
730489 TGTATCGATACAA
1 TGTATCGATACAA
730502 TGTATCGATACA
1 TGTATCGATACA
730514 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:730511 original size:33 final size:33
Alignment explanation
Indices: 730469--730535 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
730459 TTCAATGATT
730469 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
730502 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
730535 T
1 T
730536 TCAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:730672 original size:52 final size:52
Alignment explanation
Indices: 730616--730737 Score: 181
Period size: 52 Copynumber: 2.3 Consensus size: 52
730606 CTTTGTATCA
* *
730616 ATACATGCAGGCAAATTTGCCCAGATATATCGATATATTATAAAATGTAGCG
1 ATACATGCAGGCAAATTTGCCCAGATATATCGATACACTATAAAATGTAGCG
* * ** *
730668 ATACATGTAGGCAAATTTGCCCAGATGTATCGATACACTATTCAATGTATCG
1 ATACATGCAGGCAAATTTGCCCAGATATATCGATACACTATAAAATGTAGCG
730720 ATACATGCAGGCAAATTT
1 ATACATGCAGGCAAATTT
730738 TCATATTTCG
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
52 62 1.00
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (52 bp):
ATACATGCAGGCAAATTTGCCCAGATATATCGATACACTATAAAATGTAGCG
Found at i:746033 original size:32 final size:30
Alignment explanation
Indices: 745959--746253 Score: 192
Period size: 29 Copynumber: 9.7 Consensus size: 30
745949 TTCCTCACCC
*
745959 TTCAAAAGTCCACAAGTCAGTGGCATCTTT
1 TTCAAAAGCCCACAAGTCAGTGGCATCTTT
*
745989 TTC-AAAGCCCACAAGTCAGTGGCATTTTTTT
1 TTCAAAAGCCCACAAGTCAGTGGCA--TCTTT
* *
746020 TTCAAAAGCCCACAAGTCAGTGGCAAC--C
1 TTCAAAAGCCCACAAGTCAGTGGCATCTTT
* * *
746048 TTC-AAAGCCCACAAATCAGTGGCACCCTT
1 TTCAAAAGCCCACAAGTCAGTGGCATCTTT
** *
746077 TTCCGAAGCCCACAAGTCGGTGGCATC-TT
1 TTCAAAAGCCCACAAGTCAGTGGCATCTTT
* * * *
746106 TTCCAAAGTCCACAACTCCGTGGCACTCTTT
1 TTCAAAAGCCCACAAGTCAGTGGCA-TCTTT
** * * *
746137 TTCTTTTGTAAGCTCACAACTCTA-TAGCACTCTTT
1 TTC----AAAAGCCCACAAGTC-AGTGGCA-TCTTT
** * * *
746172 TTCTTTTTAAGCCCACAAGTTAGTGGCACCCTT
1 TTC---AAAAGCCCACAAGTCAGTGGCATCTTT
* *
746205 TTCAAAAGCCCACAAGTCAGTGGCAAC-CT
1 TTCAAAAGCCCACAAGTCAGTGGCATCTTT
746234 TT-AAAAGCCCACAAGTCAGT
1 TTCAAAAGCCCACAAGTCAGT
746254 AGAAACCTTC
Statistics
Matches: 217, Mismatches: 34, Indels: 30
0.77 0.12 0.11
Matches are distributed among these distances:
27 21 0.10
28 21 0.10
29 49 0.23
30 44 0.20
31 12 0.06
32 21 0.10
33 7 0.03
34 18 0.08
35 24 0.11
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.28
Consensus pattern (30 bp):
TTCAAAAGCCCACAAGTCAGTGGCATCTTT
Found at i:746113 original size:59 final size:58
Alignment explanation
Indices: 745959--746253 Score: 198
Period size: 59 Copynumber: 4.8 Consensus size: 58
745949 TTCCTCACCC
* * * *
745959 TTCAAAAGTCCACAAGTCAGTGGCATCTTTTTCAAAGCCCACAAGTCAGTGGCATTTTTTT
1 TTCAAAAGCCCACAAGTCAGTGGCATC-TTTTCAAAGCCCACAAATCAGTGGCA--CTCTT
* * *
746020 TTCAAAAGCCCACAAGTCAGTGGCAAC-CTTCAAAGCCCACAAATCAGTGGCACCCTT
1 TTCAAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAATCAGTGGCACTCTT
** * * * *
746077 TTCCGAAGCCCACAAGTCGGTGGCATCTTTTCCAAAGTCCACAACTCCGTGGCACTCTTT
1 TTCAAAAGCCCACAAGTCAGTGGCATCTTTT-CAAAGCCCACAAATCAGTGGCACTC-TT
** * * * * * *
746137 TTCTTTTGTAAGCTCACAACTCTA-TAGCACTCTTTTTCTTTTTAAGCCCACAAGTTAGTGGCAC
1 TTC----AAAAGCCCACAAGTC-AGTGGCA-TC-TTTTC----AAAGCCCACAAATCAGTGGCAC
*
746201 CCTT
55 TCTT
* * * *
746205 TTCAAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCACAAGTCAGT
1 TTCAAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAATCAGT
746254 AGAAACCTTC
Statistics
Matches: 181, Mismatches: 38, Indels: 33
0.72 0.15 0.13
Matches are distributed among these distances:
57 25 0.14
58 17 0.09
59 44 0.24
60 5 0.03
61 25 0.14
62 3 0.02
63 2 0.01
64 30 0.17
65 3 0.02
66 4 0.02
68 5 0.03
69 18 0.10
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.28
Consensus pattern (58 bp):
TTCAAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAATCAGTGGCACTCTT
Found at i:746206 original size:34 final size:36
Alignment explanation
Indices: 746115--746206 Score: 111
Period size: 35 Copynumber: 2.7 Consensus size: 36
746105 TTTCCAAAGT
*
746115 CCACAACTC-CGTGGCACTCTTTTTCTTTTGTAAGC
1 CCACAACTCTAGTGGCACTCTTTTTCTTTTGTAAGC
* *
746150 TCACAACTCTA-TAGCACTCTTTTTCTTTT-TAAGC
1 CCACAACTCTAGTGGCACTCTTTTTCTTTTGTAAGC
* *
746184 CCACAAGT-TAGTGGCACCCTTTT
1 CCACAACTCTAGTGGCACTCTTTT
746207 CAAAAGCCCA
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
33 2 0.04
34 21 0.44
35 25 0.52
ACGTcount: A:0.21, C:0.29, G:0.12, T:0.38
Consensus pattern (36 bp):
CCACAACTCTAGTGGCACTCTTTTTCTTTTGTAAGC
Found at i:746248 original size:28 final size:28
Alignment explanation
Indices: 746180--746277 Score: 124
Period size: 28 Copynumber: 3.4 Consensus size: 28
746170 TTTTCTTTTT
* *
746180 AAGCCCACAAGTTAGTGGCACCCTTTTCAA
1 AAGCCCACAAGTCAGTGGCAACC-TTT-AA
746210 AAGCCCACAAGTCAGTGGCAACCTTTAA
1 AAGCCCACAAGTCAGTGGCAACCTTTAA
* * *
746238 AAGCCCACAAGTCAGTAGAAACCTTCAA
1 AAGCCCACAAGTCAGTGGCAACCTTTAA
*
746266 AAGCACACAAGT
1 AAGCCCACAAGT
746278 TGATGCAAAC
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
28 38 0.61
29 3 0.05
30 21 0.34
ACGTcount: A:0.38, C:0.29, G:0.16, T:0.17
Consensus pattern (28 bp):
AAGCCCACAAGTCAGTGGCAACCTTTAA
Found at i:746450 original size:49 final size:48
Alignment explanation
Indices: 746323--746552 Score: 254
Period size: 48 Copynumber: 4.8 Consensus size: 48
746313 GGCATCTCCT
* *
746323 TTTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTGCC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCCC
* * **
746371 TTTAAGTCCAATATCGCTGGCCTTAAATCAGCATATTGGCACCTTCATA
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTC-CC
* * * *
746420 TTTAAGTCTAATGTAGCTGACCTTGAATCAGCACATTGGCA-----CC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCCC
*
746463 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC--CTTCC--C
* * *
746515 TTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTG
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTG
746553 ACATCCTTTT
Statistics
Matches: 151, Mismatches: 21, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
43 37 0.25
48 42 0.28
49 35 0.23
50 1 0.01
52 36 0.24
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.32
Consensus pattern (48 bp):
TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCCC
Found at i:746481 original size:43 final size:43
Alignment explanation
Indices: 746420--746504 Score: 134
Period size: 43 Copynumber: 2.0 Consensus size: 43
746410 CACCTTCATA
* *
746420 TTTAAGTCTAATGTAGCTGACCTTGAATCAGCACATTGGCACC
1 TTTAAGTCCAATATAGCTGACCTTGAATCAGCACATTGGCACC
* *
746463 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
1 TTTAAGTCCAATATAGCTGACCTTGAATCAGCACATTGGCAC
746505 ATTTTCCATC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (43 bp):
TTTAAGTCCAATATAGCTGACCTTGAATCAGCACATTGGCACC
Found at i:746498 original size:92 final size:95
Alignment explanation
Indices: 746331--746561 Score: 290
Period size: 92 Copynumber: 2.4 Consensus size: 95
746321 CTTTTAAGCC
* * * * *
746331 CAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTGCCTTTAAGTCCAATATCGCTGGCCTTA
1 CAATGTAGCTGACCTTGAATCAGCACATT-G-A-CAT-CCTTTAAGTCCAATATAGCTGGCCTTA
746396 AATCAGCATATTGGCAC-CTT-CATATTTAAG-T
62 AATCAGCATATTGGCACACTTCCATATTTAAGTT
* *
746427 CTAATGTAGCTGACCTTGAATCAGCACATTGGCA-CCTTTAAGTCCAATATAGCTGGCCTTGAAT
1 C-AATGTAGCTGACCTTGAATCAGCACATTGACATCCTTTAAGTCCAATATAGCTGGCCTTAAAT
* *
746491 CAGCATATTGGCACATTTTCCATCTTTAAGTT
65 CAGCATATTGGCACA-CTTCCATATTTAAGTT
*
746523 CAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTT
1 CAATGTAGCTGACCTTGAATCAGCACATTGACATCCTTT
746562 TTCTTATCTT
Statistics
Matches: 118, Mismatches: 11, Indels: 12
0.84 0.08 0.09
Matches are distributed among these distances:
92 42 0.36
94 3 0.03
95 39 0.33
96 9 0.08
97 25 0.21
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (95 bp):
CAATGTAGCTGACCTTGAATCAGCACATTGACATCCTTTAAGTCCAATATAGCTGGCCTTAAATC
AGCATATTGGCACACTTCCATATTTAAGTT
Found at i:746597 original size:55 final size:52
Alignment explanation
Indices: 746462--746599 Score: 159
Period size: 52 Copynumber: 2.6 Consensus size: 52
746452 ACATTGGCAC
* *
746462 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACATTTTCCAT
* * * *
746514 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTTAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACA--CATTTTC-CAT
* * * *
746569 CTTTAAGCCCAATATCGTTGGCCATGAATCA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCA
746600 ACATATTGGC
Statistics
Matches: 71, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
52 38 0.54
54 6 0.08
55 27 0.38
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.36
Consensus pattern (52 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACATTTTCCAT
Found at i:747464 original size:13 final size:13
Alignment explanation
Indices: 747446--747470 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
747436 CATAAAGTGT
747446 TGTATCGATACAA
1 TGTATCGATACAA
747459 TGTATCGATACA
1 TGTATCGATACA
747471 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:747468 original size:33 final size:33
Alignment explanation
Indices: 747426--747492 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
747416 TTCAACGATT
747426 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
747459 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
747492 T
1 T
747493 TCAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:747551 original size:13 final size:13
Alignment explanation
Indices: 747533--747557 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
747523 ATCACTTAAA
747533 TGTATCGATACAT
1 TGTATCGATACAT
747546 TGTATCGATACA
1 TGTATCGATACA
747558 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:758387 original size:43 final size:43
Alignment explanation
Indices: 758325--759345 Score: 962
Period size: 43 Copynumber: 22.1 Consensus size: 43
758315 AAAAGATGAC
* * * *
758325 AAAGGCGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
* *
758368 AAAGGTGCCAATGTCCTGATTCAAGGCCAGCGACATTGGACTTAAAGAT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC-T-----T
* * * *
758417 GACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 ---AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
*
758463 AGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAGGAT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC-T-----T
* * * * * *
758512 AAAGGTGCCAATATGTTGATTTAAGGCCAACGATATTGGACTT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
** *
758555 GGAGGTGCCAATGTGCTGATTCAAGGCTAGCTACATTGGACTT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
* * * * *
758598 AAAGACAAGGTGCCAATATACTGATTCAAGGCCAACGATATTGGACTT
1 ----A-AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
*
758646 AAAGGCGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
* * *
758689 AAAGATGATGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 AAAG--G-T---GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
* *
758738 GAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
* * *
758781 AAAGATGACAATGGCGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTT
1 AAAG--G----T---GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
* * *
758833 AAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 ----A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
758882 AAAGCTGAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT
1 --A----AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC-T-----T
* * *
758937 AAAGGTGCCAATATGCTGATTCAAGGCTAGCTATATTGGACTT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
758980 AGAAGGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 A-AA-GGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
*
759025 AAAGGTGCCAATGTGATGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
* *
759068 AAAGATGCCAATGTGCTGATTCAAGGCCAGCTGCATTGGACTTAAAGAT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC-T-----T
* *
759117 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
*
759160 ATAAGGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTAGACTTAAAGAT
1 A-AA-GGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC-T-----T
* *
759211 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
*
759254 AAAAGGGTGCCAATGTGCTGATTCAAGGCTAGCTACATTGGACTT
1 -AAA-GGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
759299 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
759342 AAAG
1 AAAG
759346 ATAAAGGTGC
Statistics
Matches: 827, Mismatches: 84, Indels: 134
0.79 0.08 0.13
Matches are distributed among these distances:
43 310 0.37
44 16 0.02
45 112 0.14
46 3 0.00
47 3 0.00
48 39 0.05
49 259 0.31
50 3 0.00
51 3 0.00
52 72 0.09
53 1 0.00
55 1 0.00
56 2 0.00
58 3 0.00
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (43 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
Found at i:758560 original size:92 final size:92
Alignment explanation
Indices: 758273--759396 Score: 1201
Period size: 92 Copynumber: 12.0 Consensus size: 92
758263 AAAAATGACA
* * * * *
758273 AAGGCGCCAATATGCTGATTCAAGGCCAACGACATTGGACTTAAAAGATGACAAAGGCGCCAATA
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT-AAAGAT---AAAGGTGCCAATA
* *
758338 TGCTGATTCAAGGCCAGCAATATTGGACTTA
62 TGCTGATTCAAGGCCAGCGATATTGGACTTG
* * *
758369 AAGGTGCCAATGTCCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATAT
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT---AAAGGTGCCAATAT
758434 GCTGATTCAAGGCCAGCGATATTGGACTT-
63 GCTGATTCAAGGCCAGCGATATTGGACTTG
* *
758463 AGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAGGATAAAGGTGCCAATATGT
1 A-AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGC
* *
758528 TGATTTAAGGCCAACGATATTGGACTTG
65 TGATTCAAGGCCAGCGATATTGGACTTG
* * * *
758556 GAGGTGCCAATGTGCTGATTCAAGGCTAGCTACATTGGACTTAAAGA-CAAGGTGCCAATATACT
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCT
* *
758620 GATTCAAGGCCAACGATATTGGACTTA
66 GATTCAAGGCCAGCGATATTGGACTTG
* * * *
758647 AAGGCGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGATGGCGCCAATATGCT
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCT
758712 GATTCAAGGCCAGCGATATTGGACTTG
66 GATTCAAGGCCAGCGATATTGGACTTG
* *
758739 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAATGGCGCCAATAT
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-A-AA-GGTGCCAATAT
*
758804 GCTGATTCAAGGCCAGCAATATTGGACTTAAAGATG
63 GCTGATTCAAGGCCAGCGATATTGGAC-T-----TG
* * * * * *
758840 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGCTGAAGGTGCCAATGTGCT
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCT
* *
758905 GATTCAAGGCCAGCTACATTGGACTTAAAG
66 GATTCAAGGCCAGCGATATTGGACTT---G
* * * * *
758935 ATAAAGGTGCCAATATGCTGATTCAAGGCTAGCTATATTGGACTT--AG--AAGGGTGCCAATGT
1 ---AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATAT
* * *
758996 GCTGATTCAAGGCCAGCTACATTGGACTTA
63 GCTGATTCAAGGCCAGCGATATTGGACTTG
* *
759026 AAGGTGCCAATGTGATGATTCAAGGCCAGCTACATTGGACTTAAAG----A--TGCCAATGTGCT
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCT
*
759085 GATTCAAGGCCAGCTG-CATTGGACTTAAAG
66 GATTCAAGGCCAGC-GATATTGGACTT---G
* * * *
759115 ATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT----ATAAGGGTGCCAATGT
1 ---AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATAT
* * *
759176 GCTGATTCAAGGCCAGCTACATTAGACTTAAAG
63 GCTGATTCAAGGCCAGCGATATTGGACTT---G
* * * *
759209 ATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT--A-A-AAGGGTGCCAATGT
1 ---AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATAT
* * * *
759270 GCTGATTCAAGGCTAGCTACATTGGACTTA
63 GCTGATTCAAGGCCAGCGATATTGGACTTG
759300 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCT
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCT
* *
759365 GATTCAAGGCCAACGATATTGGGCTTAG
66 GATTCAAGGCCAGCGATATTGGACTT-G
759393 AAGG
1 AAGG
759397 GTTGCCACCA
Statistics
Matches: 915, Mismatches: 73, Indels: 83
0.85 0.07 0.08
Matches are distributed among these distances:
86 36 0.04
88 78 0.09
90 3 0.00
91 84 0.09
92 243 0.27
93 4 0.00
94 168 0.18
95 134 0.15
96 41 0.04
97 1 0.00
98 74 0.08
99 2 0.00
101 47 0.05
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (92 bp):
AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCT
GATTCAAGGCCAGCGATATTGGACTTG
Found at i:759029 original size:22 final size:22
Alignment explanation
Indices: 759004--759071 Score: 54
Period size: 22 Copynumber: 3.1 Consensus size: 22
758994 GTGCTGATTC
759004 AAGGCCAGCTACATTGGACTTA
1 AAGGCCAGCTACATTGGACTTA
* * *
759026 AAGG--TGCCA-ATGTGATGA-TTC
1 AAGGCCAGCTACAT-TG--GACTTA
759047 AAGGCCAGCTACATTGGACTTA
1 AAGGCCAGCTACATTGGACTTA
759069 AAG
1 AAG
759072 ATGCCAATGT
Statistics
Matches: 33, Mismatches: 6, Indels: 14
0.62 0.11 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.15
21 8 0.24
22 11 0.33
23 5 0.15
24 2 0.06
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24
Consensus pattern (22 bp):
AAGGCCAGCTACATTGGACTTA
Found at i:759281 original size:22 final size:22
Alignment explanation
Indices: 759256--759324 Score: 56
Period size: 22 Copynumber: 3.2 Consensus size: 22
759246 TTGGACTTAA
759256 AAGGGTGCCAATGTGCTGATTC
1 AAGGGTGCCAATGTGCTGATTC
* *
759278 AAGGCTAGCTACAT-TG--GACTT-
1 AAGGGT-GCCA-ATGTGCTGA-TTC
*
759299 AAAGGTGCCAATGTGCTGATTC
1 AAGGGTGCCAATGTGCTGATTC
759321 AAGG
1 AAGG
759325 CCAGCTACAT
Statistics
Matches: 34, Mismatches: 6, Indels: 14
0.63 0.11 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.15
21 8 0.24
22 12 0.35
23 5 0.15
24 2 0.06
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.26
Consensus pattern (22 bp):
AAGGGTGCCAATGTGCTGATTC
Found at i:759324 original size:21 final size:21
Alignment explanation
Indices: 759259--759324 Score: 57
Period size: 21 Copynumber: 3.1 Consensus size: 21
759249 GACTTAAAAG
759259 GGTGCCAATGTGCTGATTCAA
1 GGTGCCAATGTGCTGATTCAA
* *
759280 GGCTAGCTACAT-TG--GACTTAAA
1 GG-T-GCCA-ATGTGCTGA-TTCAA
759302 GGTGCCAATGTGCTGATTCAA
1 GGTGCCAATGTGCTGATTCAA
759323 GG
1 GG
759325 CCAGCTACAT
Statistics
Matches: 34, Mismatches: 4, Indels: 14
0.65 0.08 0.27
Matches are distributed among these distances:
19 2 0.06
20 5 0.15
21 11 0.32
22 9 0.26
23 5 0.15
24 2 0.06
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.27
Consensus pattern (21 bp):
GGTGCCAATGTGCTGATTCAA
Found at i:759386 original size:49 final size:49
Alignment explanation
Indices: 758211--759376 Score: 1203
Period size: 49 Copynumber: 24.8 Consensus size: 49
758201 CTTAGGAATG
*
758211 TTAAAGATAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGAC
1 TTAAAGATAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC
* * * * *
758260 TTAAAAAATGACAAAGGCGCCAATATGCTGATTCAAGGCCAACGACATTGGAC
1 TT---AAA-GATAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC
* * * *
758313 TTAAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCAGCAATATTGGAC
1 TT-AAAGAT---AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC
* *
758366 -T-----TAAAGGTGCCAATGTCCTGATTCAAGGCCAGCGACATTGGAC
1 TTAAAGATAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC
* * * *
758409 TTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
1 TTAAAGAT---AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC
758461 TT--AG----AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC
1 TTAAAGATAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC
* * * * * * *
758504 TTAAGGATAAAGGTGCCAATATGTTGATTTAAGGCCAACGATATTGGAC
1 TTAAAGATAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC
* *
758553 TT---G---GAGGTGCCAATGTGCTGATTCAAGGCTAGCTACATTGGAC
1 TTAAAGATAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC
* * * * * *
758596 TTAAAGA-CAAGGTGCCAATATACTGATTCAAGGCCAACGATATTGGAC
1 TTAAAGATAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC
*
758644 -T-----TAAAGGCGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC
1 TTAAAGATAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC
* * * * * *
758687 TTAAAGATGATGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
1 TTAAAGATAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC
*
758736 TT---G---AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGAC
1 TTAAAGATAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC
* * * *
758779 TTAAAGATGACAATGGCGCCAATATGCTGATTCAAGGCCAGCAATATTGGAC
1 TTAAAGAT-A-AA-GGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC
* * * *
758831 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
1 TTAAAGATAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC
* *
758880 TTAAAGCTGAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC
1 TTAAAGATAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC
* * *
758929 TTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCTAGCTATATTGGAC
1 TTAAAGATAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC
*
758978 TT--AG--AAGGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC
1 TTAAAGATAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC
*
759023 -T-----TAAAGGTGCCAATGTGATGATTCAAGGCCAGCTACATTGGAC
1 TTAAAGATAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC
*
759066 TTAAAG----A--TGCCAATGTGCTGATTCAAGGCCAGCTGCATTGGAC
1 TTAAAGATAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC
* *
759109 TTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC
1 TTAAAGATAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC
* *
759158 TT----ATAAGGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTAGAC
1 TTAAAGATAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC
* *
759203 TTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC
1 TTAAAGATAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC
* *
759252 TT--A-A-AAGGGTGCCAATGTGCTGATTCAAGGCTAGCTACATTGGAC
1 TTAAAGATAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC
759297 -T-----TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC
1 TTAAAGATAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC
*
759340 TTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCA
1 TTAAAGATAAAGGTGCCAATGTGCTGATTCAAGGCCA
759377 ACGATATTGG
Statistics
Matches: 950, Mismatches: 101, Indels: 132
0.80 0.09 0.11
Matches are distributed among these distances:
43 297 0.31
44 6 0.01
45 117 0.12
46 6 0.01
47 5 0.01
48 33 0.03
49 309 0.33
50 6 0.01
51 6 0.01
52 85 0.09
53 80 0.08
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.25
Consensus pattern (49 bp):
TTAAAGATAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC
Found at i:759435 original size:33 final size:33
Alignment explanation
Indices: 759391--759653 Score: 418
Period size: 33 Copynumber: 8.0 Consensus size: 33
759381 TATTGGGCTT
* * *
759391 AGAAGGGTTGCCACCAATTTGTGTGGGCTTTAG
1 AGAATGGTTGCCACCGACTTGTGTGGGCTTTAG
* * *
759424 AGAGTGGTTGCCACCGACTTGTGTGCGCTTTAA
1 AGAATGGTTGCCACCGACTTGTGTGGGCTTTAG
*
759457 AGAATGGTTGCCACCAACTTGTGTGGGCTTTAG
1 AGAATGGTTGCCACCGACTTGTGTGGGCTTTAG
*
759490 AGAATGGTTGCCACTGACTTGTGTGGGCTTTAG
1 AGAATGGTTGCCACCGACTTGTGTGGGCTTTAG
759523 AGAATGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAATGGTTGCCACCGACTTGTGTGGGCTTTAG
759556 AGAATGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAATGGTTGCCACCGACTTGTGTGGGCTTTAG
*
759589 AGAATGGTTGCCACCGACTTGTGTGGGTTTTAG
1 AGAATGGTTGCCACCGACTTGTGTGGGCTTTAG
* * *
759622 AGAATGGTTGCTACCAACTTGTGTGGACTTTA
1 AGAATGGTTGCCACCGACTTGTGTGGGCTTTA
759654 AACAGAAAAA
Statistics
Matches: 212, Mismatches: 18, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 212 1.00
ACGTcount: A:0.20, C:0.17, G:0.32, T:0.32
Consensus pattern (33 bp):
AGAATGGTTGCCACCGACTTGTGTGGGCTTTAG
Found at i:759698 original size:27 final size:27
Alignment explanation
Indices: 759660--759898 Score: 122
Period size: 27 Copynumber: 8.0 Consensus size: 27
759650 TTTAAACAGA
759660 AAAAGAGTGCCACGAAGTTGTGGACTT
1 AAAAGAGTGCCACGAAGTTGTGGACTT
* *
759687 AAAAGGGTGCCACGAAGTTGTGAACTTT
1 AAAAGAGTGCCACGAAGTTGTGGAC-TT
* *
759715 GAGAAGGAAAAGTAGTGCCACGGAGTTGTGGGCTT
1 -------AAAAG-AGTGCCACGAAGTTGTGGACTT
*
759750 AAAAGGGTGCCAC-AGAGTTGTGGACTT
1 AAAAGAGTGCCACGA-AGTTGTGGACTT
* * *
759777 AGAAGGAAAAAGAGTGCCATGGAGTTGTGGGCTT
1 -------AAAAGAGTGCCACGAAGTTGTGGACTT
* *
759811 AAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGAGTGCCACGAAGTTGTGGACTT
* *
759838 AGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
1 -------AAAAGAGTGCCACGAAGTTGTGGACTT
*
759872 AAAAGGGTGCCAC-AGAGTTGTGGACTT
1 AAAAGAGTGCCACGA-AGTTGTGGACTT
759899 TGGAGAAAAA
Statistics
Matches: 165, Mismatches: 21, Indels: 52
0.69 0.09 0.22
Matches are distributed among these distances:
27 88 0.53
28 7 0.04
34 47 0.28
35 7 0.04
36 16 0.10
ACGTcount: A:0.31, C:0.13, G:0.35, T:0.21
Consensus pattern (27 bp):
AAAAGAGTGCCACGAAGTTGTGGACTT
Found at i:759794 original size:34 final size:34
Alignment explanation
Indices: 759750--759877 Score: 144
Period size: 34 Copynumber: 4.0 Consensus size: 34
759740 TTGTGGGCTT
* *
759750 AAAAGGGTGCCACAGAGTTGTGGACTTAGAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGACTTAGAAGGA
* *
759784 AAAAGAGTGCCATGGAGTTGTGGGCTT-------
1 AAAAGAGTGCCACGGAGTTGTGGACTTAGAAGGA
*
759811 AAAAGGGTGCCACGGAGTTGTGGACTTAGAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGACTTAGAAGGA
* *
759845 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGG
1 AAAAGAGTGCCACGGAGTTGTGGACTTAGAAGG
759878 GTGCCACAGA
Statistics
Matches: 77, Mismatches: 10, Indels: 14
0.76 0.10 0.14
Matches are distributed among these distances:
27 24 0.31
34 53 0.69
ACGTcount: A:0.32, C:0.12, G:0.37, T:0.20
Consensus pattern (34 bp):
AAAAGAGTGCCACGGAGTTGTGGACTTAGAAGGA
Found at i:759808 original size:61 final size:61
Alignment explanation
Indices: 759658--759898 Score: 387
Period size: 61 Copynumber: 3.9 Consensus size: 61
759648 ACTTTAAACA
* * *
759658 GAAAAAGAGTGCCACGAAGTTGTGGACTTAAAAGGGTGCCAC-GAAGTTGTGAACTTTGAGAAG
1 GAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCACAG-AGTTGTGGAC-TT-AGAAG
759721 G-AAAAGTAGTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCACAGAGTTGTGGACTTAGAAG
1 GAAAAAG-AGTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCACAGAGTTGTGGACTTAGAAG
* *
759782 GAAAAAGAGTGCCATGGAGTTGTGGGCTTAAAAGGGTGCCACGGAGTTGTGGACTTAGAAG
1 GAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCACAGAGTTGTGGACTTAGAAG
759843 GAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCACAGAGTTGTGGACTT
1 GAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCACAGAGTTGTGGACTT
759899 TGGAGAAAAA
Statistics
Matches: 168, Mismatches: 7, Indels: 8
0.92 0.04 0.04
Matches are distributed among these distances:
61 112 0.67
62 12 0.07
63 43 0.26
64 1 0.01
ACGTcount: A:0.31, C:0.13, G:0.35, T:0.21
Consensus pattern (61 bp):
GAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCACAGAGTTGTGGACTTAGAAG
Found at i:759942 original size:30 final size:31
Alignment explanation
Indices: 759879--759960 Score: 121
Period size: 30 Copynumber: 2.7 Consensus size: 31
759869 CTTAAAAGGG
* *
759879 TGCCACAGAGTTGTGGACTTTGGAGAAAAAA
1 TGCCACTGAGTCGTGGACTTTGGAGAAAAAA
*
759910 TGCCACTGAGTCGTGGACTTTGG-GACAAAA
1 TGCCACTGAGTCGTGGACTTTGGAGAAAAAA
*
759940 TGCCACTGAGTCTTGGACTTT
1 TGCCACTGAGTCGTGGACTTT
759961 AAGAAGGTAT
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
30 26 0.55
31 21 0.45
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.27
Consensus pattern (31 bp):
TGCCACTGAGTCGTGGACTTTGGAGAAAAAA
Found at i:759945 original size:122 final size:122
Alignment explanation
Indices: 759658--759929 Score: 358
Period size: 122 Copynumber: 2.2 Consensus size: 122
759648 ACTTTAAACA
* * * * * *
759658 GAAAAAGAGTGCCACGAAGTTGTGGACTTAAAAGGGTGCCACGAAGTTGTGAACTTTGAGAAGGA
1 GAAAAAGAGTGCCATGGAGTCGTGGACTTAAAA-GATGCCACGGAGTTGTGGAC-TTGAGAAGGA
759723 AAAGTAGTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCACAGAGTTGTGGACTTAGAAG
64 AAAGTAGTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCACAGAGTTGTGGACTTAGAAG
* * *
759782 GAAAAAGAGTGCCATGGAGTTGTGGGCTTAAAAGGGTGCCACGGAGTTGTGGACTT-AGAAGGAA
1 GAAAAAGAGTGCCATGGAGTCGTGGACTTAAAA-GATGCCACGGAGTTGTGGACTTGAGAAGG-A
* *
759846 AAAG-AGTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCACAGAGTTGTGGACTTTGGA-
64 AAAGTAGTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCACAGAGTTGTGGACTTAGAAG
759903 GAAAAA-A-TGCCACT-GAGTCGTGGACTT
1 GAAAAAGAGTGCCA-TGGAGTCGTGGACTT
759930 TGGGACAAAA
Statistics
Matches: 137, Mismatches: 9, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
119 16 0.12
120 2 0.01
121 6 0.04
122 57 0.42
123 7 0.05
124 49 0.36
ACGTcount: A:0.31, C:0.13, G:0.35, T:0.21
Consensus pattern (122 bp):
GAAAAAGAGTGCCATGGAGTCGTGGACTTAAAAGATGCCACGGAGTTGTGGACTTGAGAAGGAAA
AGTAGTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCACAGAGTTGTGGACTTAGAAG
Found at i:760572 original size:20 final size:20
Alignment explanation
Indices: 760549--760614 Score: 83
Period size: 20 Copynumber: 3.6 Consensus size: 20
760539 CATATCCAGA
760549 TGTATCGATACATCATGCTT
1 TGTATCGATACATCATGCTT
760569 TGTATCGAT--A-CA----T
1 TGTATCGATACATCATGCTT
760582 TGTATCGATACATCATGCTT
1 TGTATCGATACATCATGCTT
760602 TGTATCGATACAT
1 TGTATCGATACAT
760615 TGTATCGATA
Statistics
Matches: 39, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 10 0.26
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
20 23 0.59
ACGTcount: A:0.27, C:0.18, G:0.15, T:0.39
Consensus pattern (20 bp):
TGTATCGATACATCATGCTT
Found at i:760586 original size:13 final size:13
Alignment explanation
Indices: 760568--760627 Score: 60
Period size: 13 Copynumber: 5.1 Consensus size: 13
760558 ACATCATGCT
760568 TTGTATCGATACA
1 TTGTATCGATACA
760581 TTGTATCGATAC-
1 TTGTATCGATACA
* *
760593 ----ATC-ATGCT
1 TTGTATCGATACA
760601 TTGTATCGATACA
1 TTGTATCGATACA
760614 TTGTATCGATACA
1 TTGTATCGATACA
760627 T
1 T
760628 ATTCATTGTA
Statistics
Matches: 38, Mismatches: 3, Indels: 12
0.72 0.06 0.23
Matches are distributed among these distances:
7 3 0.08
8 3 0.08
12 3 0.08
13 29 0.76
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:760591 original size:33 final size:33
Alignment explanation
Indices: 760549--760646 Score: 171
Period size: 33 Copynumber: 3.0 Consensus size: 33
760539 CATATCCAGA
760549 TGTATCGATACATCATGCTTTGTATCGATACAT
1 TGTATCGATACATCATGCTTTGTATCGATACAT
760582 TGTATCGATACATCATGCTTTGTATCGATACAT
1 TGTATCGATACATCATGCTTTGTATCGATACAT
* *
760615 TGTATCGATACAT-ATTCATTGTATCGATACAT
1 TGTATCGATACATCATGCTTTGTATCGATACAT
760647 ACACAATTGT
Statistics
Matches: 63, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
32 17 0.27
33 46 0.73
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATCATGCTTTGTATCGATACAT
Found at i:760657 original size:20 final size:19
Alignment explanation
Indices: 760611--760666 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
760601 TTGTATCGAT
*
760611 ACATTGTATCGATACATAT
1 ACATTGTATCGATACATAC
*
760630 TCATTGTATCGATACATAC
1 ACATTGTATCGATACATAC
*
760649 ACAATTGTATTGATACAT
1 AC-ATTGTATCGATACAT
760667 GAAACTGGCA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 18 0.56
20 14 0.44
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (19 bp):
ACATTGTATCGATACATAC
Found at i:762332 original size:13 final size:13
Alignment explanation
Indices: 762314--762350 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
762304 ATAGTGCCTT
*
762314 TGTATCGATATAA
1 TGTATCGATACAA
*
762327 TGTATCGATACAG
1 TGTATCGATACAA
762340 TGTATCGATAC
1 TGTATCGATAC
762351 TAAAATCCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.32, C:0.14, G:0.19, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:766899 original size:3 final size:3
Alignment explanation
Indices: 766891--766942 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
766881 CGAGTCAACT
766891 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
766939 TCA T
1 TCA T
766943 TTGCTTCATC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.35
Consensus pattern (3 bp):
TCA
Found at i:775375 original size:19 final size:19
Alignment explanation
Indices: 775328--775383 Score: 62
Period size: 19 Copynumber: 3.0 Consensus size: 19
775318 AATACTTATG
*
775328 ACATAAATATATAAATA-T
1 ACATAAATTTATAAATATT
* *
775346 AAAAAATATTTATAAATATT
1 ACATAA-ATTTATAAATATT
775366 ACATAAATTTAT-AATATT
1 ACATAAATTTATAAATATT
775384 CTAAATAATA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
18 10 0.32
19 16 0.52
20 5 0.16
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (19 bp):
ACATAAATTTATAAATATT
Found at i:775777 original size:21 final size:21
Alignment explanation
Indices: 775715--775771 Score: 61
Period size: 19 Copynumber: 2.9 Consensus size: 21
775705 GGGGAGATTC
775715 TTAATATTTATAAATT-T-TAA-
1 TTAA-ATTTA-AAATTATATAAT
775735 TTAAATTTAAAATTATATAAT
1 TTAAATTTAAAATTATATAAT
775756 TTAAA-TT-AAATTATAT
1 TTAAATTTAAAATTATAT
775772 TAAATTATTA
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
18 5 0.15
19 15 0.44
20 9 0.26
21 5 0.15
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TTAAATTTAAAATTATATAAT
Found at i:775784 original size:21 final size:19
Alignment explanation
Indices: 775733--775778 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 19
775723 TATAAATTTT
775733 AATTAAATTTAAAATTATATA
1 AATTAAA-TT-AAATTATATA
*
775754 ATTTAAATTAAATTATATTA
1 AATTAAATTAAATTATA-TA
775774 AATTA
1 AATTA
775779 TTATTATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 8 0.36
20 8 0.36
21 6 0.27
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
AATTAAATTAAATTATATA
Found at i:777097 original size:29 final size:29
Alignment explanation
Indices: 777049--777127 Score: 85
Period size: 29 Copynumber: 2.8 Consensus size: 29
777039 AAAAATTAAA
777049 TATGACATGAATATATAAATATAAAAATATT
1 TATGA-AT-AATATATAAATATAAAAATATT
* *
777080 TATGAATAATATATAAAT-TTATAATATT
1 TATGAATAATATATAAATATAAAAATATT
*
777108 T-TAAATAATA-A-AAATATAAA
1 TATGAATAATATATAAATATAAA
777128 TAAAAAATAT
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
25 4 0.10
26 3 0.07
27 8 0.19
28 9 0.21
29 11 0.26
30 2 0.05
31 5 0.12
ACGTcount: A:0.57, C:0.01, G:0.04, T:0.38
Consensus pattern (29 bp):
TATGAATAATATATAAATATAAAAATATT
Found at i:777137 original size:31 final size:29
Alignment explanation
Indices: 777061--777137 Score: 68
Period size: 31 Copynumber: 2.6 Consensus size: 29
777051 TGACATGAAT
*
777061 ATATAAATATAAAAATA-TTTATGAATAAT
1 ATATAAATA-AAAAATATTTTATGAATAAA
** *
777090 ATATAAATTTATAATATTTTAAAT-AATAAAA
1 ATATAAATAAAAAATATTTT--ATGAAT-AAA
777121 ATATAAATAAAAAATAT
1 ATATAAATAAAAAATAT
777138 GAACACTTAA
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
28 5 0.14
29 11 0.30
30 3 0.08
31 18 0.49
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (29 bp):
ATATAAATAAAAAATATTTTATGAATAAA
Found at i:777433 original size:25 final size:25
Alignment explanation
Indices: 777385--777433 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
777375 ATTTTAAACA
*
777385 TAAAAAATAATTTAAATACGATATT
1 TAAAAAATAATTTAAATACAATATT
*
777410 TAAAAAAT-ATTTAAAATATAATAT
1 TAAAAAATAATTT-AAATACAATAT
777434 AAAAATAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 4 0.19
25 17 0.81
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (25 bp):
TAAAAAATAATTTAAATACAATATT
Found at i:777553 original size:34 final size:34
Alignment explanation
Indices: 777505--777572 Score: 86
Period size: 34 Copynumber: 2.0 Consensus size: 34
777495 TAAAACTATT
*
777505 AATAAATAAAAAATACA-AAATTTATAATATTTTA
1 AATAAATAAAAAATACATAAATATATAA-ATTTTA
*
777539 AATAAA-AAATAAATATATAAATATATAAATTTTA
1 AATAAATAAA-AAATACATAAATATATAAATTTTA
777573 TTTTTTATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
33 3 0.10
34 18 0.60
35 9 0.30
ACGTcount: A:0.63, C:0.01, G:0.00, T:0.35
Consensus pattern (34 bp):
AATAAATAAAAAATACATAAATATATAAATTTTA
Found at i:779158 original size:28 final size:29
Alignment explanation
Indices: 779104--779178 Score: 77
Period size: 28 Copynumber: 2.7 Consensus size: 29
779094 CATGAACATA
* *
779104 ACATGAAAAAGTAATCAATACATGATATG
1 ACATGAAAAAGTAATCAAAACACGATATG
779133 ACATGAAAAA-TAAT-ATAAACACGATATG
1 ACATGAAAAAGTAATCA-AAACACGATATG
*
779161 ATA-GAAAAACGT-ATCAAA
1 ACATGAAAAA-GTAATCAAA
779179 TTTAAATTAA
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
27 7 0.18
28 20 0.51
29 12 0.31
ACGTcount: A:0.56, C:0.11, G:0.12, T:0.21
Consensus pattern (29 bp):
ACATGAAAAAGTAATCAAAACACGATATG
Found at i:779504 original size:27 final size:26
Alignment explanation
Indices: 779474--779539 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 26
779464 GCATTCAATC
*
779474 ATAACATAAAAATAATATAAATATA-AT
1 ATAA-ATAAAAA-AATATAAAAATACAT
779501 ATAAATACACAAAAATATAAAAATACAT
1 ATAAATA-A-AAAAATATAAAAATACAT
779529 A-AAATAAAAAA
1 ATAAATAAAAAA
779540 TTAAATAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
25 4 0.11
26 4 0.11
27 21 0.60
28 6 0.17
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.23
Consensus pattern (26 bp):
ATAAATAAAAAAATATAAAAATACAT
Found at i:779506 original size:11 final size:11
Alignment explanation
Indices: 779474--779507 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
779464 GCATTCAATC
* *
779474 ATAACATAAAA
1 ATAATATAAAT
779485 ATAATATAAAT
1 ATAATATAAAT
779496 ATAATATAAAT
1 ATAATATAAAT
779507 A
1 A
779508 CACAAAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (11 bp):
ATAATATAAAT
Found at i:779547 original size:17 final size:17
Alignment explanation
Indices: 779479--779549 Score: 56
Period size: 17 Copynumber: 3.9 Consensus size: 17
779469 CAATCATAAC
779479 ATAAAAATAATATAAATAT
1 ATAAAAATAA-ATAAA-AT
*
779498 AATATAAATACACA-AAAAT
1 -ATAAAAATA-A-ATAAAAT
*
779517 ATAAAAATACATAAAAT
1 ATAAAAATAAATAAAAT
779534 A-AAAAATTAAATAAAA
1 ATAAAAA-TAAATAAAA
779550 ATTTTAAAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
16 6 0.14
17 14 0.33
18 8 0.19
19 2 0.05
20 11 0.26
21 2 0.05
ACGTcount: A:0.72, C:0.04, G:0.00, T:0.24
Consensus pattern (17 bp):
ATAAAAATAAATAAAAT
Found at i:779914 original size:29 final size:30
Alignment explanation
Indices: 779868--779927 Score: 81
Period size: 29 Copynumber: 2.0 Consensus size: 30
779858 TCACTAAATA
779868 TAAAAATTAAATTAATATTTAATAAAT-TAT
1 TAAAAATTAAATTAATATTT-ATAAATATAT
779898 TAAAAATATAAA-T-ATATTTATAAATATAT
1 TAAAAAT-TAAATTAATATTTATAAATATAT
779927 T
1 T
779928 TTTTACAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
28 6 0.21
29 10 0.36
30 8 0.29
31 4 0.14
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (30 bp):
TAAAAATTAAATTAATATTTATAAATATAT
Found at i:779921 original size:12 final size:12
Alignment explanation
Indices: 779904--779928 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
779894 TTATTAAAAA
779904 TATAAATATATT
1 TATAAATATATT
779916 TATAAATATATT
1 TATAAATATATT
779928 T
1 T
779929 TTTACAATTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TATAAATATATT
Found at i:780113 original size:8 final size:8
Alignment explanation
Indices: 780102--780139 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
780092 TAAAGATATA
780102 AATATTTT
1 AATATTTT
780110 AATA-TTT
1 AATATTTT
*
780117 AATTTTTT
1 AATATTTT
780125 AAATATTTT
1 -AATATTTT
780134 AATATT
1 AATATT
780140 CTTTTTGCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
7 6 0.23
8 13 0.50
9 7 0.27
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (8 bp):
AATATTTT
Found at i:780117 original size:24 final size:24
Alignment explanation
Indices: 780087--780139 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
780077 ATTCTAAAAC
780087 ATATTTAAAGATATAAATATTTTA
1 ATATTTAAAGATATAAATATTTTA
*** *
780111 ATATTTAATTTTTTAAATATTTTA
1 ATATTTAAAGATATAAATATTTTA
780135 ATATT
1 ATATT
780140 CTTTTTGCAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (24 bp):
ATATTTAAAGATATAAATATTTTA
Found at i:780151 original size:23 final size:23
Alignment explanation
Indices: 780101--780151 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 23
780091 TTAAAGATAT
**
780101 AAATATTTTAATATTTAATTTTTT
1 AAATATTTTAATATTT-ATTTTGC
780125 AAATATTTTAATATTCT-TTTTGC
1 AAATATTTTAATATT-TATTTTGC
780148 AAAT
1 AAAT
780152 TCAAACCTGC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 8 0.33
24 15 0.62
25 1 0.04
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.57
Consensus pattern (23 bp):
AAATATTTTAATATTTATTTTGC
Found at i:781432 original size:19 final size:20
Alignment explanation
Indices: 781393--781432 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
781383 TTTTTGTTTT
*
781393 TAATATTTATTTTTCAATTA
1 TAATATTTATTATTCAATTA
*
781413 TAATATTT-TTATTCATTTA
1 TAATATTTATTATTCAATTA
781432 T
1 T
781433 TTTTTTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (20 bp):
TAATATTTATTATTCAATTA
Found at i:783444 original size:21 final size:21
Alignment explanation
Indices: 783390--783445 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
783380 CCCAAGGGAG
*
783390 CGAATGCCTGAACCTAGAGAA
1 CGAATGCCTGAATCTAGAGAA
* *
783411 CAAATGCCTGAATCTAGAGAT
1 CGAATGCCTGAATCTAGAGAA
783432 CGAATGCCTGAATC
1 CGAATGCCTGAATC
783446 AAGGGAAACC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.36, C:0.23, G:0.21, T:0.20
Consensus pattern (21 bp):
CGAATGCCTGAATCTAGAGAA
Found at i:787018 original size:6 final size:6
Alignment explanation
Indices: 787004--787037 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
786994 CTTGCTGCTA
*
787004 AGTTCT AGTTAT AGTTAT AGTTAT AGTTAT AGTT
1 AGTTAT AGTTAT AGTTAT AGTTAT AGTTAT AGTT
787038 CTAGGCTAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.29, C:0.03, G:0.18, T:0.50
Consensus pattern (6 bp):
AGTTAT
Found at i:788804 original size:13 final size:13
Alignment explanation
Indices: 788763--788811 Score: 63
Period size: 13 Copynumber: 4.2 Consensus size: 13
788753 CCGTTACAAG
788763 CAATGTATCGATA
1 CAATGTATCGATA
788776 CAAT-T-TC-AT-
1 CAATGTATCGATA
788785 C-ATGTATCGATA
1 CAATGTATCGATA
788797 CAATGTATCGATA
1 CAATGTATCGATA
788810 CA
1 CA
788812 TTGTCCCATG
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
8 2 0.06
9 2 0.06
10 4 0.13
11 4 0.13
12 2 0.06
13 17 0.55
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.33
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:788827 original size:33 final size:34
Alignment explanation
Indices: 788763--788832 Score: 108
Period size: 33 Copynumber: 2.1 Consensus size: 34
788753 CCGTTACAAG
*
788763 CAATGTATCGATACAATTTCATCATGTATCGATA
1 CAATGTATCGATACAATTTCACCATGTATCGATA
788797 CAATGTATCGATAC-ATTGTC-CCATGTATCGATA
1 CAATGTATCGATACAATT-TCACCATGTATCGATA
788830 CAA
1 CAA
788833 ACAGTGGTAG
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
33 18 0.53
34 16 0.47
ACGTcount: A:0.34, C:0.20, G:0.13, T:0.33
Consensus pattern (34 bp):
CAATGTATCGATACAATTTCACCATGTATCGATA
Found at i:788887 original size:20 final size:20
Alignment explanation
Indices: 788861--788915 Score: 78
Period size: 19 Copynumber: 2.8 Consensus size: 20
788851 CTGCCAATCT
*
788861 CATGTATCGATACAATTG-T
1 CATGTATCGATACAATTGAG
788880 CTATGTATCGATACAA-TGAG
1 C-ATGTATCGATACAATTGAG
788900 CATGTATCGATACAAT
1 CATGTATCGATACAAT
788916 GTATGGATAC
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (20 bp):
CATGTATCGATACAATTGAG
Found at i:789026 original size:16 final size:15
Alignment explanation
Indices: 789001--789032 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
788991 CTAAGTCAAC
789001 CATAATGTATCGATA
1 CATAATGTATCGATA
789016 CATATATGTATCGATA
1 CATA-ATGTATCGATA
789032 C
1 C
789033 TTTGAAGTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (15 bp):
CATAATGTATCGATA
Found at i:791404 original size:13 final size:13
Alignment explanation
Indices: 791386--791412 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
791376 ACATGTTGCT
791386 TTGTATCGATACA
1 TTGTATCGATACA
791399 TTGTATCGATACA
1 TTGTATCGATACA
791412 T
1 T
791413 GAAACTGATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:791479 original size:13 final size:13
Alignment explanation
Indices: 791458--791488 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
791448 CAATACATGG
*
791458 TACAATGTATCGA
1 TACATTGTATCGA
791471 TACATTGTATCGA
1 TACATTGTATCGA
791484 TACAT
1 TACAT
791489 GAAGAAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:791555 original size:52 final size:52
Alignment explanation
Indices: 791494--791612 Score: 238
Period size: 52 Copynumber: 2.3 Consensus size: 52
791484 TACATGAAGA
791494 AATGTATCGATACATAGCTTGTAACGGCTATAAACGGCTATAATTTCAAATC
1 AATGTATCGATACATAGCTTGTAACGGCTATAAACGGCTATAATTTCAAATC
791546 AATGTATCGATACATAGCTTGTAACGGCTATAAACGGCTATAATTTCAAATC
1 AATGTATCGATACATAGCTTGTAACGGCTATAAACGGCTATAATTTCAAATC
791598 AATGTATCGATACAT
1 AATGTATCGATACAT
791613 TATGAATTGT
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.31
Consensus pattern (52 bp):
AATGTATCGATACATAGCTTGTAACGGCTATAAACGGCTATAATTTCAAATC
Found at i:797726 original size:13 final size:13
Alignment explanation
Indices: 797708--797735 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
797698 ACAACATTCC
797708 TTGTATCGATACA
1 TTGTATCGATACA
797721 TTGTATCGATACA
1 TTGTATCGATACA
797734 TT
1 TT
797736 AGGTACTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:800199 original size:20 final size:20
Alignment explanation
Indices: 800176--800248 Score: 64
Period size: 20 Copynumber: 3.7 Consensus size: 20
800166 CACACCCAGA
800176 TGTATCGATACATGCTGATT
1 TGTATCGATACATGCTGATT
* *
800196 TGTATCGATATAT--TGTATA
1 TGTATCGATACATGCTG-ATT
*
800215 TGTATCGATACATAGAC--AAT
1 TGTATCGATACAT-G-CTGATT
800235 TGTATCGATACATG
1 TGTATCGATACATG
800249 AAACTGGCAG
Statistics
Matches: 43, Mismatches: 5, Indels: 11
0.73 0.08 0.19
Matches are distributed among these distances:
18 2 0.05
19 15 0.35
20 26 0.60
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.38
Consensus pattern (20 bp):
TGTATCGATACATGCTGATT
Found at i:800303 original size:20 final size:19
Alignment explanation
Indices: 800278--800330 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 19
800268 TATCACTATT
800278 TGTATCGATACATG-GTACAA
1 TGTATCGATACATGAG-A-AA
800298 TGTATCGATACATGAAGAAA
1 TGTATCGATACATG-AGAAA
800318 TGTATCGATACAT
1 TGTATCGATACAT
800331 AGCTTGTAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 29 0.94
21 1 0.03
22 1 0.03
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (19 bp):
TGTATCGATACATGAGAAA
Found at i:801870 original size:376 final size:376
Alignment explanation
Indices: 801177--801930 Score: 1409
Period size: 376 Copynumber: 2.0 Consensus size: 376
801167 ATACATGTCT
*
801177 CTATGTATCGATACATTCTGAAAAATTTCCAGAAAAATGTTAATAATTAGTATCGAAACCTATCC
1 CTATGTATCGATACATTCTGAAAAATTTCCAGAAAAATGTCAATAATTAGTATCGAAACCTATCC
801242 TATAAACCCTAATTCATATCAAGCAAACATAATTCAATCATACAACATAACAAACATCAAAATTC
66 TATAAACCCTAATTCATATCAAGCAAACATAATTCAATCATACAACATAACAAACATCAAAATTC
* *
801307 ATTCAACAACAAAGCTTGAATCATCAAAAATCATAATATCACATAATTTAACCAAATAAAACATC
131 ATTCAACAACAAAGCATGAATCATCAAAAATCACAATATCACATAATTTAACCAAATAAAACATC
801372 AAAAAGTGCAACATTTCATTTCTAATGACCAAAAATGTCACTTTTATGCAAACAAGGTCATTAGA
196 AAAAAGTGCAACATTTCATTTCTAATGACCAAAAATGTCACTTTTATGCAAACAAGGTCATTAGA
801437 CAAGGTTTTTCACAAAAACATGATAAAGACAACAGAATATATAAGTACGAGAAACATTTAAGACA
261 CAAGGTTTTTCACAAAAACATGATAAAGACAACAGAATATATAAGTACGAGAAACATTTAAGACA
*
801502 TATAACAACTTGGTATGAAATCAAGGAGGATTCATGAGACCAAGTTCTCTC
326 TATAACAACTTGGTATGAAATCAAGGACGATTCATGAGACCAAGTTCTCTC
*
801553 CTATGTATCGATACATTCTGAAAAATTTTCAGAAAAATGTCAATAATTAGTATCGAAACCTATCC
1 CTATGTATCGATACATTCTGAAAAATTTCCAGAAAAATGTCAATAATTAGTATCGAAACCTATCC
* *
801618 TATAGACCCTAATTCATATCAAGCAAACATAATTCAATCATACAACATAACAAACATTAAAATTC
66 TATAAACCCTAATTCATATCAAGCAAACATAATTCAATCATACAACATAACAAACATCAAAATTC
801683 ATTCAACAACAAAGCATGAATCATCAAAAATCACAATATCACATAATTTAACCAAATAAAACATC
131 ATTCAACAACAAAGCATGAATCATCAAAAATCACAATATCACATAATTTAACCAAATAAAACATC
* *
801748 AAAAAGTGCAACATTTCGTTTCTAATGACCAAACATGTCACTTTTATGCAAACAAGGTCATTAGA
196 AAAAAGTGCAACATTTCATTTCTAATGACCAAAAATGTCACTTTTATGCAAACAAGGTCATTAGA
* *
801813 CAAGGTTTTTCATAAAAACATGATAAAGACAACAGAATATATAAGTATGAGAAACATTTAAGACA
261 CAAGGTTTTTCACAAAAACATGATAAAGACAACAGAATATATAAGTACGAGAAACATTTAAGACA
801878 TATAACAACTTGGTATGAAATCAAGGACGATTCATGAGACCAAGTTCTCTC
326 TATAACAACTTGGTATGAAATCAAGGACGATTCATGAGACCAAGTTCTCTC
801929 CT
1 CT
801931 TATGGTGCAA
Statistics
Matches: 367, Mismatches: 11, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
376 367 1.00
ACGTcount: A:0.45, C:0.18, G:0.10, T:0.27
Consensus pattern (376 bp):
CTATGTATCGATACATTCTGAAAAATTTCCAGAAAAATGTCAATAATTAGTATCGAAACCTATCC
TATAAACCCTAATTCATATCAAGCAAACATAATTCAATCATACAACATAACAAACATCAAAATTC
ATTCAACAACAAAGCATGAATCATCAAAAATCACAATATCACATAATTTAACCAAATAAAACATC
AAAAAGTGCAACATTTCATTTCTAATGACCAAAAATGTCACTTTTATGCAAACAAGGTCATTAGA
CAAGGTTTTTCACAAAAACATGATAAAGACAACAGAATATATAAGTACGAGAAACATTTAAGACA
TATAACAACTTGGTATGAAATCAAGGACGATTCATGAGACCAAGTTCTCTC
Found at i:804089 original size:3 final size:3
Alignment explanation
Indices: 804081--804120 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
804071 TCCGAGTGAC
804081 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT C
804121 TTCTCTTCAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.35, G:0.00, T:0.33
Consensus pattern (3 bp):
CAT
Found at i:805738 original size:21 final size:21
Alignment explanation
Indices: 805712--805766 Score: 78
Period size: 20 Copynumber: 2.7 Consensus size: 21
805702 GTTACAAGCA
*
805712 ATGTATCGATACAATT-TCATC
1 ATGTATCGATACAATTGTC-CC
805733 ATGTATCGATAC-ATTGTCCC
1 ATGTATCGATACAATTGTCCC
805753 ATGTATCGATACAA
1 ATGTATCGATACAA
805767 ACAGTGGTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 16 0.52
21 15 0.48
ACGTcount: A:0.33, C:0.20, G:0.13, T:0.35
Consensus pattern (21 bp):
ATGTATCGATACAATTGTCCC
Done.