Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr7
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: 55462051
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2780933 characters in sequence are not A, C, G, or T
File 102 of 163
Found at i:33003895 original size:22 final size:21
Alignment explanation
Indices: 33003870--33003913 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
33003860 TGATAAACTT
33003870 TAATATATA-ATTATATTATTTA
1 TAATATATATATTA-ATT-TTTA
*
33003892 TAATTTATATATTAATTTTTA
1 TAATATATATATTAATTTTTA
33003913 T
1 T
33003914 CAACTTAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 5 0.25
22 11 0.55
23 4 0.20
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TAATATATATATTAATTTTTA
Found at i:33008038 original size:25 final size:24
Alignment explanation
Indices: 33007999--33008057 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 24
33007989 GCTGTAAACG
*
33007999 GGAAGCTCCTCTGAGATGAATAAC
1 GGAAGCTCATCTGAGATGAATAAC
* * *
33008023 AGGAAGCTCATGTGAGCTGACTAAC
1 -GGAAGCTCATCTGAGATGAATAAC
33008048 GAGAAGCTCA
1 G-GAAGCTCA
33008058 CACGAGCAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 1 0.03
25 28 0.97
ACGTcount: A:0.34, C:0.20, G:0.27, T:0.19
Consensus pattern (24 bp):
GGAAGCTCATCTGAGATGAATAAC
Found at i:33016901 original size:6 final size:6
Alignment explanation
Indices: 33016890--33016975 Score: 158
Period size: 6 Copynumber: 14.7 Consensus size: 6
33016880 AGCAACCCAA
33016890 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTA- -TTTAT TTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
33016936 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTT
33016976 CTATTTTTTT
Statistics
Matches: 78, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
4 4 0.05
6 74 0.95
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTAT
Found at i:33018332 original size:3 final size:3
Alignment explanation
Indices: 33018324--33018354 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
33018314 ACAAACAAGT
*
33018324 GAA GAA GAA GAA GAA GAA AAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
33018355 GAAAAACAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:33018348 original size:15 final size:16
Alignment explanation
Indices: 33018328--33018360 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
33018318 ACAAGTGAAG
33018328 AAGAAGAAGAA-GAAA
1 AAGAAGAAGAAGGAAA
33018343 AAGAAGAAGAAGGAAA
1 AAGAAGAAGAAGGAAA
33018359 AA
1 AA
33018361 CAAGTAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (16 bp):
AAGAAGAAGAAGGAAA
Found at i:33022363 original size:8 final size:8
Alignment explanation
Indices: 33022352--33022381 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
33022342 TAAGTTATTA
33022352 TATTATAT
1 TATTATAT
*
33022360 TATTATAA
1 TATTATAT
33022368 TATTATAT
1 TATTATAT
33022376 TATTAT
1 TATTAT
33022382 TATATACATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (8 bp):
TATTATAT
Found at i:33022370 original size:16 final size:16
Alignment explanation
Indices: 33022346--33022386 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
33022336 AATAAGTAAG
33022346 TTATTATATTATATTA
1 TTATTATATTATATTA
*
33022362 TTATAATATTATATTA
1 TTATTATATTATATTA
33022378 TTATTATAT
1 TTATTATAT
33022387 ACATAAAACA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTATTATATTATATTA
Found at i:33023293 original size:25 final size:24
Alignment explanation
Indices: 33023265--33023399 Score: 118
Period size: 25 Copynumber: 5.6 Consensus size: 24
33023255 ACTTTAGCGC
*
33023265 GCTCTCTGATTATTAGCACATTGGT
1 GCTCTCTG-TTATTAGCACATTAGT
* * * *
33023290 GCTCTCTGACTACTAGCACGTTGGT
1 GCTCTCTG-TTATTAGCACATTAGT
* *
33023315 GCTCTCTGATTATTAGCACGTCAGT
1 GCTCTCTG-TTATTAGCACATTAGT
33023340 GCTCTCTG-T-TTAGCACATCT-GT
1 GCTCTCTGTTATTAGCACAT-TAGT
*
33023362 GCTCTCTG-TA-TAGCACTTTAGT
1 GCTCTCTGTTATTAGCACATTAGT
33023384 GCTCTCTGTTCATTAG
1 GCTCTCTGTT-ATTAG
33023400 TGCATATCAA
Statistics
Matches: 94, Mismatches: 10, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
21 1 0.01
22 36 0.38
23 2 0.02
24 1 0.01
25 54 0.57
ACGTcount: A:0.17, C:0.24, G:0.20, T:0.39
Consensus pattern (24 bp):
GCTCTCTGTTATTAGCACATTAGT
Found at i:33023355 original size:22 final size:22
Alignment explanation
Indices: 33023303--33023393 Score: 92
Period size: 22 Copynumber: 4.0 Consensus size: 22
33023293 CTCTGACTAC
**
33023303 TAGCACGTTGGTGCTCTCTGATTAT
1 TAGCACGTCAGTGCTCTCTG--T-T
33023328 TAGCACGTCAGTGCTCTCTGTT
1 TAGCACGTCAGTGCTCTCTGTT
* * *
33023350 TAGCACATCTGTGCTCTCTGTA
1 TAGCACGTCAGTGCTCTCTGTT
* *
33023372 TAGCACTTTAGTGCTCTCTGTT
1 TAGCACGTCAGTGCTCTCTGTT
33023394 CATTAGTGCA
Statistics
Matches: 57, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
22 38 0.67
23 1 0.02
25 18 0.32
ACGTcount: A:0.15, C:0.24, G:0.21, T:0.40
Consensus pattern (22 bp):
TAGCACGTCAGTGCTCTCTGTT
Found at i:33029479 original size:11 final size:11
Alignment explanation
Indices: 33029463--33029488 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
33029453 AAATTGAAAC
33029463 GAAACAGGGGA
1 GAAACAGGGGA
33029474 GAAACAGGGGA
1 GAAACAGGGGA
33029485 GAAA
1 GAAA
33029489 GAAAGAAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.50, C:0.08, G:0.42, T:0.00
Consensus pattern (11 bp):
GAAACAGGGGA
Found at i:33029691 original size:12 final size:13
Alignment explanation
Indices: 33029662--33029693 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
33029652 TGTAGCTTAT
33029662 ATTGAATTAGTGG
1 ATTGAATTAGTGG
33029675 A-TGAATTAGT-G
1 ATTGAATTAGTGG
33029686 ATTGAATT
1 ATTGAATT
33029694 GATGGAAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 2 0.11
12 15 0.83
13 1 0.06
ACGTcount: A:0.34, C:0.00, G:0.25, T:0.41
Consensus pattern (13 bp):
ATTGAATTAGTGG
Found at i:33033358 original size:17 final size:16
Alignment explanation
Indices: 33033316--33033403 Score: 68
Period size: 17 Copynumber: 5.1 Consensus size: 16
33033306 GCTCTCAGGC
*
33033316 TTTGGTGAGCTCGCAG
1 TTTGGTGAGCTCGCAA
*
33033332 TGTTGATGAGCTCGCACA
1 T-TTGGTGAGCTCGCA-A
*
33033350 TTTGGTGAGCTCGTATA
1 TTTGGTGAGCTCGCA-A
* * *
33033367 TTTTGGTGAACTCGTAGT
1 -TTTGGTGAGCTCGCA-A
33033385 TCTTGGTGAGCTCGCAA
1 T-TTGGTGAGCTCGCAA
33033402 TT
1 TT
33033404 CGCAGTTGGC
Statistics
Matches: 57, Mismatches: 11, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
16 2 0.04
17 28 0.49
18 27 0.47
ACGTcount: A:0.17, C:0.17, G:0.30, T:0.36
Consensus pattern (16 bp):
TTTGGTGAGCTCGCAA
Found at i:33033373 original size:18 final size:18
Alignment explanation
Indices: 33033350--33033398 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
33033340 AGCTCGCACA
33033350 TTTGGTGAGCTCGTA-TAT
1 TTTGGTGAGCTCGTAGT-T
*
33033368 TTTGGTGAACTCGTAGTT
1 TTTGGTGAGCTCGTAGTT
*
33033386 CTTGGTGAGCTCG
1 TTTGGTGAGCTCG
33033399 CAATTCGCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
18 26 0.96
19 1 0.04
ACGTcount: A:0.14, C:0.14, G:0.31, T:0.41
Consensus pattern (18 bp):
TTTGGTGAGCTCGTAGTT
Found at i:33033780 original size:3 final size:3
Alignment explanation
Indices: 33033774--33033810 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
33033764 GTTTGTTTTT
33033774 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
33033811 GGTTTCGTGG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:33038531 original size:11 final size:11
Alignment explanation
Indices: 33038517--33038546 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
33038507 GCTTTTGTTA
33038517 AATAATATAGC
1 AATAATATAGC
*
33038528 AATAATAGAGC
1 AATAATATAGC
33038539 AATAATAT
1 AATAATAT
33038547 CAATTGCACC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.57, C:0.07, G:0.10, T:0.27
Consensus pattern (11 bp):
AATAATATAGC
Found at i:33041835 original size:27 final size:29
Alignment explanation
Indices: 33041776--33041835 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 29
33041766 CTCTTTTATG
33041776 ATGGGTTACGACTAAATTACCAAAAAAACA
1 ATGGGTTACGACTAAATTA-CAAAAAAACA
*
33041806 ATGGGTTAGGACTAAATTA-AAAAAAA-A
1 ATGGGTTACGACTAAATTACAAAAAAACA
33041833 ATG
1 ATG
33041836 TTTGCTTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
27 4 0.14
28 7 0.24
30 18 0.62
ACGTcount: A:0.52, C:0.10, G:0.17, T:0.22
Consensus pattern (29 bp):
ATGGGTTACGACTAAATTACAAAAAAACA
Found at i:33049472 original size:12 final size:12
Alignment explanation
Indices: 33049452--33049496 Score: 58
Period size: 12 Copynumber: 3.8 Consensus size: 12
33049442 CACAAACAAG
33049452 CTCGTTTATTGA
1 CTCGTTTATTGA
*
33049464 CTTGTTTATT-A
1 CTCGTTTATTGA
33049475 GCTCGTTTA-TGA
1 -CTCGTTTATTGA
33049487 CTCGTTTATT
1 CTCGTTTATT
33049497 TATTAATAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
11 10 0.36
12 18 0.64
ACGTcount: A:0.16, C:0.16, G:0.16, T:0.53
Consensus pattern (12 bp):
CTCGTTTATTGA
Found at i:33049493 original size:23 final size:24
Alignment explanation
Indices: 33049450--33049496 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
33049440 TTCACAAACA
*
33049450 AGCTCGTTTATTGACTTGTTTATT
1 AGCTCGTTTATTGACTCGTTTATT
33049474 AGCTCGTTTA-TGACTCGTTTATT
1 AGCTCGTTTATTGACTCGTTTATT
33049497 TATTAATAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 12 0.55
24 10 0.45
ACGTcount: A:0.17, C:0.15, G:0.17, T:0.51
Consensus pattern (24 bp):
AGCTCGTTTATTGACTCGTTTATT
Found at i:33049640 original size:4 final size:4
Alignment explanation
Indices: 33049631--33049655 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
33049621 TATATGTGTT
33049631 TGTA TGTA TGTA TGTA TGTA TGTA T
1 TGTA TGTA TGTA TGTA TGTA TGTA T
33049656 TTATTGCTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (4 bp):
TGTA
Found at i:33049748 original size:23 final size:23
Alignment explanation
Indices: 33049694--33049761 Score: 82
Period size: 23 Copynumber: 2.9 Consensus size: 23
33049684 ATTAACATTA
* *
33049694 TTCGTGAACATGTTCAATTAAATG
1 TTCGTGAACATGTTC-GTTTAATG
* *
33049718 TTCATGAATATGTTCGTTTAATG
1 TTCGTGAACATGTTCGTTTAATG
*
33049741 TTCGTGAACATGTTCGATTAA
1 TTCGTGAACATGTTCGTTTAA
33049762 GTTAAATGAA
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
23 24 0.65
24 13 0.35
ACGTcount: A:0.29, C:0.12, G:0.18, T:0.41
Consensus pattern (23 bp):
TTCGTGAACATGTTCGTTTAATG
Found at i:33052227 original size:20 final size:20
Alignment explanation
Indices: 33052202--33052239 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
33052192 GTAATAACGG
33052202 GATTTTAATATCAATTGTCA
1 GATTTTAATATCAATTGTCA
* *
33052222 GATTTTGATATGAATTGT
1 GATTTTAATATCAATTGT
33052240 GAAATGTGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.05, G:0.16, T:0.47
Consensus pattern (20 bp):
GATTTTAATATCAATTGTCA
Found at i:33053255 original size:33 final size:33
Alignment explanation
Indices: 33053218--33053287 Score: 90
Period size: 33 Copynumber: 2.1 Consensus size: 33
33053208 TTAATTGTTT
*
33053218 TTATAATTGTTTTAAATTA-TTTATTAT-ATTATA
1 TTATAATTATTTTAAATTACTTT-TTATAATTA-A
*
33053251 TTATAATTATTTTTAATTACTTTTTATAATTAA
1 TTATAATTATTTTAAATTACTTTTTATAATTAA
33053284 TTAT
1 TTAT
33053288 TTTTTTATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
33 26 0.79
34 7 0.21
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.61
Consensus pattern (33 bp):
TTATAATTATTTTAAATTACTTTTTATAATTAA
Found at i:33053282 original size:13 final size:11
Alignment explanation
Indices: 33053216--33053282 Score: 59
Period size: 11 Copynumber: 6.0 Consensus size: 11
33053206 AGTTAATTGT
*
33053216 TTTTATAATTG
1 TTTTATAATTA
33053227 TTTTA-AATTA
1 TTTTATAATTA
33053237 -TTTATTATATTA
1 TTTTA-TA-ATTA
*
33053249 TATTATAATTA
1 TTTTATAATTA
33053260 TTTT-TAATTA
1 TTTTATAATTA
33053270 CTTTTTATAATTA
1 --TTTTATAATTA
33053283 ATTATTTTTT
Statistics
Matches: 46, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
9 4 0.09
10 10 0.22
11 13 0.28
12 10 0.22
13 9 0.20
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.63
Consensus pattern (11 bp):
TTTTATAATTA
Found at i:33053903 original size:70 final size:70
Alignment explanation
Indices: 33053828--33053968 Score: 219
Period size: 70 Copynumber: 2.0 Consensus size: 70
33053818 TATCTTAACA
* * * * * *
33053828 TTATTTTAATGTTTACATTAGAGTAGTATTATATATTTAGTATAAGTTTATTTTTTTATTTGTTC
1 TTATTTTAATATATACATTAGAATAGTATTATATATTTAGTATAAGTTTATTTTTTAATGTATTC
33053893 TAAAT
66 TAAAT
*
33053898 TTATTTTAATATATACATTAGAATAGTATTATATATTTAGTATAGGTTTATTTTTTAATGTATTC
1 TTATTTTAATATATACATTAGAATAGTATTATATATTTAGTATAAGTTTATTTTTTAATGTATTC
33053963 TAAAT
66 TAAAT
33053968 T
1 T
33053969 ACATAATATA
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
70 64 1.00
ACGTcount: A:0.33, C:0.03, G:0.09, T:0.55
Consensus pattern (70 bp):
TTATTTTAATATATACATTAGAATAGTATTATATATTTAGTATAAGTTTATTTTTTAATGTATTC
TAAAT
Found at i:33058673 original size:13 final size:13
Alignment explanation
Indices: 33058655--33058679 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33058645 ATAATATTAA
33058655 AATTAATTTAATT
1 AATTAATTTAATT
33058668 AATTAATTTAAT
1 AATTAATTTAAT
33058680 CCCCCTCTAA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
AATTAATTTAATT
Found at i:33059853 original size:21 final size:21
Alignment explanation
Indices: 33059806--33059853 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
33059796 GAATATATAT
*
33059806 TTAAATATTATTCTTTTGATA
1 TTAAATATTATTCTTTTAATA
** *
33059827 GAAAATATTATTTTTTTAATA
1 TTAAATATTATTCTTTTAATA
33059848 TTAAAT
1 TTAAAT
33059854 TGATGTGAAA
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (21 bp):
TTAAATATTATTCTTTTAATA
Found at i:33060608 original size:19 final size:19
Alignment explanation
Indices: 33060584--33060626 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
33060574 GACCGTCAGT
33060584 TAAATATCGATCAACGAAA
1 TAAATATCGATCAACGAAA
33060603 TAAATATCGATCAACGAAA
1 TAAATATCGATCAACGAAA
33060622 TAAAT
1 TAAAT
33060627 TTATGTGACG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.53, C:0.14, G:0.09, T:0.23
Consensus pattern (19 bp):
TAAATATCGATCAACGAAA
Found at i:33061914 original size:20 final size:20
Alignment explanation
Indices: 33061876--33061914 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
33061866 TATCAAAATA
*
33061876 GTTATTTTTATTTATCTTAG
1 GTTATTTTTAGTTATCTTAG
33061896 GTTATATTTTAGTTA-CTTA
1 GTTAT-TTTTAGTTATCTTA
33061915 TATTTGAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.23, C:0.05, G:0.10, T:0.62
Consensus pattern (20 bp):
GTTATTTTTAGTTATCTTAG
Found at i:33062138 original size:16 final size:16
Alignment explanation
Indices: 33062119--33062152 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
33062109 TTATTTTCTT
33062119 TTACTTTTTTTCTTTA
1 TTACTTTTTTTCTTTA
33062135 TTACTTTTTTTCTTTA
1 TTACTTTTTTTCTTTA
33062151 TT
1 TT
33062153 TTCCATTCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.76
Consensus pattern (16 bp):
TTACTTTTTTTCTTTA
Found at i:33062143 original size:23 final size:24
Alignment explanation
Indices: 33062094--33062155 Score: 72
Period size: 24 Copynumber: 2.5 Consensus size: 24
33062084 TTTTGAGCAA
*
33062094 TTTACTTTTTTTCTTTTATTTTCT
1 TTTACTTTTTTTCTTTTATTCTCT
*
33062118 TTTACTTTTTTTC-TTTATTACTTT
1 TTTACTTTTTTTCTTTTATT-CTCT
*
33062142 TTTTCTTTATTTTC
1 TTTACTTT-TTTTC
33062156 CATTCTCATC
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
23 6 0.18
24 22 0.67
25 5 0.15
ACGTcount: A:0.10, C:0.13, G:0.00, T:0.77
Consensus pattern (24 bp):
TTTACTTTTTTTCTTTTATTCTCT
Found at i:33063073 original size:20 final size:21
Alignment explanation
Indices: 33063026--33063073 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 21
33063016 TTCTGCAGTG
*
33063026 AAGAATATGAGAAGAGAGAAA
1 AAGAAAATGAGAAGAGAGAAA
* *
33063047 AA-TAAATGGGAAGA-AGAAA
1 AAGAAAATGAGAAGAGAGAAA
33063066 AAGAAAAT
1 AAGAAAAT
33063074 AAAGGAATAA
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
19 7 0.32
20 13 0.59
21 2 0.09
ACGTcount: A:0.65, C:0.00, G:0.25, T:0.10
Consensus pattern (21 bp):
AAGAAAATGAGAAGAGAGAAA
Found at i:33066589 original size:12 final size:12
Alignment explanation
Indices: 33066572--33066610 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
33066562 CATGAGAAGG
*
33066572 TGGAGGTGCAAT
1 TGGAGGTACAAT
33066584 TGGAGGTACAAT
1 TGGAGGTACAAT
* *
33066596 AGGTGGTACAAT
1 TGGAGGTACAAT
33066608 TGG
1 TGG
33066611 GGGTGGAGGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.28, C:0.08, G:0.38, T:0.26
Consensus pattern (12 bp):
TGGAGGTACAAT
Found at i:33067357 original size:13 final size:13
Alignment explanation
Indices: 33067339--33067367 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
33067329 GGTCATATGG
33067339 CCAAGCCACACGT
1 CCAAGCCACACGT
33067352 CCAAGCCACACGT
1 CCAAGCCACACGT
33067365 CCA
1 CCA
33067368 TGTGCCAGGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.48, G:0.14, T:0.07
Consensus pattern (13 bp):
CCAAGCCACACGT
Found at i:33070715 original size:23 final size:23
Alignment explanation
Indices: 33070684--33070734 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
33070674 ACCTACTTTC
* *
33070684 TTACTGTAGTAATTTTCGGGGTA
1 TTACAGTAGTAATTTTCGGGATA
33070707 TTACAGTAGTAATTTTCGGGATA
1 TTACAGTAGTAATTTTCGGGATA
33070730 TTACA
1 TTACA
33070735 CCATCTCCAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.27, C:0.10, G:0.22, T:0.41
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGGGATA
Found at i:33080707 original size:89 final size:89
Alignment explanation
Indices: 33080556--33080731 Score: 325
Period size: 89 Copynumber: 2.0 Consensus size: 89
33080546 CGTTTCCCCT
*
33080556 AAAAACAATGCCAACTCAGTGTCTTTTAGGGAAATCGGTCCTTTCAATAATTTTTTAACAAAACG
1 AAAAACAATGCCAACTCAGTGTCTTTTAGGGAAATCGGTCCTTTCAATAATTTTTGAACAAAACG
33080621 ACCCATTTTCGTAATTTTTTTTGG
66 ACCCATTTTCGTAATTTTTTTTGG
*
33080645 AAAAACAATGCCAACTCAGTGTGTTTTAGGGAAATCGGTCCTTTCAATAATTTTTGAACAAAACG
1 AAAAACAATGCCAACTCAGTGTCTTTTAGGGAAATCGGTCCTTTCAATAATTTTTGAACAAAACG
*
33080710 ACCCATTTTCGTATTTTTTTTT
66 ACCCATTTTCGTAATTTTTTTT
33080732 TAAAATGGGT
Statistics
Matches: 84, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
89 84 1.00
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.38
Consensus pattern (89 bp):
AAAAACAATGCCAACTCAGTGTCTTTTAGGGAAATCGGTCCTTTCAATAATTTTTGAACAAAACG
ACCCATTTTCGTAATTTTTTTTGG
Found at i:33080807 original size:17 final size:17
Alignment explanation
Indices: 33080785--33080817 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
33080775 TTAACTTTAA
33080785 TTAAATTATT-TAATAAT
1 TTAAATT-TTCTAATAAT
33080802 TTAAATTTTCTAATAA
1 TTAAATTTTCTAATAA
33080818 ATAAACATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.13
17 13 0.87
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (17 bp):
TTAAATTTTCTAATAAT
Found at i:33085367 original size:9 final size:9
Alignment explanation
Indices: 33085353--33085403 Score: 93
Period size: 9 Copynumber: 5.7 Consensus size: 9
33085343 TTCACATCAT
33085353 TTTCTCTTA
1 TTTCTCTTA
33085362 TTTCTCTTA
1 TTTCTCTTA
33085371 TTTCTCTTA
1 TTTCTCTTA
*
33085380 TTTTTCTTA
1 TTTCTCTTA
33085389 TTTCTCTTA
1 TTTCTCTTA
33085398 TTTCTC
1 TTTCTC
33085404 GACAACAAGC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 40 1.00
ACGTcount: A:0.10, C:0.22, G:0.00, T:0.69
Consensus pattern (9 bp):
TTTCTCTTA
Found at i:33093135 original size:182 final size:182
Alignment explanation
Indices: 33092828--33093191 Score: 728
Period size: 182 Copynumber: 2.0 Consensus size: 182
33092818 AAAGACAGAA
33092828 ACATTAGCCTCATGGCCCTGATTTCCTGTGTCCTGGTTTTAGACCCTGTCTGAGAAATAATTTAC
1 ACATTAGCCTCATGGCCCTGATTTCCTGTGTCCTGGTTTTAGACCCTGTCTGAGAAATAATTTAC
33092893 TGAAATGCTCGATTTCATTCCCAAGACTTCCATATAATTTGCAGCGAGTTTTTCATTCTTTTACC
66 TGAAATGCTCGATTTCATTCCCAAGACTTCCATATAATTTGCAGCGAGTTTTTCATTCTTTTACC
33092958 GAGTAGAAGACCCCCTCCTTTTGTTCAGCTTCTAAAGCAACAAGCTCATTGG
131 GAGTAGAAGACCCCCTCCTTTTGTTCAGCTTCTAAAGCAACAAGCTCATTGG
33093010 ACATTAGCCTCATGGCCCTGATTTCCTGTGTCCTGGTTTTAGACCCTGTCTGAGAAATAATTTAC
1 ACATTAGCCTCATGGCCCTGATTTCCTGTGTCCTGGTTTTAGACCCTGTCTGAGAAATAATTTAC
33093075 TGAAATGCTCGATTTCATTCCCAAGACTTCCATATAATTTGCAGCGAGTTTTTCATTCTTTTACC
66 TGAAATGCTCGATTTCATTCCCAAGACTTCCATATAATTTGCAGCGAGTTTTTCATTCTTTTACC
33093140 GAGTAGAAGACCCCCTCCTTTTGTTCAGCTTCTAAAGCAACAAGCTCATTGG
131 GAGTAGAAGACCCCCTCCTTTTGTTCAGCTTCTAAAGCAACAAGCTCATTGG
33093192 TTATAGTTCT
Statistics
Matches: 182, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
182 182 1.00
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.35
Consensus pattern (182 bp):
ACATTAGCCTCATGGCCCTGATTTCCTGTGTCCTGGTTTTAGACCCTGTCTGAGAAATAATTTAC
TGAAATGCTCGATTTCATTCCCAAGACTTCCATATAATTTGCAGCGAGTTTTTCATTCTTTTACC
GAGTAGAAGACCCCCTCCTTTTGTTCAGCTTCTAAAGCAACAAGCTCATTGG
Found at i:33102009 original size:26 final size:26
Alignment explanation
Indices: 33101992--33102048 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
33101982 GCCAGGCGGT
33101992 AGACTAAGAACACCGTGCCAAGCAGC
1 AGACTAAGAACACCGTGCCAAGCAGC
33102018 AGACTAAGAACACCGTGCCAAGC-GAC
1 AGACTAAGAACACCGTGCCAAGCAG-C
33102044 AGACT
1 AGACT
33102049 TTAGGGTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
25 1 0.03
26 29 0.97
ACGTcount: A:0.39, C:0.30, G:0.23, T:0.09
Consensus pattern (26 bp):
AGACTAAGAACACCGTGCCAAGCAGC
Found at i:33103370 original size:14 final size:15
Alignment explanation
Indices: 33103339--33103368 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
33103329 AATTGTCATG
33103339 TATTTTTTTAATATT
1 TATTTTTTTAATATT
33103354 TATTTTTTTAATATT
1 TATTTTTTTAATATT
33103369 ATAATATACC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (15 bp):
TATTTTTTTAATATT
Found at i:33109613 original size:3 final size:3
Alignment explanation
Indices: 33109605--33109630 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
33109595 TGAGCTACTT
33109605 TGA TGA TGA TGA TGA TGA TGA TGA TG
1 TGA TGA TGA TGA TGA TGA TGA TGA TG
33109631 TGAGGCCTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.35, T:0.35
Consensus pattern (3 bp):
TGA
Found at i:33115112 original size:20 final size:19
Alignment explanation
Indices: 33115084--33115153 Score: 88
Period size: 19 Copynumber: 3.6 Consensus size: 19
33115074 AAAATACAAA
33115084 AAAAATTCAAAATAATTTT
1 AAAAATTCAAAATAATTTT
*
33115103 CAAAAGTTCAAAATAATTTT
1 -AAAAATTCAAAATAATTTT
* *
33115123 TAAAATTTAAAAT-ATTTAT
1 AAAAATTCAAAATAATTT-T
33115142 AAAAATTCAAAA
1 AAAAATTCAAAA
33115154 ATTTATATTT
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
18 4 0.09
19 21 0.49
20 18 0.42
ACGTcount: A:0.57, C:0.06, G:0.01, T:0.36
Consensus pattern (19 bp):
AAAAATTCAAAATAATTTT
Found at i:33115154 original size:27 final size:27
Alignment explanation
Indices: 33115124--33115189 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 27
33115114 AATAATTTTT
33115124 AAAATTTAAAATATTTATAAAAATT-CA
1 AAAATTTAAAATATTTA-AAAAATTACA
* * * *
33115151 AAAATTTATATTTTTTAAAAAATTATA
1 AAAATTTAAAATATTTAAAAAATTACA
33115178 AAAATTTCAAAA
1 AAAATTT-AAAA
33115190 AAATTCTAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
26 7 0.23
27 22 0.71
28 2 0.06
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (27 bp):
AAAATTTAAAATATTTAAAAAATTACA
Found at i:33115189 original size:18 final size:18
Alignment explanation
Indices: 33115124--33115190 Score: 50
Period size: 18 Copynumber: 3.7 Consensus size: 18
33115114 AATAATTTTT
33115124 AAAATTT-AAAATATTTATA
1 AAAATTTCAAAA-A-TTATA
33115143 AAAA-TTCAAAAATT-TA
1 AAAATTTCAAAAATTATA
*** *
33115159 TATTTTTTAAAAAATTATA
1 -AAAATTTCAAAAATTATA
33115178 AAAATTTCAAAAA
1 AAAATTTCAAAAA
33115191 AATTCTAAAA
Statistics
Matches: 36, Mismatches: 8, Indels: 9
0.68 0.15 0.17
Matches are distributed among these distances:
16 2 0.06
17 3 0.08
18 21 0.58
19 10 0.28
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (18 bp):
AAAATTTCAAAAATTATA
Found at i:33115189 original size:19 final size:20
Alignment explanation
Indices: 33115083--33115201 Score: 79
Period size: 20 Copynumber: 6.2 Consensus size: 20
33115073 CAAAATACAA
* *
33115083 AAAAAATTCAAAATAATTTT
1 AAAAATTTCAAAATAATTAT
* * *
33115103 CAAAAGTTCAAAATAATTTT
1 AAAAATTTCAAAATAATTAT
* *
33115123 TAAAATTT-AAAATATTTAT
1 AAAAATTTCAAAATAATTAT
33115142 AAAAA-TTC-AAA-AATT-T
1 AAAAATTTCAAAATAATTAT
* ** *
33115158 ATATTTTTTAAAA-AATTAT
1 AAAAATTTCAAAATAATTAT
* *
33115177 AAAAATTTCAAAAAAATTCT
1 AAAAATTTCAAAATAATTAT
33115197 AAAAA
1 AAAAA
33115202 AATATAAAGA
Statistics
Matches: 77, Mismatches: 17, Indels: 10
0.74 0.16 0.10
Matches are distributed among these distances:
16 3 0.04
17 5 0.06
18 12 0.16
19 23 0.30
20 34 0.44
ACGTcount: A:0.57, C:0.05, G:0.01, T:0.37
Consensus pattern (20 bp):
AAAAATTTCAAAATAATTAT
Found at i:33143424 original size:16 final size:16
Alignment explanation
Indices: 33143405--33143446 Score: 50
Period size: 18 Copynumber: 2.6 Consensus size: 16
33143395 TACAATTAAG
33143405 TTAATTTTAAAGTATT
1 TTAATTTTAAAGTATT
*
33143421 TTAATTTTTAAAATTATT
1 TTAA-TTTT-AAAGTATT
33143439 TT-ATTTTA
1 TTAATTTTA
33143447 TTGATATAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
15 1 0.04
16 8 0.35
17 5 0.22
18 9 0.39
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (16 bp):
TTAATTTTAAAGTATT
Found at i:33143429 original size:17 final size:18
Alignment explanation
Indices: 33143405--33143445 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
33143395 TACAATTAAG
33143405 TTAA-TTTT-AAAGTATT
1 TTAATTTTTAAAAGTATT
*
33143421 TTAATTTTTAAAATTATT
1 TTAATTTTTAAAAGTATT
33143439 TT-ATTTT
1 TTAATTTT
33143446 ATTGATATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 4 0.18
17 9 0.41
18 9 0.41
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.63
Consensus pattern (18 bp):
TTAATTTTTAAAAGTATT
Found at i:33145667 original size:21 final size:21
Alignment explanation
Indices: 33145643--33145723 Score: 65
Period size: 21 Copynumber: 3.9 Consensus size: 21
33145633 AAAAGAAACC
* *
33145643 CATAAGGGTTGAACGGAAGCT
1 CATAAGAGCTGAACGGAAGCT
*
33145664 CATAAGAGCTGAACGGAAAC-
1 CATAAGAGCTGAACGGAAGCT
* * * **
33145684 CTATAAGGGTTAAACTAAAGCT
1 C-ATAAGAGCTGAACGGAAGCT
*
33145706 CAAAAGAGCTGAACGGAA
1 CATAAGAGCTGAACGGAA
33145724 ACCCAATAGG
Statistics
Matches: 43, Mismatches: 15, Indels: 4
0.69 0.24 0.06
Matches are distributed among these distances:
20 1 0.02
21 41 0.95
22 1 0.02
ACGTcount: A:0.42, C:0.16, G:0.26, T:0.16
Consensus pattern (21 bp):
CATAAGAGCTGAACGGAAGCT
Found at i:33145683 original size:42 final size:42
Alignment explanation
Indices: 33145637--33145739 Score: 145
Period size: 42 Copynumber: 2.5 Consensus size: 42
33145627 GTGCTAAAAA
* * *
33145637 GAAACCCATAAGGGTTGAACGGAAGCTCATAAGAGCTGAACG
1 GAAACCCATAAGGGTTAAACGAAAGCTCAAAAGAGCTGAACG
* *
33145679 GAAACCTATAAGGGTTAAACTAAAGCTCAAAAGAGCTGAACG
1 GAAACCCATAAGGGTTAAACGAAAGCTCAAAAGAGCTGAACG
33145721 GAAACCCA-ATAGGGTTAAA
1 GAAACCCATA-AGGGTTAAA
33145740 ATGAAACTCA
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
41 1 0.02
42 53 0.98
ACGTcount: A:0.43, C:0.17, G:0.24, T:0.16
Consensus pattern (42 bp):
GAAACCCATAAGGGTTAAACGAAAGCTCAAAAGAGCTGAACG
Found at i:33153984 original size:18 final size:19
Alignment explanation
Indices: 33153963--33154011 Score: 50
Period size: 18 Copynumber: 2.7 Consensus size: 19
33153953 AAATGAAACA
*
33153963 AAAATTAAATAA-AATAGT
1 AAAATTAAATAATAATAGG
*
33153981 AAAAAT-AATAATAATAGG
1 AAAATTAAATAATAATAGG
*
33153999 AAATTTAAA-AATA
1 AAAATTAAATAATA
33154012 TTTTTTTTCA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
17 5 0.20
18 18 0.72
19 2 0.08
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.27
Consensus pattern (19 bp):
AAAATTAAATAATAATAGG
Found at i:33161694 original size:204 final size:205
Alignment explanation
Indices: 33161329--33161744 Score: 726
Period size: 204 Copynumber: 2.0 Consensus size: 205
33161319 ACTTAATCTT
* *
33161329 GCTCATCCTCCTCCTCCAGAGGAAAGCGCAGGTGCTTTCTTTTGGGTGTTGGCAACCCCTTCAAC
1 GCTCAGCCTCCTCCTCCAGAGGAAAGCGCAGGTGCTTTCCTTTGGGTGTTGGCAACCCCTTCAAC
33161394 CTCATTATATCACTTGAATACTCCCCATGCTCCCCCCATTCTTCTTCTTCTTCTTCAATCTCATC
66 CTCATTATATCACTTGAATACTCCCCATGCTCCCCCCA-T-TTCTTCTTCTTCTTCAATCTCATC
* *
33161459 ATCGCTGTTGTAAACAAATCTCGTGTGCTTTCCCATGAACATCTCTGTCATGCTTATCTTTCTTT
129 ATCGCTGTTGTAAACAAATCTCGTCTGCTTTCCCATGAACATCTCTGTCATGCTTATCTTTCTTA
33161524 TGCCTTTACACA
194 TGCCTTTACACA
33161536 GCTCAGCCTCCTCCTCCAGAGGAAAGCGCAGGTGCTTTCCTTTGGGTGTTGGCAACCCCTTCAAC
1 GCTCAGCCTCCTCCTCCAGAGGAAAGCGCAGGTGCTTTCCTTTGGGTGTTGGCAACCCCTTCAAC
* *
33161601 CTCATTATATCACTTGAATACTCCCCATTCTCTCCCCA-TTCTTCTTCTTCTTCAATCTCATCAT
66 CTCATTATATCACTTGAATACTCCCCATGCTCCCCCCATTTCTTCTTCTTCTTCAATCTCATCAT
* * *
33161665 CGCTGTTGTCAACAAATCTCGTCTGCTTTCCCGTGGACATCTCTGTCATGCTTATCTTTCTTATG
131 CGCTGTTGTAAACAAATCTCGTCTGCTTTCCCATGAACATCTCTGTCATGCTTATCTTTCTTATG
33161730 CCTTTACACA
196 CCTTTACACA
33161740 GCTCA
1 GCTCA
33161745 TCCACCAATC
Statistics
Matches: 200, Mismatches: 9, Indels: 3
0.94 0.04 0.01
Matches are distributed among these distances:
204 101 0.50
207 99 0.50
ACGTcount: A:0.19, C:0.32, G:0.13, T:0.36
Consensus pattern (205 bp):
GCTCAGCCTCCTCCTCCAGAGGAAAGCGCAGGTGCTTTCCTTTGGGTGTTGGCAACCCCTTCAAC
CTCATTATATCACTTGAATACTCCCCATGCTCCCCCCATTTCTTCTTCTTCTTCAATCTCATCAT
CGCTGTTGTAAACAAATCTCGTCTGCTTTCCCATGAACATCTCTGTCATGCTTATCTTTCTTATG
CCTTTACACA
Found at i:33164491 original size:30 final size:30
Alignment explanation
Indices: 33164455--33164513 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
33164445 TTAACAAGCA
*
33164455 AATGTCTCTAAAATAGTAACAAAATTAACC
1 AATGTCTCTAAAATAATAACAAAATTAACC
*
33164485 AATGTCTTTAAAATAATAACAAAATTAAC
1 AATGTCTCTAAAATAATAACAAAATTAAC
33164514 AATAAAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.53, C:0.14, G:0.05, T:0.29
Consensus pattern (30 bp):
AATGTCTCTAAAATAATAACAAAATTAACC
Found at i:33166912 original size:19 final size:20
Alignment explanation
Indices: 33166871--33166914 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
33166861 ATAGAATCCT
*
33166871 TAAAATTTTTCATAAAAATC
1 TAAAATTTTTCATAAAAACC
33166891 TAAAA-TTTTC-TAAAAACCC
1 TAAAATTTTTCATAAAAA-CC
33166910 TAAAA
1 TAAAA
33166915 GTTCAAACAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 6 0.27
19 11 0.50
20 5 0.23
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (20 bp):
TAAAATTTTTCATAAAAACC
Found at i:33172087 original size:88 final size:88
Alignment explanation
Indices: 33171920--33172807 Score: 1133
Period size: 88 Copynumber: 9.8 Consensus size: 88
33171910 NNNNNNNNNN
33171920 TTTTTAATTAAATTAAGTTAGGG-TTAGGGTTTTTAATTAAATTAGGTTAGAGTTAAGGTTTAGG
1 TTTTTAATTAAATTAAGTTAGGGTTTAGGGTTTTTAATTAAATTAGGTT--AG----GG-TTAGG
* *
33171984 GTTTTTAATTAAATTAAGTTAGGGTTACGA
59 GTTTTTAATTAAATTAAGTTAGGGTTAGGG
* *
33172014 TTTTTAATTAAATTAAGTTAGGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTACGATTTTTA
1 TTTTTAATTAAATTAAGTTAGGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTA
* *
33172079 ATTAAATTAAGTTAGGGTTACGA
66 ATTAAATTAAGTTAGGGTTAGGG
* *
33172102 TTTTTAATTAAATTAAGTTAGGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTACGATTTTTA
1 TTTTTAATTAAATTAAGTTAGGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTA
33172167 ATTAAATTAAGTTAGGGTTAGGG
66 ATTAAATTAAGTTAGGGTTAGGG
33172190 TTTTTAATTAAATTAGGCTAGGGTTAGGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTATGG
1 TTTTTAATTAAATTA----A--GTTAGGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTA-GG
*
33172255 TTTTTAGTTTTTAATTAAATTAGGTTAGGGTTTAGGG
59 ------GTTTTTAATTAAATTAAGTTAGGG-TTAGGG
33172292 TTTTTAATT-AATTAAGTTAGGG-TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTAGGGTTTTT
1 TTTTTAATTAAATTAAGTTAGGGTTTAGGGTTTTTAATTAAATTAGGTTAGGG-TTAGGGTTTTT
33172355 AATT-AATTAAGTTAGGGTTAGGG
65 AATTAAATTAAGTTAGGGTTAGGG
* *
33172378 TTTTTAATTAAATTAGGTTAGGGTTTAAGGTTTAAGGTTTTTAATTAAATTAGGTTAGGATTAGG
1 TTTTTAATTAAATTAAGTTAGGGTTT-A-G-----GGTTTTTAATTAAATTAGGTTAGGGTTAGG
33172443 GTTTTTAATTAAATT-A---A--GTTAGGG
59 GTTTTTAATTAAATTAAGTTAGGGTTAGGG
* *
33172467 TTTTTAATTAAATTAAGTTAGGGTTTAAGGTTTTTAATTAAATTAAGTTAGGGTTTAGGG-TTTT
1 TTTTTAATTAAATTAAGTTAGGGTTTAGGGTTTTTAATTAAATTAGGTTAGGG-TTAGGGTTTTT
*
33172531 AATTAAATTAGGTTAGGGTTAGGG
65 AATTAAATTAAGTTAGGGTTAGGG
* *
33172555 TTTTTAATTAAATTAGGTTAGGGTTTAGGGTTTTTAATT-AATTAAGTTAGGGTTAGGGTTTTTA
1 TTTTTAATTAAATTAAGTTAGGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTA
33172619 ATTAAATTAAGTTAGGGTTTAGGG
66 ATTAAATTAAGTTAGGG-TTAGGG
* *
33172643 TTTTTGATTAAATTAGGTTAGGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTT-
1 TTTTTAATTAAATTAAGTTAGGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTA
*
33172707 -TT--ATTAGGTTAGGGTTTAGGG
66 ATTAAATTAAGTTAGGG-TTAGGG
* *
33172728 TTTTTAATTAAATTAGGTTAGTGTTAGAGTTTAGGGTTTTTAAATAAATTAGGTTAGGGTTAGGG
1 TTTTTAATTAAATTA----A--GTTAGGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGG
33172793 TTTTTAATTAAATTA
60 TTTTTAATTAAATTA
33172808 GGATTTTTAT
Statistics
Matches: 723, Mismatches: 25, Indels: 91
0.86 0.03 0.11
Matches are distributed among these distances:
82 36 0.05
83 6 0.01
85 32 0.04
86 22 0.03
87 60 0.08
88 235 0.33
89 58 0.08
90 1 0.00
91 47 0.07
92 1 0.00
93 4 0.01
94 110 0.15
95 68 0.09
97 1 0.00
101 27 0.04
102 15 0.02
ACGTcount: A:0.29, C:0.01, G:0.24, T:0.46
Consensus pattern (88 bp):
TTTTTAATTAAATTAAGTTAGGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTA
ATTAAATTAAGTTAGGGTTAGGG
Found at i:33172396 original size:23 final size:24
Alignment explanation
Indices: 33172279--33172748 Score: 165
Period size: 30 Copynumber: 17.4 Consensus size: 24
33172269 TTAAATTAGG
33172279 TTAGGGTTTAGGGTTTTTAATTAATTAA
1 TTAGGG-TTAGGGTTTTTAATT-A--AA
33172307 GTTAGGGTTAGGGTTTTTAATTAAATTA
1 -TTAGGGTTAGGGTTTTTAATT-AA--A
33172335 GGTTAGGGTTTAGGGTTTTTAATTAATTAA
1 --TTAGGG-TTAGGGTTTTTAATT-A--AA
33172365 GTTAGGGTTAGGGTTTTTAATTAAA
1 -TTAGGGTTAGGGTTTTTAATTAAA
*
33172390 TTA-GGTTAGGG--TTTAAGGT---
1 TTAGGGTTAGGGTTTTTAA-TTAAA
* **
33172409 TTAAGGTT----TTTAATTAAATTAGG
1 TTAGGGTTAGGGTTT--TT-AATTAAA
*
33172432 TTAGGATTAGGGTTTTTAATTAAA
1 TTAGGGTTAGGGTTTTTAATTAAA
*
33172456 TTA-AGTTAGGGTTTTTAATTAAATTAA
1 TTAGGGTTAGGGTTTTTAATT--A--AA
*
33172483 GTTAGGGTTTAAGGTTTTTAATTAAATTAA
1 -TTAGGG-TTAGGGTTTTTAATT--A--AA
33172513 GTTAGGGTTTAGGG-TTTTAATTAAATTA
1 -TTAGGG-TTAGGGTTTTTAATT-AA--A
33172541 GGTTAGGGTTAGGGTTTTTAATTAAATTA
1 --TTAGGGTTAGGGTTTTTAATT-AA--A
33172570 GGTTAGGGTTTAGGGTTTTTAATTAATTAA
1 --TTAGGG-TTAGGGTTTTTAATT-A--AA
33172600 GTTAGGGTTAGGGTTTTTAATTAAATTAA
1 -TTAGGGTTAGGGTTTTTAATT--A--AA
*
33172629 GTTAGGGTTTAGGGTTTTTGATTAAATTA
1 -TTAGGG-TTAGGGTTTTTAATT-AA--A
33172658 GGTTAGGGTTTAGGGTTTTTAATTAAATTA
1 --TTAGGG-TTAGGGTTTTTAATT-AA--A
* **
33172688 GGTTAGGGTTAGGGTTTTTTTATTAGG
1 --TTAGGGTTAGGG-TTTTTAATTAAA
33172715 TTAGGGTTTAGGGTTTTTAATTAAA
1 TTAGGG-TTAGGGTTTTTAATTAAA
33172740 TTA-GGTTAG
1 TTAGGGTTAG
33172749 TGTTAGAGTT
Statistics
Matches: 381, Mismatches: 19, Indels: 88
0.78 0.04 0.18
Matches are distributed among these distances:
18 1 0.00
19 3 0.01
20 7 0.02
21 7 0.02
22 1 0.00
23 33 0.09
24 13 0.03
25 23 0.06
26 8 0.02
27 7 0.02
28 60 0.16
29 88 0.23
30 128 0.34
32 2 0.01
ACGTcount: A:0.28, C:0.00, G:0.25, T:0.47
Consensus pattern (24 bp):
TTAGGGTTAGGGTTTTTAATTAAA
Found at i:33172642 original size:36 final size:34
Alignment explanation
Indices: 33172460--33172809 Score: 260
Period size: 30 Copynumber: 11.7 Consensus size: 34
33172450 ATTAAATTAA
*
33172460 GTTAGGGTTTTTAATTAAATTAAGTTAGGG-T--
1 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAG
* *
33172491 -TTAAGGTTTTTAATTAAATTAAGTTAGGG-T--
1 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAG
33172521 -TTAGGG-TTTTAATTAAATTAGGTTA--G---G
1 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAG
33172548 GTTAGGGTTTTTAATTAAATTAGGTTAGGG-T--
1 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAG
*
33172579 -TTAGGGTTTTTAATT-AATTAAGTTA--G---G
1 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAG
*
33172606 GTTAGGGTTTTTAATTAAATTAAGTTAGGG-T--
1 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAG
*
33172637 -TTAGGGTTTTTGATTAAATTAGGTTAGGG-T--
1 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAG
33172667 -TTAGGGTTTTTAATTAAATTAGGTTA--G---G
1 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAG
33172695 GTTAGGGTTTTT--TT--ATTAGGTTAGGG-T--
1 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAG
*
33172722 -TTAGGGTTTTTAATTAAATTAGGTTAGTGTTAG
1 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAG
*
33172755 AGTTTAGGGTTTTTAAATAAATTAGGTTA--G---G
1 -G-TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAG
33172786 GTTAGGGTTTTTAATTAAATTAGG
1 GTTAGGGTTTTTAATTAAATTAGG
33172810 ATTTTTATTA
Statistics
Matches: 282, Mismatches: 10, Indels: 56
0.81 0.03 0.16
Matches are distributed among these distances:
25 9 0.03
26 11 0.04
27 5 0.02
28 24 0.09
29 89 0.32
30 114 0.40
31 4 0.01
34 1 0.00
36 25 0.09
ACGTcount: A:0.28, C:0.00, G:0.26, T:0.46
Consensus pattern (34 bp):
GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAG
Found at i:33172808 original size:29 final size:29
Alignment explanation
Indices: 33171920--33172809 Score: 1052
Period size: 29 Copynumber: 29.6 Consensus size: 29
33171910 NNNNNNNNNN
*
33171920 TTTTTAATTAAATTAAGTTAGGGTTAGGG
1 TTTTTAATTAAATTAGGTTAGGGTTAGGG
33171949 TTTTTAATTAAATTAGGTTAGAGTTAAGGTTTAGGG
1 TTTTTAATTAAATTAGGTT--AG----GG-TTAGGG
* * *
33171985 TTTTTAATTAAATTAAGTTAGGGTTACGA
1 TTTTTAATTAAATTAGGTTAGGGTTAGGG
*
33172014 TTTTTAATTAAATTAAGTTAGGGTTTAGGG
1 TTTTTAATTAAATTAGGTTAGGG-TTAGGG
* *
33172044 TTTTTAATTAAATTAGGTTAGGGTTACGA
1 TTTTTAATTAAATTAGGTTAGGGTTAGGG
* * *
33172073 TTTTTAATTAAATTAAGTTAGGGTTACGA
1 TTTTTAATTAAATTAGGTTAGGGTTAGGG
*
33172102 TTTTTAATTAAATTAAGTTAGGGTTTAGGG
1 TTTTTAATTAAATTAGGTTAGGG-TTAGGG
* *
33172132 TTTTTAATTAAATTAGGTTAGGGTTACGA
1 TTTTTAATTAAATTAGGTTAGGGTTAGGG
*
33172161 TTTTTAATTAAATTAAGTTAGGGTTAGGG
1 TTTTTAATTAAATTAGGTTAGGGTTAGGG
33172190 TTTTTAATTAAATTAGGCTAGGGTTAGGGTTTAGGG
1 TTTTTAATTAAA-T----TA-GGTTAGGG-TTAGGG
33172226 TTTTTAATTAAATTAGGTTAGGGTTATGGTTTTTAG
1 TTTTTAATTAAATTAGGTTAGGGTTA-GG------G
33172262 TTTTTAATTAAATTAGGTTAGGGTTTAGGG
1 TTTTTAATTAAATTAGGTTAGGG-TTAGGG
*
33172292 TTTTTAATT-AATTAAGTTAGGGTTAGGG
1 TTTTTAATTAAATTAGGTTAGGGTTAGGG
33172320 TTTTTAATTAAATTAGGTTAGGGTTTAGGG
1 TTTTTAATTAAATTAGGTTAGGG-TTAGGG
*
33172350 TTTTTAATT-AATTAAGTTAGGGTTAGGG
1 TTTTTAATTAAATTAGGTTAGGGTTAGGG
33172378 TTTTTAATTAAATTAGGTTAGGGTTTAAGGTTTAAGG
1 TTTTTAATTAAATTAGGTTAGGG-TT-A-G-----GG
*
33172415 TTTTTAATTAAATTAGGTTAGGATTAGGG
1 TTTTTAATTAAATTAGGTTAGGGTTAGGG
33172444 TTTTTAATTAAATTA----A--GTTAGGG
1 TTTTTAATTAAATTAGGTTAGGGTTAGGG
* *
33172467 TTTTTAATTAAATTAAGTTAGGGTTTAAGG
1 TTTTTAATTAAATTAGGTTAGGG-TTAGGG
*
33172497 TTTTTAATTAAATTAAGTTAGGGTTTAGGG
1 TTTTTAATTAAATTAGGTTAGGG-TTAGGG
33172527 -TTTTAATTAAATTAGGTTAGGGTTAGGG
1 TTTTTAATTAAATTAGGTTAGGGTTAGGG
33172555 TTTTTAATTAAATTAGGTTAGGGTTTAGGG
1 TTTTTAATTAAATTAGGTTAGGG-TTAGGG
*
33172585 TTTTTAATT-AATTAAGTTAGGGTTAGGG
1 TTTTTAATTAAATTAGGTTAGGGTTAGGG
*
33172613 TTTTTAATTAAATTAAGTTAGGGTTTAGGG
1 TTTTTAATTAAATTAGGTTAGGG-TTAGGG
*
33172643 TTTTTGATTAAATTAGGTTAGGGTTTAGGG
1 TTTTTAATTAAATTAGGTTAGGG-TTAGGG
33172673 TTTTTAATTAAATTAGGTTAGGGTTAGGG
1 TTTTTAATTAAATTAGGTTAGGGTTAGGG
33172702 TTTTT--TT--ATTAGGTTAGGGTTTAGGG
1 TTTTTAATTAAATTAGGTTAGGG-TTAGGG
33172728 TTTTTAATTAAATTAGGTTAGTGTTAGAGTTTAGGG
1 TTTTTAATTAAATTAGGTTA--G---G-G-TTAGGG
*
33172764 TTTTTAAATAAATTAGGTTAGGGTTAGGG
1 TTTTTAATTAAATTAGGTTAGGGTTAGGG
33172793 TTTTTAATTAAATTAGG
1 TTTTTAATTAAATTAGG
33172810 ATTTTTATTA
Statistics
Matches: 770, Mismatches: 34, Indels: 114
0.84 0.04 0.12
Matches are distributed among these distances:
23 21 0.03
25 13 0.02
26 11 0.01
27 3 0.00
28 53 0.07
29 312 0.41
30 207 0.27
31 6 0.01
32 2 0.00
34 6 0.01
35 12 0.02
36 97 0.13
37 27 0.04
ACGTcount: A:0.29, C:0.01, G:0.24, T:0.46
Consensus pattern (29 bp):
TTTTTAATTAAATTAGGTTAGGGTTAGGG
Found at i:33174045 original size:14 final size:14
Alignment explanation
Indices: 33174008--33174039 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
33173998 TATTAGTTAT
33174008 ATACATAATACAAA
1 ATACATAATACAAA
*
33174022 ATACATAATACTAA
1 ATACATAATACAAA
33174036 ATAC
1 ATAC
33174040 TAAATATCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.59, C:0.16, G:0.00, T:0.25
Consensus pattern (14 bp):
ATACATAATACAAA
Found at i:33175143 original size:11 final size:11
Alignment explanation
Indices: 33175129--33175171 Score: 68
Period size: 11 Copynumber: 3.9 Consensus size: 11
33175119 TAAAGAGAGC
*
33175129 TTTGAGAGGAA
1 TTTGAGAGAAA
33175140 TTTGAGAGAAA
1 TTTGAGAGAAA
33175151 TTTGAGAGAAA
1 TTTGAGAGAAA
*
33175162 TATGAGAGAA
1 TTTGAGAGAA
33175172 TATTGAAAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
11 30 1.00
ACGTcount: A:0.44, C:0.00, G:0.30, T:0.26
Consensus pattern (11 bp):
TTTGAGAGAAA
Found at i:33178345 original size:15 final size:15
Alignment explanation
Indices: 33178325--33178356 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
33178315 GCCTCGTGAT
33178325 CCATTTTAATGTAAC
1 CCATTTTAATGTAAC
33178340 CCATTTTAATGTAAC
1 CCATTTTAATGTAAC
33178355 CC
1 CC
33178357 GTGCTAGTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.31, C:0.25, G:0.06, T:0.38
Consensus pattern (15 bp):
CCATTTTAATGTAAC
Found at i:33180503 original size:36 final size:36
Alignment explanation
Indices: 33180463--33180538 Score: 84
Period size: 36 Copynumber: 2.1 Consensus size: 36
33180453 TGAAACATAG
*
33180463 AAAATATATAAAATTATGT-GTATATATATAT-TTATA
1 AAAAT-TA-AAAAATATGTAGTATATATATATATTATA
* *
33180499 AAAATTAAAAAATGTGTACGTATATGTATATATTATA
1 AAAATTAAAAAATATGTA-GTATATATATATATTATA
33180536 AAA
1 AAA
33180539 CGTATGTATG
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
34 8 0.24
35 2 0.06
36 16 0.47
37 8 0.24
ACGTcount: A:0.51, C:0.01, G:0.08, T:0.39
Consensus pattern (36 bp):
AAAATTAAAAAATATGTAGTATATATATATATTATA
Found at i:33182223 original size:22 final size:20
Alignment explanation
Indices: 33182182--33182222 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
33182172 GATAGCAATC
33182182 TATAATACTAAAAATAATAA
1 TATAATACTAAAAATAATAA
* *
33182202 TATAATAC-AATAACAATAA
1 TATAATACTAAAAATAATAA
33182221 TA
1 TA
33182223 ACGAAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.29
Consensus pattern (20 bp):
TATAATACTAAAAATAATAA
Found at i:33182409 original size:9 final size:9
Alignment explanation
Indices: 33182397--33182429 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
33182387 GAATTATTCG
33182397 AATCGAGTT
1 AATCGAGTT
*
33182406 AATCGAATT
1 AATCGAGTT
33182415 AATCGAGTT
1 AATCGAGTT
33182424 AATCGA
1 AATCGA
33182430 ATCAATTCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.30
Consensus pattern (9 bp):
AATCGAGTT
Found at i:33182420 original size:18 final size:18
Alignment explanation
Indices: 33182397--33182431 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
33182387 GAATTATTCG
33182397 AATCGAGTTAATCGAATT
1 AATCGAGTTAATCGAATT
33182415 AATCGAGTTAATCGAAT
1 AATCGAGTTAATCGAAT
33182432 CAATTCAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.40, C:0.11, G:0.17, T:0.31
Consensus pattern (18 bp):
AATCGAGTTAATCGAATT
Found at i:33186986 original size:5 final size:5
Alignment explanation
Indices: 33186976--33187176 Score: 402
Period size: 5 Copynumber: 40.2 Consensus size: 5
33186966 NNNNNNNNNN
33186976 TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA
1 TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA
33187026 TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA
1 TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA
33187076 TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA
1 TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA
33187126 TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA
1 TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA
33187176 T
1 T
33187177 CGAATGCTCA
Statistics
Matches: 196, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 196 1.00
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.40
Consensus pattern (5 bp):
TTCGA
Found at i:33198243 original size:41 final size:40
Alignment explanation
Indices: 33198198--33198327 Score: 136
Period size: 41 Copynumber: 3.1 Consensus size: 40
33198188 ACTTTCAAGG
33198198 TATGATTCATGTAAGACCATGTCTGGGACATTGGCATCGTA
1 TATGATTCATGTAAGACCATGTCTGGGACA-TGGCATCGTA
* *
33198239 TATGATTCGTGTAAGACCCTGTCTGGGACA-GAGACATCGATA
1 TATGATTCATGTAAGACCATGTCTGGGACATG-G-CATCG-TA
* * * * *
33198281 TGTGATAACATGTAAGACCATATCTGGGATATGGCATTGTA
1 TATGAT-TCATGTAAGACCATGTCTGGGACATGGCATCGTA
*
33198322 TGTGAT
1 TATGAT
33198328 ATATGTGTTT
Statistics
Matches: 75, Mismatches: 9, Indels: 10
0.80 0.10 0.11
Matches are distributed among these distances:
39 1 0.01
40 1 0.01
41 41 0.55
42 11 0.15
43 20 0.27
44 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.31
Consensus pattern (40 bp):
TATGATTCATGTAAGACCATGTCTGGGACATGGCATCGTA
Found at i:33206408 original size:32 final size:32
Alignment explanation
Indices: 33206334--33206408 Score: 80
Period size: 32 Copynumber: 2.3 Consensus size: 32
33206324 CGTATTTTCT
*
33206334 TTTTTTATTTTATATTGTTTCAAGCTTTTTTTA
1 TTTTTTA-ATTATATTGTTTCAAGCTTTTTTTA
* ** *
33206367 ATTAATAATTATATTATTTTCAAG-TTTTTTTA
1 TTTTTTAATTATATT-GTTTCAAGCTTTTTTTA
33206399 TTTTTTAATT
1 TTTTTTAATT
33206409 CATCTTTTTA
Statistics
Matches: 33, Mismatches: 8, Indels: 3
0.75 0.18 0.07
Matches are distributed among these distances:
32 22 0.67
33 11 0.33
ACGTcount: A:0.25, C:0.04, G:0.04, T:0.67
Consensus pattern (32 bp):
TTTTTTAATTATATTGTTTCAAGCTTTTTTTA
Found at i:33206490 original size:17 final size:18
Alignment explanation
Indices: 33206468--33206501 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
33206458 CAATTATATA
33206468 ATAAAAAT-ATATTTTTG
1 ATAAAAATGATATTTTTG
*
33206485 ATAAAATTGATATTTTT
1 ATAAAAATGATATTTTT
33206502 CATTATGTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (18 bp):
ATAAAAATGATATTTTTG
Found at i:33208314 original size:14 final size:14
Alignment explanation
Indices: 33208295--33208322 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
33208285 TGAGTTGACG
33208295 TTTCTGATAAAATA
1 TTTCTGATAAAATA
33208309 TTTCTGATAAAATA
1 TTTCTGATAAAATA
33208323 GTATAAAATT
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:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (14 bp):
TTTCTGATAAAATA
Found at i:33208536 original size:126 final size:126
Alignment explanation
Indices: 33208309--33208656 Score: 624
Period size: 126 Copynumber: 2.8 Consensus size: 126
33208299 TGATAAAATA
**
33208309 TTTCTGATAAAATAGTATAAAATTGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCG
1 TTTCTGAGCAAATAGTATAAAATTGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCG
* * *
33208374 CACCCTCGTAGACGCGCTTTTGCTACAATAGATCACGGAAGAAATAATTATTTTTTGGACG
66 CAGCCTCGTGGACGCGCTTTTGCTACAGTAGATCACGGAAGAAATAATTATTTTTTGGACG
*
33208435 TTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCG
1 TTTCTGAGCAAATAGTATAAAATTGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCG
*
33208500 CAGCCTCGTGGACGCGCTTTTGCTACAGTAGGTCACGGAAGAAATAATTATTTTTTGGACG
66 CAGCCTCGTGGACGCGCTTTTGCTACAGTAGATCACGGAAGAAATAATTATTTTTTGGACG
*
33208561 TTTCTGAGCAAATAGTATAAAATTGCTTCTAGCAAGATGCTATTTGAGAAGAATTTGTGAAATCG
1 TTTCTGAGCAAATAGTATAAAATTGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCG
33208626 CAGCCTCGTGGACGCGCTTTTGCTACAGTAG
66 CAGCCTCGTGGACGCGCTTTTGCTACAGTAG
33208657 CATGTTTGGG
Statistics
Matches: 213, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
126 213 1.00
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (126 bp):
TTTCTGAGCAAATAGTATAAAATTGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCG
CAGCCTCGTGGACGCGCTTTTGCTACAGTAGATCACGGAAGAAATAATTATTTTTTGGACG
Found at i:33211905 original size:116 final size:116
Alignment explanation
Indices: 33211701--33211977 Score: 482
Period size: 116 Copynumber: 2.4 Consensus size: 116
33211691 NNNNNAGTCG
*
33211701 AAACATTTTTCCAAATCTAGCATTATGTGAATGTAAAATTATTAAGTCAAAAAATTGTATTAATG
1 AAACATTTTTCCAAATCTAACATTATGTGAATGTAAAATTATTAAGTCAAAAAATTGTATTAATG
33211766 GTTAGTAAAATTATCAAATTATGTAAAATTATTAATTGTTAGTACCAATCA
66 GTTAGTAAAATTATCAAATTATGTAAAATTATTAATTGTTAGTACCAATCA
*
33211817 AAACATTTTTCCAGATCTAACATTATGTGAATGTAAAATTATTAAGTCAAAAAATTGTATTAATG
1 AAACATTTTTCCAAATCTAACATTATGTGAATGTAAAATTATTAAGTCAAAAAATTGTATTAATG
* *
33211882 GTTAGTAAAATTATCAAATTATGTAAAATTATTAATTGTTAGTACTAGTCA
66 GTTAGTAAAATTATCAAATTATGTAAAATTATTAATTGTTAGTACCAATCA
* * * *
33211933 AAACATTTTTCCAAATCTAACATTACGTCAATGTAACATTGTTAA
1 AAACATTTTTCCAAATCTAACATTATGTGAATGTAAAATTATTAA
33211978 CTTAGTTTAG
Statistics
Matches: 152, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
116 152 1.00
ACGTcount: A:0.42, C:0.10, G:0.10, T:0.38
Consensus pattern (116 bp):
AAACATTTTTCCAAATCTAACATTATGTGAATGTAAAATTATTAAGTCAAAAAATTGTATTAATG
GTTAGTAAAATTATCAAATTATGTAAAATTATTAATTGTTAGTACCAATCA
Found at i:33212000 original size:23 final size:22
Alignment explanation
Indices: 33211974--33212037 Score: 83
Period size: 23 Copynumber: 2.8 Consensus size: 22
33211964 TGTAACATTG
*
33211974 TTAACTTAGTTTAGGGTTTTTAA
1 TTAAATTAG-TTAGGGTTTTTAA
*
33211997 TTAATTTAAGTTAGGGTTTTTAA
1 TTAAATT-AGTTAGGGTTTTTAA
33212020 TTAAATTAGGTTAGGGTT
1 TTAAATTA-GTTAGGGTT
33212038 AGGGTTAAGG
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
22 1 0.03
23 34 0.92
24 2 0.05
ACGTcount: A:0.28, C:0.02, G:0.20, T:0.50
Consensus pattern (22 bp):
TTAAATTAGTTAGGGTTTTTAA
Found at i:33212039 original size:29 final size:29
Alignment explanation
Indices: 33212006--33212144 Score: 172
Period size: 29 Copynumber: 4.6 Consensus size: 29
33211996 ATTAATTTAA
33212006 GTTAGGGTTTTTAATTAAATTAGGTTAGG
1 GTTAGGGTTTTTAATTAAATTAGGTTAGG
*
33212035 GTTAGGGTTAAGGACTTTAATTAAATTAGATTAGG
1 GTTAGGGTT------TTTAATTAAATTAGGTTAGG
33212070 GTTAGGGTTTTTAATTAAATTAGGTTAGG
1 GTTAGGGTTTTTAATTAAATTAGGTTAGG
* *
33212099 ATTA-GGTTCTTTAATTAAATTAAGTTAGG
1 GTTAGGGTT-TTTAATTAAATTAGGTTAGG
*
33212128 GTTAAGGTTTTTAATTA
1 GTTAGGGTTTTTAATTA
33212145 GGGTTTAGGT
Statistics
Matches: 97, Mismatches: 5, Indels: 16
0.82 0.04 0.14
Matches are distributed among these distances:
28 4 0.04
29 61 0.63
30 4 0.04
35 28 0.29
ACGTcount: A:0.31, C:0.01, G:0.24, T:0.44
Consensus pattern (29 bp):
GTTAGGGTTTTTAATTAAATTAGGTTAGG
Found at i:33212147 original size:19 final size:20
Alignment explanation
Indices: 33212118--33212155 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
33212108 TTTAATTAAA
33212118 TTAAGTTAGGGTTAAGGTTT
1 TTAAGTTAGGGTTAAGGTTT
*
33212138 TTAA-TTAGGGTTTAGGTT
1 TTAAGTTAGGGTTAAGGTT
33212156 AGGATTTTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.24, C:0.00, G:0.29, T:0.47
Consensus pattern (20 bp):
TTAAGTTAGGGTTAAGGTTT
Found at i:33212184 original size:29 final size:27
Alignment explanation
Indices: 33212006--33212184 Score: 116
Period size: 29 Copynumber: 6.1 Consensus size: 27
33211996 ATTAATTTAA
33212006 GTTAGGGTTTTTAATTAAATTAGGTTAGG
1 GTTA-GGTTTTT-ATTAAATTAGGTTAGG
*
33212035 GTTAGGGTTAAGGACTTTAATTAAATTAGATTAGG
1 GTTA-GGTT------TTT-ATTAAATTAGGTTAGG
33212070 GTTAGGGTTTTTAATTAAATTAGGTTAGG
1 GTTA-GGTTTTT-ATTAAATTAGGTTAGG
* *
33212099 ATTAGGTTCTTTAATTAAATTAAGTTAGG
1 GTTAGGTT-TTT-ATTAAATTAGGTTAGG
33212128 GTTAAGG--TTT-TT-AATTAGGGTTTA-G
1 GTT-AGGTTTTTATTAAATTA-GG-TTAGG
*
33212153 GTTAGGATTTTGTATCAAATTAGGTTAGG
1 GTTAGG-TTTT-TATTAAATTAGGTTAGG
33212182 GTT
1 GTT
33212185 TTTAAAGTTA
Statistics
Matches: 126, Mismatches: 7, Indels: 34
0.75 0.04 0.20
Matches are distributed among these distances:
24 8 0.06
25 7 0.06
26 3 0.02
27 5 0.04
28 8 0.06
29 59 0.47
30 8 0.06
35 28 0.22
ACGTcount: A:0.29, C:0.02, G:0.26, T:0.44
Consensus pattern (27 bp):
GTTAGGTTTTTATTAAATTAGGTTAGG
Found at i:33212244 original size:25 final size:25
Alignment explanation
Indices: 33212210--33212618 Score: 818
Period size: 25 Copynumber: 16.4 Consensus size: 25
33212200 TAAGGTTTTT
33212210 ATCAAATAAACTTCTATTTTATTAC
1 ATCAAATAAACTTCTATTTTATTAC
33212235 ATCAAATAAACTTCTATTTTATTAC
1 ATCAAATAAACTTCTATTTTATTAC
33212260 ATCAAATAAACTTCTATTTTATTAC
1 ATCAAATAAACTTCTATTTTATTAC
33212285 ATCAAATAAACTTCTATTTTATTAC
1 ATCAAATAAACTTCTATTTTATTAC
33212310 ATCAAATAAACTTCTATTTTATTAC
1 ATCAAATAAACTTCTATTTTATTAC
33212335 ATCAAATAAACTTCTATTTTATTAC
1 ATCAAATAAACTTCTATTTTATTAC
33212360 ATCAAATAAACTTCTATTTTATTAC
1 ATCAAATAAACTTCTATTTTATTAC
33212385 ATCAAATAAACTTCTATTTTATTAC
1 ATCAAATAAACTTCTATTTTATTAC
33212410 ATCAAATAAACTTCTATTTTATTAC
1 ATCAAATAAACTTCTATTTTATTAC
33212435 ATCAAATAAACTTCTATTTTATTAC
1 ATCAAATAAACTTCTATTTTATTAC
33212460 ATCAAATAAACTTCTATTTTATTAC
1 ATCAAATAAACTTCTATTTTATTAC
33212485 ATCAAATAAACTTCTATTTTATTAC
1 ATCAAATAAACTTCTATTTTATTAC
33212510 ATCAAATAAACTTCTATTTTATTAC
1 ATCAAATAAACTTCTATTTTATTAC
33212535 ATCAAATAAACTTCTATTTTATTAC
1 ATCAAATAAACTTCTATTTTATTAC
33212560 ATCAAATAAACTTCTATTTTATTAC
1 ATCAAATAAACTTCTATTTTATTAC
33212585 ATCAAATAAACTTCTATTTTATTAC
1 ATCAAATAAACTTCTATTTTATTAC
33212610 ATCAAATAA
1 ATCAAATAA
33212619 TATCAAAATA
Statistics
Matches: 384, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 384 1.00
ACGTcount: A:0.41, C:0.16, G:0.00, T:0.44
Consensus pattern (25 bp):
ATCAAATAAACTTCTATTTTATTAC
Found at i:33213074 original size:18 final size:18
Alignment explanation
Indices: 33213051--33213085 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
33213041 CGGAAAAGGA
*
33213051 TACATATAAGGGTTAGGG
1 TACATATAAGGGCTAGGG
33213069 TACATATAAGGGCTAGG
1 TACATATAAGGGCTAGG
33213086 AAACGCACCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.09, G:0.31, T:0.26
Consensus pattern (18 bp):
TACATATAAGGGCTAGGG
Found at i:33213517 original size:7 final size:7
Alignment explanation
Indices: 33213507--33213538 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
33213497 TTATATACAT
33213507 AATACTA
1 AATACTA
33213514 AATACTA
1 AATACTA
33213521 AATACTA
1 AATACTA
33213528 AATACTA
1 AATACTA
33213535 AATA
1 AATA
33213539 TCAATCGAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.59, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:33217086 original size:461 final size:461
Alignment explanation
Indices: 33216224--33217148 Score: 1850
Period size: 461 Copynumber: 2.0 Consensus size: 461
33216214 TAAGCGTTAT
33216224 ATTGCCACTGAGAGAATTTAGTTTCCATTAAAAAGTTATTTAAATAATTTGTAAATTTTTATGTT
1 ATTGCCACTGAGAGAATTTAGTTTCCATTAAAAAGTTATTTAAATAATTTGTAAATTTTTATGTT
33216289 GGTGTTTAATTTATTAATAAAATATGAATGTTGTAGTAAGGATTGTTAAGTGAAGTTTAGGCATG
66 GGTGTTTAATTTATTAATAAAATATGAATGTTGTAGTAAGGATTGTTAAGTGAAGTTTAGGCATG
33216354 TCTTGCGAGGAAGTAACATTGTAACTGATTGTTTGGCAAAAACGGCAATAGGAAAGCTAAACTAA
131 TCTTGCGAGGAAGTAACATTGTAACTGATTGTTTGGCAAAAACGGCAATAGGAAAGCTAAACTAA
33216419 GTAGTTCTTTTCCTAATTCCACCATAGTATATTATACGCTGCTAAAAGAGGATACTCATGATTTC
196 GTAGTTCTTTTCCTAATTCCACCATAGTATATTATACGCTGCTAAAAGAGGATACTCATGATTTC
33216484 TTATATGAAGGAACTAATAAGAATATAAAGTTGCACTCTCAAGTATTTGTATTTCTTTAGGATTT
261 TTATATGAAGGAACTAATAAGAATATAAAGTTGCACTCTCAAGTATTTGTATTTCTTTAGGATTT
33216549 TATTGTTTACATTCCTGATTTTTAGCGATTTGTTTTCCTTAAGAATAAGTCCACATCTGTTATTT
326 TATTGTTTACATTCCTGATTTTTAGCGATTTGTTTTCCTTAAGAATAAGTCCACATCTGTTATTT
33216614 TTAGTAGATTTCTTAGCATGTCTTTTGTATATAAACTCATATCAATCAATGAAAATAAAATAAGT
391 TTAGTAGATTTCTTAGCATGTCTTTTGTATATAAACTCATATCAATCAATGAAAATAAAATAAGT
33216679 GAAAAC
456 GAAAAC
33216685 ATTGCCACTGAGAGAATTTAGTTTCCATTAAAAAGTTATTTAAATAATTTGTAAATTTTTATGTT
1 ATTGCCACTGAGAGAATTTAGTTTCCATTAAAAAGTTATTTAAATAATTTGTAAATTTTTATGTT
33216750 GGTGTTTAATTTATTAATAAAATATGAATGTTGTAGTAAGGATTGTTAAGTGAAGTTTAGGCATG
66 GGTGTTTAATTTATTAATAAAATATGAATGTTGTAGTAAGGATTGTTAAGTGAAGTTTAGGCATG
33216815 TCTTGCGAGGAAGTAACATTGTAACTGATTGTTTGGCAAAAACGGCAATAGGAAAGCTAAACTAA
131 TCTTGCGAGGAAGTAACATTGTAACTGATTGTTTGGCAAAAACGGCAATAGGAAAGCTAAACTAA
33216880 GTAGTTCTTTTCCTAATTCCACCATAGTATATTATACGCTGCTAAAAGAGGATACTCATGATTTC
196 GTAGTTCTTTTCCTAATTCCACCATAGTATATTATACGCTGCTAAAAGAGGATACTCATGATTTC
33216945 TTATATGAAGGAACTAATAAGAATATAAAGTTGCACTCTCAAGTATTTGTATTTCTTTAGGATTT
261 TTATATGAAGGAACTAATAAGAATATAAAGTTGCACTCTCAAGTATTTGTATTTCTTTAGGATTT
33217010 TATTGTTTACATTCCTGATTTTTAGCGATTTGTTTTCCTTAAGAATAAGTCCACATCTGTTATTT
326 TATTGTTTACATTCCTGATTTTTAGCGATTTGTTTTCCTTAAGAATAAGTCCACATCTGTTATTT
33217075 TTAGTAGATTTCTTAGCATGTCTTTTGTATATAAACTCATATCAATCAATGAAAATAAAATAAGT
391 TTAGTAGATTTCTTAGCATGTCTTTTGTATATAAACTCATATCAATCAATGAAAATAAAATAAGT
33217140 GAAAAC
456 GAAAAC
33217146 ATT
1 ATT
33217149 CCAAAACCAA
Statistics
Matches: 464, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
461 464 1.00
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.39
Consensus pattern (461 bp):
ATTGCCACTGAGAGAATTTAGTTTCCATTAAAAAGTTATTTAAATAATTTGTAAATTTTTATGTT
GGTGTTTAATTTATTAATAAAATATGAATGTTGTAGTAAGGATTGTTAAGTGAAGTTTAGGCATG
TCTTGCGAGGAAGTAACATTGTAACTGATTGTTTGGCAAAAACGGCAATAGGAAAGCTAAACTAA
GTAGTTCTTTTCCTAATTCCACCATAGTATATTATACGCTGCTAAAAGAGGATACTCATGATTTC
TTATATGAAGGAACTAATAAGAATATAAAGTTGCACTCTCAAGTATTTGTATTTCTTTAGGATTT
TATTGTTTACATTCCTGATTTTTAGCGATTTGTTTTCCTTAAGAATAAGTCCACATCTGTTATTT
TTAGTAGATTTCTTAGCATGTCTTTTGTATATAAACTCATATCAATCAATGAAAATAAAATAAGT
GAAAAC
Found at i:33218177 original size:3 final size:3
Alignment explanation
Indices: 33218163--33218197 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
33218153 CCATGCTTCT
*
33218163 CCA CCC CCA CCA CCA CCA CCA CCA CCA CCA CCA CC
1 CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CC
33218198 TAGCAATGCT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.29, C:0.71, G:0.00, T:0.00
Consensus pattern (3 bp):
CCA
Found at i:33220359 original size:116 final size:117
Alignment explanation
Indices: 33220223--33220455 Score: 459
Period size: 116 Copynumber: 2.0 Consensus size: 117
33220213 TACCTGATTT
33220223 AAAAAATGATCATAGATTTAATTTTTAATATTAATAAAATTTAATTTACAATTAATTAACTAAGA
1 AAAAAATGATCATAGATTTAATTTTTAATATTAATAAAATTTAATTTACAATTAATTAACTAAGA
33220288 TTTTAATAATTAAATGAGTATCTATTCTAAATTATACATATCCATTGGAAAC
66 TTTTAATAATTAAATGAGTATCTATTCTAAATTATACATATCCATTGGAAAC
33220340 AAAAAATGAT-ATAGATTTAATTTTTAATATTAATAAAATTTAATTTACAATTAATTAACTAAGA
1 AAAAAATGATCATAGATTTAATTTTTAATATTAATAAAATTTAATTTACAATTAATTAACTAAGA
33220404 TTTTAATAATTAAATGAGTATCTATTCTAAATTATACATATCCATTGGAAAC
66 TTTTAATAATTAAATGAGTATCTATTCTAAATTATACATATCCATTGGAAAC
33220456 GTGTCTACCT
Statistics
Matches: 116, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
116 106 0.91
117 10 0.09
ACGTcount: A:0.46, C:0.07, G:0.06, T:0.40
Consensus pattern (117 bp):
AAAAAATGATCATAGATTTAATTTTTAATATTAATAAAATTTAATTTACAATTAATTAACTAAGA
TTTTAATAATTAAATGAGTATCTATTCTAAATTATACATATCCATTGGAAAC
Found at i:33226465 original size:3 final size:3
Alignment explanation
Indices: 33226457--33226490 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
33226447 CTTTAGCATA
33226457 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
33226491 TGTTAACAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:33231608 original size:23 final size:22
Alignment explanation
Indices: 33231573--33231624 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
33231563 TTTAATTAAA
*
33231573 TAAATTTAATAAATTGAAATTTC
1 TAAATTTAATAAA-GGAAATTTC
33231596 TAAA-TTAATTAAAGGAAATTT-
1 TAAATTTAA-TAAAGGAAATTTC
*
33231617 TTAATTTA
1 TAAATTTA
33231625 GTTTCCTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
21 3 0.12
22 14 0.56
23 8 0.32
ACGTcount: A:0.48, C:0.02, G:0.06, T:0.44
Consensus pattern (22 bp):
TAAATTTAATAAAGGAAATTTC
Found at i:33272682 original size:2 final size:2
Alignment explanation
Indices: 33272675--33272700 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
33272665 TACATATTTA
33272675 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
33272701 TAGATTTCGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:33276566 original size:24 final size:23
Alignment explanation
Indices: 33276539--33276584 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
33276529 AAAAATTGTG
*
33276539 ACAATCAGGTATTTAAAAATAATT
1 ACAATCA-GTAATTAAAAATAATT
* *
33276563 ACAATTATTAATTAAAAATAAT
1 ACAATCAGTAATTAAAAATAAT
33276585 AATTTATTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.54, C:0.07, G:0.04, T:0.35
Consensus pattern (23 bp):
ACAATCAGTAATTAAAAATAATT
Found at i:33277066 original size:185 final size:185
Alignment explanation
Indices: 33276754--33277118 Score: 730
Period size: 185 Copynumber: 2.0 Consensus size: 185
33276744 AAATGTACAA
33276754 TTATGGCCCCATTCTTCATTGTTCTTGGGTTTTAAAAATGTTTTTCTATCACATAACTAATGAAA
1 TTATGGCCCCATTCTTCATTGTTCTTGGGTTTTAAAAATGTTTTTCTATCACATAACTAATGAAA
33276819 AACACTTAGTTTTGAAGGTTAAAATTGTGGTGGAAAAGTGTTGTTGTATCCAAATGTAAAAGTTG
66 AACACTTAGTTTTGAAGGTTAAAATTGTGGTGGAAAAGTGTTGTTGTATCCAAATGTAAAAGTTG
33276884 GGATTTCGATATTTTTGGCTTTTAAATTTGAAAGTAAAAATTATCAAAATTTTAT
131 GGATTTCGATATTTTTGGCTTTTAAATTTGAAAGTAAAAATTATCAAAATTTTAT
33276939 TTATGGCCCCATTCTTCATTGTTCTTGGGTTTTAAAAATGTTTTTCTATCACATAACTAATGAAA
1 TTATGGCCCCATTCTTCATTGTTCTTGGGTTTTAAAAATGTTTTTCTATCACATAACTAATGAAA
33277004 AACACTTAGTTTTGAAGGTTAAAATTGTGGTGGAAAAGTGTTGTTGTATCCAAATGTAAAAGTTG
66 AACACTTAGTTTTGAAGGTTAAAATTGTGGTGGAAAAGTGTTGTTGTATCCAAATGTAAAAGTTG
33277069 GGATTTCGATATTTTTGGCTTTTAAATTTGAAAGTAAAAATTATCAAAAT
131 GGATTTCGATATTTTTGGCTTTTAAATTTGAAAGTAAAAATTATCAAAAT
33277119 AATTTTATTT
Statistics
Matches: 180, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
185 180 1.00
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.41
Consensus pattern (185 bp):
TTATGGCCCCATTCTTCATTGTTCTTGGGTTTTAAAAATGTTTTTCTATCACATAACTAATGAAA
AACACTTAGTTTTGAAGGTTAAAATTGTGGTGGAAAAGTGTTGTTGTATCCAAATGTAAAAGTTG
GGATTTCGATATTTTTGGCTTTTAAATTTGAAAGTAAAAATTATCAAAATTTTAT
Found at i:33277346 original size:14 final size:15
Alignment explanation
Indices: 33277323--33277355 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
33277313 TTTACCATAC
33277323 TTTTCAAAAACAA-T
1 TTTTCAAAAACAACT
*
33277337 TTTTCTAAAACAACT
1 TTTTCAAAAACAACT
33277352 TTTT
1 TTTT
33277356 AACTGCAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.39, C:0.15, G:0.00, T:0.45
Consensus pattern (15 bp):
TTTTCAAAAACAACT
Found at i:33277535 original size:18 final size:18
Alignment explanation
Indices: 33277512--33277546 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
33277502 ATTTTTATTT
33277512 AAATTTAAATATATTTAA
1 AAATTTAAATATATTTAA
*
33277530 AAATTTAAATTTATTTA
1 AAATTTAAATATATTTA
33277547 GATGTTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
AAATTTAAATATATTTAA
Found at i:33282276 original size:32 final size:32
Alignment explanation
Indices: 33282231--33282292 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
33282221 GTAATCCTTA
* * *
33282231 AACTCGGATGATTTGAATTCAAAAT-AACTTG
1 AACTCGAATGATTTAAACTCAAAATGAACTTG
33282262 AACTCGAAGTGATTTAAACTCAAAATGAACT
1 AACTCGAA-TGATTTAAACTCAAAATGAACT
33282293 ACATTCTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 7 0.27
32 15 0.58
33 4 0.15
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.29
Consensus pattern (32 bp):
AACTCGAATGATTTAAACTCAAAATGAACTTG
Found at i:33286875 original size:3 final size:3
Alignment explanation
Indices: 33286867--33286891 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
33286857 ATTTGAGCCT
33286867 TCA TCA TCA TCA TCA TCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA T
33286892 GAGTTGGAGA
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:0.32, C:0.32, G:0.00, T:0.36
Consensus pattern (3 bp):
TCA
Found at i:33287777 original size:16 final size:16
Alignment explanation
Indices: 33287756--33287786 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
33287746 TTCACTATTA
*
33287756 TGTCTTTTGTATTTTC
1 TGTCTTTTATATTTTC
33287772 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
33287787 GCGTACATAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.10, G:0.10, T:0.71
Consensus pattern (16 bp):
TGTCTTTTATATTTTC
Found at i:33290939 original size:397 final size:397
Alignment explanation
Indices: 33290206--33290987 Score: 1465
Period size: 397 Copynumber: 2.0 Consensus size: 397
33290196 ACCAAAAAAC
33290206 ATACTAGCCTATACATGCCATAAGTTCAAAATGAAACTTTTAAAGTACCGAAAGTAGACGACAGT
1 ATACTAGCCTATACATGCCATAAGTTCAAAATGAAACTTTTAAAGTACCGAAAGTAGACGACAGT
33290271 GTGATTGATTTCACTAACGATCCCCGAGCACGTAACGACCTCCAAAATCTATAAAAAATGACAAA
66 GTGATTGATTTCACTAACGATCCCCGAGCACGTAACGACCTCCAAAATCTATAAAAAATGACAAA
33290336 TAAAAAAAGAATAAAATAAGCTAACTTAGCTTAGTAAGCCTTAAGCAAATGTATATATAACATAT
131 TAAAAAAAGAATAAAATAAGCTAACTTAGCTTAGTAAGCCTTAAGCAAATGTATATATAACATAT
**
33290401 AATTTCATAAGAAATTTTATCAAAGCCGAATACACACATATATAATCACTAATAATAAAATTTCA
196 AATTTCATAAGAAATTTTATCAAAGCCGAATACACACATATATAATCACTAATAATAAAATTAAA
*
33290466 AATTTCAAATCATTCTAGTCATGGTTATTCATTTATACACAATCTTCAATTCATATACATGTATT
261 AATTTCAAATCATTCTAGTCATGGTTATTCATTTATACACAATCTTCAATTCATATACATGTAGT
33290531 TTACATAAGGCCAAACATACCTATCATATACATATATAAACTTATAATAGCATTATATATGTATA
326 TTACATAAGGCCAAACATACCTATCATATACATATATAAACTTATAATAGCATTATATATGTATA
33290596 TATATAT
391 TATATAT
33290603 ATACTAGCCTATACATGCCATAAGTTCAAAATGAAACTTTTAAAGTACCGAAAGTAGACGACAGT
1 ATACTAGCCTATACATGCCATAAGTTCAAAATGAAACTTTTAAAGTACCGAAAGTAGACGACAGT
33290668 GTGATTGATTTCACTAACGATCCCCGAGCACGTAACGACCTCCAAAATCTATAAAAAATGACAAA
66 GTGATTGATTTCACTAACGATCCCCGAGCACGTAACGACCTCCAAAATCTATAAAAAATGACAAA
33290733 TAAAAAAAGAATAAAATAAGCTAACTTAGCTTAGTAAGCCTTAAGCAAATGTATATATAACATAT
131 TAAAAAAAGAATAAAATAAGCTAACTTAGCTTAGTAAGCCTTAAGCAAATGTATATATAACATAT
*
33290798 AATTTCATAAGAAATTTTATCAAAGCCGAATACACACATATATAATCATTAATAATAAAATTAAA
196 AATTTCATAAGAAATTTTATCAAAGCCGAATACACACATATATAATCACTAATAATAAAATTAAA
* * * *
33290863 AATTTCAAATCATTCTTGTCATGGTTATTCCTTTATACACAATCTTCCATTCATATACTTGTAGT
261 AATTTCAAATCATTCTAGTCATGGTTATTCATTTATACACAATCTTCAATTCATATACATGTAGT
* * *
33290928 TTACATAAGGCCGAACTTATCTATCATATACATATATAAACTTATAATAGCATTATATAT
326 TTACATAAGGCCAAACATACCTATCATATACATATATAAACTTATAATAGCATTATATAT
33290988 ATTTTTTATA
Statistics
Matches: 374, Mismatches: 11, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
397 374 1.00
ACGTcount: A:0.43, C:0.17, G:0.10, T:0.31
Consensus pattern (397 bp):
ATACTAGCCTATACATGCCATAAGTTCAAAATGAAACTTTTAAAGTACCGAAAGTAGACGACAGT
GTGATTGATTTCACTAACGATCCCCGAGCACGTAACGACCTCCAAAATCTATAAAAAATGACAAA
TAAAAAAAGAATAAAATAAGCTAACTTAGCTTAGTAAGCCTTAAGCAAATGTATATATAACATAT
AATTTCATAAGAAATTTTATCAAAGCCGAATACACACATATATAATCACTAATAATAAAATTAAA
AATTTCAAATCATTCTAGTCATGGTTATTCATTTATACACAATCTTCAATTCATATACATGTAGT
TTACATAAGGCCAAACATACCTATCATATACATATATAAACTTATAATAGCATTATATATGTATA
TATATAT
Found at i:33291182 original size:41 final size:41
Alignment explanation
Indices: 33291137--33291386 Score: 500
Period size: 41 Copynumber: 6.1 Consensus size: 41
33291127 CACCGGCACC
33291137 AAGCCTGCTAGGCATAAAGCCTGATACATTTCATCGACATA
1 AAGCCTGCTAGGCATAAAGCCTGATACATTTCATCGACATA
33291178 AAGCCTGCTAGGCATAAAGCCTGATACATTTCATCGACATA
1 AAGCCTGCTAGGCATAAAGCCTGATACATTTCATCGACATA
33291219 AAGCCTGCTAGGCATAAAGCCTGATACATTTCATCGACATA
1 AAGCCTGCTAGGCATAAAGCCTGATACATTTCATCGACATA
33291260 AAGCCTGCTAGGCATAAAGCCTGATACATTTCATCGACATA
1 AAGCCTGCTAGGCATAAAGCCTGATACATTTCATCGACATA
33291301 AAGCCTGCTAGGCATAAAGCCTGATACATTTCATCGACATA
1 AAGCCTGCTAGGCATAAAGCCTGATACATTTCATCGACATA
33291342 AAGCCTGCTAGGCATAAAGCCTGATACATTTCATCGACATA
1 AAGCCTGCTAGGCATAAAGCCTGATACATTTCATCGACATA
33291383 AAGC
1 AAGC
33291387 ATACATTTCA
Statistics
Matches: 209, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 209 1.00
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.24
Consensus pattern (41 bp):
AAGCCTGCTAGGCATAAAGCCTGATACATTTCATCGACATA
Found at i:33291393 original size:22 final size:22
Alignment explanation
Indices: 33291365--33291408 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
33291355 ATAAAGCCTG
*
33291365 ATACATTTCATCGACATAAAGC
1 ATACATTTCACCGACATAAAGC
*
33291387 ATACATTTCACCGGCATAAAGC
1 ATACATTTCACCGACATAAAGC
33291409 CTGCTAGGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.39, C:0.25, G:0.11, T:0.25
Consensus pattern (22 bp):
ATACATTTCACCGACATAAAGC
Found at i:33295497 original size:17 final size:17
Alignment explanation
Indices: 33295477--33295532 Score: 58
Period size: 17 Copynumber: 3.1 Consensus size: 17
33295467 TAGTTTAGTA
33295477 TTAAATTTAATTTAATG
1 TTAAATTTAATTTAATG
* *
33295494 TTAAAATGATTATTTTAATA
1 TT-AAAT--TTAATTTAATG
*
33295514 TTATATTTAATTTAATG
1 TTAAATTTAATTTAATG
33295531 TT
1 TT
33295533 TATCTTATTA
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
17 13 0.42
18 4 0.13
19 3 0.10
20 11 0.35
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.55
Consensus pattern (17 bp):
TTAAATTTAATTTAATG
Found at i:33297397 original size:335 final size:334
Alignment explanation
Indices: 33296786--33297439 Score: 1134
Period size: 335 Copynumber: 2.0 Consensus size: 334
33296776 GAAATTTGTA
33296786 TATCTGTTTCTATTATTTATGACATAATTGTGTATCTACTTCAGTGGTTAAGTGTTCTGGGAGTG
1 TATCTGTTTCTATTATTTATGACATAATTGTGTATCTACTTCAGTGGTTAAGTGTTCTGGGAGTG
*
33296851 TCTGAAAGGTCCTGAGTTCAAACCTTAGCTTGGGAAAATTTTTTTGTTTTTAAATGAATAAACCC
66 TATGAAAGGTCCTGAGTTCAAACCTTAGCTTGGGAAAATTTTTTTGTTTTTAAATGAATAAACCC
**
33296916 TTATCTCTAATCAGTAGGCTTATAAATAAATGTTGATAAAATATGTTAGAATGGGCTTACTGGTC
131 TTATCTCTAATCAGTAGGCTTATAAATAAATGTTGATAAAATATGACAGAATGGGCTTACTGGTC
** * *
33296981 TGGTGGCTAAAGCATGAGTTGGCATGTGGGAGGACTGGAGTTCAAGTCCTTGCGTTAGCAAGGGG
196 TGGTGGCTAAAGCATGAGTTGGCATGTGGGAGGACTGGAGTTCAAGTCCCAGCCTTAGCAAAGGG
33297046 GGATATATTCTTGCTTGATGCCGTGTAAGTGTTTGTGTGTTAGTAAAAGTCTGATGCTAGTGGTT
261 GGATATATTCTTGCTTGATGCCGTGTAAGTGTTTGTGTGTTAGTAAAAGTCTGATGCTAGTGGTT
33297111 AAGTGTGTT
326 AAGTGTGTT
* *
33297120 TATCTGTTTCTGTGTATTTATGACATAATTGTGTATCTGCTTCAGTGGTTAAGTGTTCTGGGAGT
1 TATCTGTTTCTAT-TATTTATGACATAATTGTGTATCTACTTCAGTGGTTAAGTGTTCTGGGAGT
*
33297185 GTATGAGAA-GTCTTGAGTTCAAACCTTAGCTTGGG-AAATTTTTTTGTTTTTAAATGAATAAAC
65 GTATGA-AAGGTCCTGAGTTCAAACCTTAGCTTGGGAAAATTTTTTTGTTTTTAAATGAATAAAC
*
33297248 TCTTATCTCTAATCAGTAGGCTTATAAATAAATGTTGATAAAAATATGACAGAATGGG-TCTACT
129 CCTTATCTCTAATCAGTAGGCTTATAAATAAATGTTGAT-AAAATATGACAGAATGGGCT-TACT
33297312 GGTCTGGTGGCTAAAGCATGAGTTGGCATGTGGGAGGACTGGAGTTCAAGTCCCAGCCTTAGCAA
192 GGTCTGGTGGCTAAAGCATGAGTTGGCATGTGGGAGGACTGGAGTTCAAGTCCCAGCCTTAGCAA
* *
33297377 AGGGGGATATATTTTTGCTTGATGTCGTGTAAGTGTTTGTGTGTTAGTAAAAGTCTGATGCTA
257 AGGGGGATATATTCTTGCTTGATGCCGTGTAAGTGTTTGTGTGTTAGTAAAAGTCTGATGCTA
33297440 ATGGACGGTT
Statistics
Matches: 303, Mismatches: 13, Indels: 7
0.94 0.04 0.02
Matches are distributed among these distances:
334 79 0.26
335 222 0.73
336 2 0.01
ACGTcount: A:0.26, C:0.12, G:0.25, T:0.37
Consensus pattern (334 bp):
TATCTGTTTCTATTATTTATGACATAATTGTGTATCTACTTCAGTGGTTAAGTGTTCTGGGAGTG
TATGAAAGGTCCTGAGTTCAAACCTTAGCTTGGGAAAATTTTTTTGTTTTTAAATGAATAAACCC
TTATCTCTAATCAGTAGGCTTATAAATAAATGTTGATAAAATATGACAGAATGGGCTTACTGGTC
TGGTGGCTAAAGCATGAGTTGGCATGTGGGAGGACTGGAGTTCAAGTCCCAGCCTTAGCAAAGGG
GGATATATTCTTGCTTGATGCCGTGTAAGTGTTTGTGTGTTAGTAAAAGTCTGATGCTAGTGGTT
AAGTGTGTT
Found at i:33302551 original size:25 final size:25
Alignment explanation
Indices: 33302480--33302586 Score: 108
Period size: 25 Copynumber: 4.3 Consensus size: 25
33302470 CTGTAAACGA
* * * **
33302480 GAAGCTCTTCCGAGCCATATAACAA
1 GAAGCTCTTACGAGCCAAATATCGG
* * *
33302505 GAAGCTCATATGAGCCATATATCGG
1 GAAGCTCTTACGAGCCAAATATCGG
33302530 GAAGCTCTTACGAGCCAAATATCGG
1 GAAGCTCTTACGAGCCAAATATCGG
* *
33302555 GAAGCTCATGA-GAGCCAAGTATCGG
1 GAAGCTC-TTACGAGCCAAATATCGG
33302580 GAAGCTC
1 GAAGCTC
33302587 AAGAGAGCTG
Statistics
Matches: 70, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
25 68 0.97
26 2 0.03
ACGTcount: A:0.33, C:0.23, G:0.24, T:0.20
Consensus pattern (25 bp):
GAAGCTCTTACGAGCCAAATATCGG
Found at i:33302559 original size:50 final size:50
Alignment explanation
Indices: 33302457--33302586 Score: 140
Period size: 50 Copynumber: 2.6 Consensus size: 50
33302447 ATATGCATGT
** * * * *
33302457 AAGCTCATATGAGCTGTA-AACGAGAAGCTCTTCCGAGCCATATAACAAG
1 AAGCTCATATGAGCCATATATCGGGAAGCTCTTACGAGCCAAATAACAAG
* **
33302506 AAGCTCATATGAGCCATATATCGGGAAGCTCTTACGAGCCAAATATCGGG
1 AAGCTCATATGAGCCATATATCGGGAAGCTCTTACGAGCCAAATAACAAG
33302556 AAGCTCATGA-GAGCCA-AGTATCGGGAAGCTC
1 AAGCTCAT-ATGAGCCATA-TATCGGGAAGCTC
33302587 AAGAGAGCTG
Statistics
Matches: 69, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
49 17 0.25
50 51 0.74
51 1 0.01
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.20
Consensus pattern (50 bp):
AAGCTCATATGAGCCATATATCGGGAAGCTCTTACGAGCCAAATAACAAG
Found at i:33302592 original size:25 final size:24
Alignment explanation
Indices: 33302516--33302594 Score: 88
Period size: 25 Copynumber: 3.2 Consensus size: 24
33302506 AAGCTCATAT
* *
33302516 GAGCCATATATCGGGAAGCTCTTA-C
1 GAGCCA-ATATCGGGAAGCTC-AAGA
*
33302541 GAGCCAAATATCGGGAAGCTCATGA
1 GAGCC-AATATCGGGAAGCTCAAGA
33302566 GAGCCAAGTATCGGGAAGCTCAAGA
1 GAGCCAA-TATCGGGAAGCTCAAGA
33302591 GAGC
1 GAGC
33302595 TGTGGTGTGT
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
24 2 0.04
25 44 0.94
26 1 0.02
ACGTcount: A:0.33, C:0.22, G:0.29, T:0.16
Consensus pattern (24 bp):
GAGCCAATATCGGGAAGCTCAAGA
Found at i:33309452 original size:24 final size:24
Alignment explanation
Indices: 33309425--33309472 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
33309415 ACCTAAAACT
*
33309425 TAAAAAAAATCAT-TTAAAAATAAA
1 TAAAAAAAAT-ATAATAAAAATAAA
*
33309449 TAAATAAAATATAATAAAAATAAA
1 TAAAAAAAATATAATAAAAATAAA
33309473 GAATTTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 2 0.10
24 19 0.90
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (24 bp):
TAAAAAAAATATAATAAAAATAAA
Found at i:33309777 original size:23 final size:24
Alignment explanation
Indices: 33309717--33309777 Score: 65
Period size: 24 Copynumber: 2.6 Consensus size: 24
33309707 TTTTAACTAA
33309717 AATTT-ATTAAAAA-TTAAAGTTT
1 AATTTAATTAAAAAGTTAAAGTTT
* * *
33309739 TATTAAATTAAAAAAGTTGAA-TTT
1 AATTTAATT-AAAAAGTTAAAGTTT
33309763 AATTTAATTAAAAAG
1 AATTTAATTAAAAAG
33309778 ACAAAACTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
22 3 0.10
23 9 0.29
24 15 0.48
25 4 0.13
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (24 bp):
AATTTAATTAAAAAGTTAAAGTTT
Found at i:33312656 original size:13 final size:13
Alignment explanation
Indices: 33312638--33312666 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
33312628 CACATCAAAA
33312638 TCACTAATAAGTC
1 TCACTAATAAGTC
33312651 TCACTAATAAGTC
1 TCACTAATAAGTC
33312664 TCA
1 TCA
33312667 TTTTCAACCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.38, C:0.24, G:0.07, T:0.31
Consensus pattern (13 bp):
TCACTAATAAGTC
Found at i:33313146 original size:42 final size:41
Alignment explanation
Indices: 33313078--33313196 Score: 123
Period size: 42 Copynumber: 2.9 Consensus size: 41
33313068 ACATCGTTTT
* * *
33313078 CAAAAGCCCA-AAGGCTTAATAGAAGCTCATGAGAGATAAA
1 CAAAAACCCATAAGGGTTAATAGAAGCTCATAAGAGATAAA
* * * *
33313118 CAAAAACCCATAAGGGTTGAATGGAAGCTCGTAAGAGCTGAA
1 CAAAAACCCATAAGGGTT-AATAGAAGCTCATAAGAGATAAA
* * *
33313160 CAGAAACCCATAAGGGTTAAACAGAAGCTCAAAAGAG
1 CAAAAACCCATAAGGGTT-AATAGAAGCTCATAAGAG
33313197 CTGAATGGAA
Statistics
Matches: 64, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
40 9 0.14
41 6 0.09
42 49 0.77
ACGTcount: A:0.45, C:0.18, G:0.23, T:0.14
Consensus pattern (41 bp):
CAAAAACCCATAAGGGTTAATAGAAGCTCATAAGAGATAAA
Found at i:33313173 original size:21 final size:21
Alignment explanation
Indices: 33313149--33313249 Score: 76
Period size: 21 Copynumber: 4.8 Consensus size: 21
33313139 TGGAAGCTCG
* *
33313149 TAAGAGCTGAACAGAAACCCA
1 TAAGAGCTAAACAGAAACTCA
* * *
33313170 TAAGGGTTAAACAGAAGCTCA
1 TAAGAGCTAAACAGAAACTCA
* * **
33313191 AAAGAGCTGAATGGAAACTCA
1 TAAGAGCTAAACAGAAACTCA
* * *
33313212 TATGAGCTAAACAGAAGCTCG
1 TAAGAGCTAAACAGAAACTCA
* *
33313233 TGAGAGTTAAACAGAAA
1 TAAGAGCTAAACAGAAA
33313250 GTAAACGCGA
Statistics
Matches: 57, Mismatches: 23, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
21 57 1.00
ACGTcount: A:0.46, C:0.16, G:0.23, T:0.16
Consensus pattern (21 bp):
TAAGAGCTAAACAGAAACTCA
Found at i:33313197 original size:42 final size:42
Alignment explanation
Indices: 33313098--33313249 Score: 133
Period size: 42 Copynumber: 3.6 Consensus size: 42
33313088 AAGGCTTAAT
* * * * * *
33313098 AGAAGCTCATGAGAGATAAACAAAAACCCATAAGGGTTGAAT
1 AGAAGCTCATAAGAGCTGAACAGAAACCCATAAGGGTTAAAC
* *
33313140 GGAAGCTCGTAAGAGCTGAACAGAAACCCATAAGGGTTAAAC
1 AGAAGCTCATAAGAGCTGAACAGAAACCCATAAGGGTTAAAC
* ** * * * *
33313182 AGAAGCTCAAAAGAGCTGAATGGAAACTCATATGAGCTAAAC
1 AGAAGCTCATAAGAGCTGAACAGAAACCCATAAGGGTTAAAC
* * * *
33313224 AGAAGCTCGTGAGAGTTAAACAGAAA
1 AGAAGCTCATAAGAGCTGAACAGAAA
33313250 GTAAACGCGA
Statistics
Matches: 86, Mismatches: 24, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
42 86 1.00
ACGTcount: A:0.45, C:0.16, G:0.24, T:0.16
Consensus pattern (42 bp):
AGAAGCTCATAAGAGCTGAACAGAAACCCATAAGGGTTAAAC
Found at i:33313242 original size:63 final size:63
Alignment explanation
Indices: 33313098--33313249 Score: 160
Period size: 63 Copynumber: 2.4 Consensus size: 63
33313088 AAGGCTTAAT
* * * * * * * *
33313098 AGAAGCTCATGAGAGATAAACAAAAACCCATAAGGGTTGAATGGAAGCTCGTAAGAGCTGAAC
1 AGAAGCTCATGAGAGTTAAACAGAAACCCAAAAGAGCTGAATGGAAACTCATAAGAGCTAAAC
* * * * * * *
33313161 AGAAACCCATAAGGGTTAAACAGAAGCTCAAAAGAGCTGAATGGAAACTCATATGAGCTAAAC
1 AGAAGCTCATGAGAGTTAAACAGAAACCCAAAAGAGCTGAATGGAAACTCATAAGAGCTAAAC
*
33313224 AGAAGCTCGTGAGAGTTAAACAGAAA
1 AGAAGCTCATGAGAGTTAAACAGAAA
33313250 GTAAACGCGA
Statistics
Matches: 68, Mismatches: 21, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
63 68 1.00
ACGTcount: A:0.45, C:0.16, G:0.24, T:0.16
Consensus pattern (63 bp):
AGAAGCTCATGAGAGTTAAACAGAAACCCAAAAGAGCTGAATGGAAACTCATAAGAGCTAAAC
Found at i:33321118 original size:46 final size:46
Alignment explanation
Indices: 33321046--33321230 Score: 280
Period size: 46 Copynumber: 4.0 Consensus size: 46
33321036 ACAATGCTAT
* *
33321046 AACTCAGTATGGTTTCCTTCACTGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
* * *
33321092 AGCTCAGTATGGTTTTCTTCAGTGAAACACCATACCTACTTCTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
*
33321138 AACTTAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
* * * *
33321184 AACTCAGTATGGTTTTCTTCATTGAAATATCATACCTACGTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
33321230 A
1 A
33321231 CTTTTCCATG
Statistics
Matches: 125, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 125 1.00
ACGTcount: A:0.28, C:0.26, G:0.10, T:0.36
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
Found at i:33336774 original size:44 final size:44
Alignment explanation
Indices: 33336725--33337377 Score: 254
Period size: 44 Copynumber: 14.5 Consensus size: 44
33336715 TTGACCTACA
* * *
33336725 GCAACTTCAGAGG-TATAAGATTCATCGTTTTAATTTGCTCCACT
1 GCAACTTCAG-GGAGATAAGATTAATAGTTTTAATTTGCTCCACT
* * * *
33336769 GCAACTTCAGGGAGATAGGATTAATAGCTTCAATCTGCTCCACT
1 GCAACTTCAGGGAGATAAGATTAATAGTTTTAATTTGCTCCACT
* * * * * *
33336813 ACAACTTTAGGGAGATAAGACTCGTTATGGTAGATTTAATCTTGAC-CTACA
1 GCAACTTCAGGGAGATAAGA----TTA--ATAGTTTTAAT-TTG-CTCCACT
* * *
33336864 GCAACTTCAGAGG-TATAAGATTCATCGTTTTAATTTGCTCCACT
1 GCAACTTCAG-GGAGATAAGATTAATAGTTTTAATTTGCTCCACT
* * * *
33336908 GCAACTTCAGGGAGATAGGATTAATAGCTTCAATCTGCTCCACT
1 GCAACTTCAGGGAGATAAGATTAATAGTTTTAATTTGCTCCACT
* * * * * *
33336952 GCAACTTCAGGGAGATAAGGTT--T-GATGTGATCTGCTCTACT
1 GCAACTTCAGGGAGATAAGATTAATAGTTTTAATTTGCTCCACT
* ** * * *
33336993 GCAACTTTAAAGAGATAAGATCTGTAATTTATAGCTTTAATCTGTTCCACT
1 GCAACTTCAGGGAGATAAGA--T-T-A---ATAGTTTTAATTTGCTCCACT
* * * *** * *
33337044 GCAACTTCAAGGAAATGAGATTTGCCA-TTTTCAGTCTGCTCCACT
1 GCAACTTCAGGGAGATAAGA-TTAATAGTTTT-AATTTGCTCCACT
* * * * ** *
33337089 ACAACTTCAGGGAGATAAGACTT-GTA-TTTTCAATCTGTTTTATT
1 GCAACTTCAGGGAGATAAGA-TTAATAGTTTT-AATTTGCTCCACT
* ** * * *
33337133 GCAACTTCAGAGAGATAAGATTTTTGGCTTTAATCTGCTCCACT
1 GCAACTTCAGGGAGATAAGATTAATAGTTTTAATTTGCTCCACT
* * * *
33337177 ACAACTTCAGGTAGATAAGATTTATAGCATGTCTTCAATCTGCTCCACT
1 GCAACTTCAGGGAGATAAGATTAATAG--T-T-TT-AATTTGCTCCACT
* * **
33337226 ACAACTTCAGGGAGATAGGA-TAAGTTTA-TTGTTAACCTGCTCCACT
1 GCAACTTCAGGGAGATAAGATTAA---TAGTT-TTAATTTGCTCCACT
* * * * ** * *
33337272 GCAACTTCAGGGAGATAAGGTT--T-GATGTGACCTGCTCTATT
1 GCAACTTCAGGGAGATAAGATTAATAGTTTTAATTTGCTCCACT
* * * ** * *
33337313 GCAAGTTCAGAGAGATAATATTTGTGGCTTTAATTTGCTCCACT
1 GCAACTTCAGGGAGATAAGATTAATAGTTTTAATTTGCTCCACT
33337357 GCAACTTCAGGGAGATAAGAT
1 GCAACTTCAGGGAGATAAGAT
33337378 CCGCCATGAC
Statistics
Matches: 458, Mismatches: 113, Indels: 76
0.71 0.17 0.12
Matches are distributed among these distances:
41 58 0.13
42 3 0.01
43 9 0.02
44 208 0.45
45 41 0.09
46 29 0.06
47 7 0.02
48 8 0.02
49 32 0.07
50 10 0.02
51 50 0.11
52 3 0.01
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (44 bp):
GCAACTTCAGGGAGATAAGATTAATAGTTTTAATTTGCTCCACT
Found at i:33336913 original size:139 final size:139
Alignment explanation
Indices: 33336663--33336970 Score: 598
Period size: 139 Copynumber: 2.2 Consensus size: 139
33336653 CTATCTACAG
33336663 TCTGCTCCACTACAACTTTAGGGAGATAAGACTCGTTATGGTAGATTTAATCTTGACCTACAGCA
1 TCTGCTCCACTACAACTTTAGGGAGATAAGACTCGTTATGGTAGATTTAATCTTGACCTACAGCA
33336728 ACTTCAGAGGTATAAGATTCATCGTTTTAATTTGCTCCACTGCAACTTCAGGGAGATAGGATTAA
66 ACTTCAGAGGTATAAGATTCATCGTTTTAATTTGCTCCACTGCAACTTCAGGGAGATAGGATTAA
33336793 TAGCTTCAA
131 TAGCTTCAA
33336802 TCTGCTCCACTACAACTTTAGGGAGATAAGACTCGTTATGGTAGATTTAATCTTGACCTACAGCA
1 TCTGCTCCACTACAACTTTAGGGAGATAAGACTCGTTATGGTAGATTTAATCTTGACCTACAGCA
33336867 ACTTCAGAGGTATAAGATTCATCGTTTTAATTTGCTCCACTGCAACTTCAGGGAGATAGGATTAA
66 ACTTCAGAGGTATAAGATTCATCGTTTTAATTTGCTCCACTGCAACTTCAGGGAGATAGGATTAA
33336932 TAGCTTCAA
131 TAGCTTCAA
* *
33336941 TCTGCTCCACTGCAACTTCAGGGAGATAAG
1 TCTGCTCCACTACAACTTTAGGGAGATAAG
33336971 GTTTGATGTG
Statistics
Matches: 167, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
139 167 1.00
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (139 bp):
TCTGCTCCACTACAACTTTAGGGAGATAAGACTCGTTATGGTAGATTTAATCTTGACCTACAGCA
ACTTCAGAGGTATAAGATTCATCGTTTTAATTTGCTCCACTGCAACTTCAGGGAGATAGGATTAA
TAGCTTCAA
Found at i:33337305 original size:41 final size:42
Alignment explanation
Indices: 33337216--33337375 Score: 128
Period size: 41 Copynumber: 3.7 Consensus size: 42
33337206 TGTCTTCAAT
* *
33337216 CTGCTCCACTACAACTTCAGGGAGAT-AGGATAAGTTTATTGTTAAC
1 CTGCTCCACTGCAACTTCAGGGAGATAAGG-T---TTGA-TGTTAAC
*
33337262 CTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGATG-TGAC
1 CTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGATGTTAAC
* * * * ** *
33337303 CTGCTCTATTGCAAGTTCAGAGAGATAATATTTG-TGGCTTTAAT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGAT-G--TTAAC
*
33337347 TTGCTCCACTGCAACTTCAGGGAGATAAG
1 CTGCTCCACTGCAACTTCAGGGAGATAAG
33337376 ATCCGCCATG
Statistics
Matches: 92, Mismatches: 17, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
40 1 0.01
41 32 0.35
42 2 0.02
43 3 0.03
44 25 0.27
46 26 0.28
47 3 0.03
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.31
Consensus pattern (42 bp):
CTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGATGTTAAC
Found at i:33349073 original size:39 final size:40
Alignment explanation
Indices: 33349003--33349086 Score: 125
Period size: 39 Copynumber: 2.1 Consensus size: 40
33348993 CGTTTGTACA
* *
33349003 AAAAACGCCGGTAAAAATTGAGCATTAGCGGCGTTTTTTG
1 AAAAACGCCGCTAAAAATTGAGCATTAGCGGCGTTTTTGG
* *
33349043 AAAATCGCCGCTAAAAA-TGAGCATTTGCGGCGTTTTTGG
1 AAAAACGCCGCTAAAAATTGAGCATTAGCGGCGTTTTTGG
33349082 AAAAA
1 AAAAA
33349087 ATGCCACAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
39 24 0.62
40 15 0.38
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.26
Consensus pattern (40 bp):
AAAAACGCCGCTAAAAATTGAGCATTAGCGGCGTTTTTGG
Found at i:33349099 original size:40 final size:39
Alignment explanation
Indices: 33349015--33349099 Score: 100
Period size: 39 Copynumber: 2.2 Consensus size: 39
33349005 AAACGCCGGT
* * *
33349015 AAAAATTGAGCATTAGCGGCGTTTTTTGAAAATCGCCGC
1 AAAAAATGAGCATTAGCGGCGTTTTTGGAAAATCGCCAC
* *
33349054 TAAAAATGAGCATTTGCGGCGTTTTTGGAAAAAAT-GCCAC
1 AAAAAATGAGCATTAGCGGCGTTTTTGG--AAAATCGCCAC
33349094 AAAAAA
1 AAAAAA
33349100 CCAAAGCCTA
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
39 24 0.63
40 9 0.24
41 5 0.13
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.26
Consensus pattern (39 bp):
AAAAAATGAGCATTAGCGGCGTTTTTGGAAAATCGCCAC
Found at i:33349193 original size:41 final size:41
Alignment explanation
Indices: 33349133--33349413 Score: 438
Period size: 41 Copynumber: 6.9 Consensus size: 41
33349123 CTTACCTTTC
33349133 GGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTG
1 GGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTG
* *
33349174 GGGGCTTTAGCAGCATTTTTGGAAAAGCGCCGCTAATGCTG
1 GGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTG
* * *
33349215 GGGGATTTAGCGGCGTTTTTGGATAAGTGCCGCTAATGCTG
1 GGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTG
* *
33349256 GGGGCTTTAGCGGCGTTTTTTGATAAGCGCCGCTAATGCTG
1 GGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTG
* *
33349297 GGGGCTTTAGCGGCGTTTTTGGATAAGCGCCGCTAATGCTT
1 GGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTG
* * *
33349338 GAGGCTTTAGC-GCGTTTTTGGGAAAGCGCCGCTAATGCTT
1 GGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTG
*
33349378 GGGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAA
1 GGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAA
33349414 AAACATTTTA
Statistics
Matches: 223, Mismatches: 16, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
40 37 0.17
41 186 0.83
ACGTcount: A:0.17, C:0.19, G:0.35, T:0.29
Consensus pattern (41 bp):
GGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTG
Found at i:33349739 original size:15 final size:14
Alignment explanation
Indices: 33349719--33349753 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
33349709 AGTATTTTAA
33349719 GGTTTAGGGAGTAT
1 GGTTTAGGGAGTAT
*
33349733 GGATTTAGGGATTAT
1 GG-TTTAGGGAGTAT
33349748 GGTTTA
1 GGTTTA
33349754 ATAGTTGGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.23, C:0.00, G:0.37, T:0.40
Consensus pattern (14 bp):
GGTTTAGGGAGTAT
Found at i:33349790 original size:8 final size:8
Alignment explanation
Indices: 33349769--33349803 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
33349759 TGGGATTTAA
33349769 GGTTTAGG
1 GGTTTAGG
33349777 GG-TTAGG
1 GGTTTAGG
33349784 GGTTTAGG
1 GGTTTAGG
*
33349792 GGTTTAAG
1 GGTTTAGG
33349800 GGTT
1 GGTT
33349804 AATAGTTAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
7 7 0.28
8 18 0.72
ACGTcount: A:0.14, C:0.00, G:0.49, T:0.37
Consensus pattern (8 bp):
GGTTTAGG
Found at i:33350070 original size:15 final size:14
Alignment explanation
Indices: 33350050--33350084 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
33350040 AGTATTTTAA
33350050 GGTTTAGGGAGTAT
1 GGTTTAGGGAGTAT
*
33350064 GGATTTAGGGATTAT
1 GG-TTTAGGGAGTAT
33350079 GGTTTA
1 GGTTTA
33350085 ATAGTTGGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.23, C:0.00, G:0.37, T:0.40
Consensus pattern (14 bp):
GGTTTAGGGAGTAT
Found at i:33350097 original size:331 final size:330
Alignment explanation
Indices: 33349532--33350159 Score: 1211
Period size: 331 Copynumber: 1.9 Consensus size: 330
33349522 TATATATTGA
**
33349532 AAAGTTTTTGGGGTAAATGATTACTGATTATTTTTAATTTATATATTGAAAAATTTCTTATGTAA
1 AAAGTTTTTGGGGTAAATGATTACTGATTATTTTTAATTTATATATTGAAAAATTTCTTAAATAA
*
33349597 TCGTAAAAGAGATAGTATTAATTTTAAAATATTGAATTAATTAACACTATAATTTAGGATTTTTG
66 TCATAAAAGAGATAGTATTAATTTTAAAATATTGAATTAATTAACACTATAATTTAGGATTTTTG
33349662 GTTTAAGGTATATGATTTATTTAAGATTTAAGACCGGTTTAGGAGTTAGTATTTTAAGGTTTAGG
131 GTTTAAGGTATATGATTTATTTAAGATTTAAGACCGGTTTAGGAGTTAGTATTTTAAGGTTTAGG
33349727 GAGTATGGATTTAGGGATTATGGTTTAATAGTTGGGATTTAAGGTTTAGGGGTTAGGGGTTTAGG
196 GAGTATGGATTTAGGGATTATGGTTTAATAGTTGGGATTTAAGGTTTAGGGGTTAGGGGTTTAGG
33349792 GGTTTAAGGGTTAATAGTTAAGGATTTAAGGTTTAAAAAAAATTAAAATACTATTATTTAAAATA
261 GGTTTAAGGGTTAATAGTTAAGGATTTAAGGTTTAAAAAAAATTAAAATACTATTATTTAAAATA
33349857 ATTTT
326 ATTTT
*
33349862 AAAGTTTTTTGGGTAAATGATTACTGATTATTTTTTAATTTATATATTGAAAAATTTCTTAAATA
1 AAAGTTTTTGGGGTAAATGATTACTGATTA-TTTTTAATTTATATATTGAAAAATTTCTTAAATA
33349927 ATCATAAAAGAGATAGTATTAATTTTAAAATATTGAATTAATTAACACTATAATTTAGGATTTTT
65 ATCATAAAAGAGATAGTATTAATTTTAAAATATTGAATTAATTAACACTATAATTTAGGATTTTT
33349992 GGTTTAAGGTATATGATTTATTTAAGATTTAAGACCGGTTTAGGAGTTAGTATTTTAAGGTTTAG
130 GGTTTAAGGTATATGATTTATTTAAGATTTAAGACCGGTTTAGGAGTTAGTATTTTAAGGTTTAG
33350057 GGAGTATGGATTTAGGGATTATGGTTTAATAGTTGGGATTTAAGGTTTAGGGGTTAGGGGTTTAG
195 GGAGTATGGATTTAGGGATTATGGTTTAATAGTTGGGATTTAAGGTTTAGGGGTTAGGGGTTTAG
33350122 GGGTTTAAGGGTTAATAGTTAAGGATTTAAGGTTTAAA
260 GGGTTTAAGGGTTAATAGTTAAGGATTTAAGGTTTAAA
33350160 GATTCATGGG
Statistics
Matches: 293, Mismatches: 4, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
330 29 0.10
331 264 0.90
ACGTcount: A:0.34, C:0.02, G:0.21, T:0.42
Consensus pattern (330 bp):
AAAGTTTTTGGGGTAAATGATTACTGATTATTTTTAATTTATATATTGAAAAATTTCTTAAATAA
TCATAAAAGAGATAGTATTAATTTTAAAATATTGAATTAATTAACACTATAATTTAGGATTTTTG
GTTTAAGGTATATGATTTATTTAAGATTTAAGACCGGTTTAGGAGTTAGTATTTTAAGGTTTAGG
GAGTATGGATTTAGGGATTATGGTTTAATAGTTGGGATTTAAGGTTTAGGGGTTAGGGGTTTAGG
GGTTTAAGGGTTAATAGTTAAGGATTTAAGGTTTAAAAAAAATTAAAATACTATTATTTAAAATA
ATTTT
Found at i:33350121 original size:8 final size:8
Alignment explanation
Indices: 33350100--33350134 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
33350090 TGGGATTTAA
33350100 GGTTTAGG
1 GGTTTAGG
33350108 GG-TTAGG
1 GGTTTAGG
33350115 GGTTTAGG
1 GGTTTAGG
*
33350123 GGTTTAAG
1 GGTTTAGG
33350131 GGTT
1 GGTT
33350135 AATAGTTAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
7 7 0.28
8 18 0.72
ACGTcount: A:0.14, C:0.00, G:0.49, T:0.37
Consensus pattern (8 bp):
GGTTTAGG
Found at i:33352329 original size:10 final size:10
Alignment explanation
Indices: 33352314--33352344 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
33352304 CCTGCCATGC
*
33352314 TTGCTTGACT
1 TTGCTTAACT
33352324 TTGCTTAACT
1 TTGCTTAACT
33352334 TTGCTTAACT
1 TTGCTTAACT
33352344 T
1 T
33352345 ACATTATTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.16, C:0.19, G:0.13, T:0.52
Consensus pattern (10 bp):
TTGCTTAACT
Found at i:33353898 original size:43 final size:42
Alignment explanation
Indices: 33353838--33353920 Score: 121
Period size: 43 Copynumber: 2.0 Consensus size: 42
33353828 GTTTGAGTTC
* * *
33353838 ATTACAAGATTTCCTTGATTAAGTAAATGTATTATATATTTT
1 ATTACAAGATTTACTTGATTAAGAAAATGCATTATATATTTT
*
33353880 ATTACCAAGATTTACTTGATTAAGAAAATGCATTGTATATT
1 ATTA-CAAGATTTACTTGATTAAGAAAATGCATTATATATT
33353921 ATTACCTTGC
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 4 0.11
43 32 0.89
ACGTcount: A:0.37, C:0.08, G:0.11, T:0.43
Consensus pattern (42 bp):
ATTACAAGATTTACTTGATTAAGAAAATGCATTATATATTTT
Done.