Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D13
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: 60343961
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 596159 characters in sequence are not A, C, G, or T
File 22 of 204
Found at i:6372713 original size:23 final size:23
Alignment explanation
Indices: 6372559--6372720 Score: 164
Period size: 23 Copynumber: 6.9 Consensus size: 23
6372549 CGTTATTGTG
*
6372559 AAAGGATGAATTGATGAAAATGT
1 AAAGGATGAATTGACGAAAATGT
* * *
6372582 AAATGATGACTTGATGGAAAATGT
1 AAAGGATGAATTGA-CGAAAATGT
* * *
6372606 AAAGGAGGAACTGATGGAAAATGT
1 AAAGGATGAATTGA-CGAAAATGT
* * **
6372630 AAAGGAGGAACTGACGGTAATGT
1 AAAGGATGAATTGACGAAAATGT
*
6372653 AAAGGATGAATTGAC-AGTAATGT
1 AAAGGATGAATTGACGA-AAATGT
*
6372676 AAAGGATGAATTGACGACAATGT
1 AAAGGATGAATTGACGAAAATGT
6372699 AAAGGATGAATTGACGACAAAT
1 AAAGGATGAATTGACGA-AAAT
6372721 TGTCTAAGTA
Statistics
Matches: 120, Mismatches: 15, Indels: 7
0.85 0.11 0.05
Matches are distributed among these distances:
23 74 0.62
24 46 0.38
ACGTcount: A:0.44, C:0.06, G:0.28, T:0.22
Consensus pattern (23 bp):
AAAGGATGAATTGACGAAAATGT
Found at i:6378226 original size:16 final size:16
Alignment explanation
Indices: 6378207--6378240 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
6378197 AAATATGTGC
6378207 TGGACTAAATTGAATA
1 TGGACTAAATTGAATA
6378223 TGGACTAAATTGAATA
1 TGGACTAAATTGAATA
6378239 TG
1 TG
6378241 AATTATATTG
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:0.41, C:0.06, G:0.21, T:0.32
Consensus pattern (16 bp):
TGGACTAAATTGAATA
Found at i:6378250 original size:16 final size:16
Alignment explanation
Indices: 6378210--6378253 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
6378200 TATGTGCTGG
*
6378210 ACTAAATTGAATATGG
1 ACTAAATTGAATATGA
6378226 ACTAAATTGAATATGA
1 ACTAAATTGAATATGA
* *
6378242 ATTATATTGAAT
1 ACTAAATTGAAT
6378254 TAAGTTAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.45, C:0.05, G:0.14, T:0.36
Consensus pattern (16 bp):
ACTAAATTGAATATGA
Found at i:6378651 original size:50 final size:50
Alignment explanation
Indices: 6378576--6378699 Score: 185
Period size: 50 Copynumber: 2.5 Consensus size: 50
6378566 CACAACTCTT
*
6378576 ATGAGCTTCTCGATATTTAGCTCACATGAGCTTCCCAATATTTAGCTCAC
1 ATGAGCTTCCCGATATTTAGCTCACATGAGCTTCCCAATATTTAGCTCAC
* **
6378626 ATGAGCTTCCCGATATTTAGCTCACATGAGCTTTCCAATATTTAGCTTGC
1 ATGAGCTTCCCGATATTTAGCTCACATGAGCTTCCCAATATTTAGCTCAC
* * *
6378676 ATGAGCTTCCTGTTATTCAGCTCA
1 ATGAGCTTCCCGATATTTAGCTCA
6378700 AAGAAGCTTC
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 67 1.00
ACGTcount: A:0.24, C:0.25, G:0.15, T:0.35
Consensus pattern (50 bp):
ATGAGCTTCCCGATATTTAGCTCACATGAGCTTCCCAATATTTAGCTCAC
Found at i:6378692 original size:25 final size:25
Alignment explanation
Indices: 6378576--6378712 Score: 168
Period size: 25 Copynumber: 5.5 Consensus size: 25
6378566 CACAACTCTT
*
6378576 ATGAGCTTCTCGATATTTAGCTCAC
1 ATGAGCTTCCCGATATTTAGCTCAC
*
6378601 ATGAGCTTCCCAATATTTAGCTCAC
1 ATGAGCTTCCCGATATTTAGCTCAC
6378626 ATGAGCTTCCCGATATTTAGCTCAC
1 ATGAGCTTCCCGATATTTAGCTCAC
* * **
6378651 ATGAGCTTTCCAATATTTAGCTTGC
1 ATGAGCTTCCCGATATTTAGCTCAC
* * *
6378676 ATGAGCTTCCTGTTATTCAGCTCA-
1 ATGAGCTTCCCGATATTTAGCTCAC
*
6378700 AAGAAGCTTCCCG
1 ATG-AGCTTCCCG
6378713 TTTATAGCTC
Statistics
Matches: 95, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
24 2 0.02
25 93 0.98
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.34
Consensus pattern (25 bp):
ATGAGCTTCCCGATATTTAGCTCAC
Found at i:6383559 original size:6 final size:6
Alignment explanation
Indices: 6383548--6383572 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
6383538 CTTCACTAGT
6383548 TCTATA TCTATA TCTATA TCTATA T
1 TCTATA TCTATA TCTATA TCTATA T
6383573 TGTTTATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.16, G:0.00, T:0.52
Consensus pattern (6 bp):
TCTATA
Found at i:6384913 original size:27 final size:26
Alignment explanation
Indices: 6384883--6384935 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 26
6384873 CATAACTTAT
*
6384883 TTATAAAAAAATAATATTTTTCTATAA
1 TTATAAAAAAATAATATTATT-TATAA
** *
6384910 TTATGGAAAAATTATATTATTTATAA
1 TTATAAAAAAATAATATTATTTATAA
6384936 AAAGTGTTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
26 5 0.23
27 17 0.77
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (26 bp):
TTATAAAAAAATAATATTATTTATAA
Found at i:6386246 original size:37 final size:37
Alignment explanation
Indices: 6386176--6386265 Score: 116
Period size: 37 Copynumber: 2.5 Consensus size: 37
6386166 AGCTATAAAG
6386176 GCCGAATGC--ACATAT-T-CACTTATACCCACCTAT
1 GCCGAATGCATACATATATACACTTATACCCACCTAT
* * *
6386209 GCCGAATGCATACATATATACACTTATATCTATCTAT
1 GCCGAATGCATACATATATACACTTATACCCACCTAT
*
6386246 GCCGAATGCATACAAATATA
1 GCCGAATGCATACATATATA
6386266 TATCCACCTA
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
33 9 0.18
35 6 0.12
36 1 0.02
37 33 0.67
ACGTcount: A:0.36, C:0.26, G:0.10, T:0.29
Consensus pattern (37 bp):
GCCGAATGCATACATATATACACTTATACCCACCTAT
Found at i:6386692 original size:41 final size:41
Alignment explanation
Indices: 6386481--6386685 Score: 374
Period size: 41 Copynumber: 5.0 Consensus size: 41
6386471 ATCATATTTG
6386481 GATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCA
1 GATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCA
*
6386522 GATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTTA
1 GATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCA
* *
6386563 GATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCA
1 GATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCA
*
6386604 TATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCA
1 GATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCA
6386645 GATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCA
1 GATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCA
6386686 ATTCACCAAT
Statistics
Matches: 156, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 156 1.00
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.28
Consensus pattern (41 bp):
GATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCA
Found at i:6386953 original size:15 final size:17
Alignment explanation
Indices: 6386912--6386955 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 17
6386902 TTGTTCGATC
6386912 CACATATATATATTACA
1 CACATATATATATTACA
*
6386929 CACATATATATATT-CG
1 CACATATATATATTACA
6386945 CACAT-TATATA
1 CACATATATATA
6386956 AACACAACCA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 6 0.23
16 6 0.23
17 14 0.54
ACGTcount: A:0.43, C:0.18, G:0.02, T:0.36
Consensus pattern (17 bp):
CACATATATATATTACA
Found at i:6389306 original size:3 final size:3
Alignment explanation
Indices: 6389298--6389343 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
6389288 TAATAGCTCC
6389298 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
6389344 ATGTTATTGT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:6390466 original size:37 final size:37
Alignment explanation
Indices: 6390405--6390550 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
6390395 TACGTATGAT
* *
6390405 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
6390440 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
6390477 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
6390514 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
6390551 TAAAGCTATC
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 9 0.09
36 3 0.03
37 92 0.88
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:6390567 original size:46 final size:46
Alignment explanation
Indices: 6390514--6390736 Score: 275
Period size: 52 Copynumber: 4.6 Consensus size: 46
6390504 TAAGTGTAGC
* **
6390514 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
6390560 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
6390606 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
6390658 CACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
6390710 CACTTATCACTTTATCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
6390737 AGTACTCAAA
Statistics
Matches: 163, Mismatches: 7, Indels: 14
0.89 0.04 0.08
Matches are distributed among these distances:
46 68 0.42
49 1 0.01
50 1 0.01
51 3 0.02
52 90 0.55
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:6390633 original size:52 final size:52
Alignment explanation
Indices: 6390557--6390730 Score: 285
Period size: 52 Copynumber: 3.3 Consensus size: 52
6390547 TAGCTAAAGC
* * *
6390557 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
6390610 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
* *
6390662 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
6390714 TATCACTTTATCACTTG
1 TATCACTTT-TCACTTG
6390731 ATCAGAAGTA
Statistics
Matches: 114, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
52 96 0.84
53 18 0.16
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
Found at i:6393916 original size:49 final size:49
Alignment explanation
Indices: 6393861--6394055 Score: 309
Period size: 49 Copynumber: 4.0 Consensus size: 49
6393851 TTCGTTTTCT
* * *
6393861 CGATGCCATAGTCCAACTATGGTCTTACACGTAATCACAAATCACATAC
1 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACAAATCACATAC
* * *
6393910 CGATGCCATAGCCCAGCTATGGTCTTACACGAAATCACATATCACTTAC
1 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACAAATCACATAC
* *
6393959 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATATCACTTAC
1 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACAAATCACATAC
6394008 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCACAT
1 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACA-AATCACAT
6394056 GTTCACATGT
Statistics
Matches: 137, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
49 131 0.96
50 6 0.04
ACGTcount: A:0.31, C:0.30, G:0.15, T:0.24
Consensus pattern (49 bp):
CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACAAATCACATAC
Found at i:6395370 original size:37 final size:37
Alignment explanation
Indices: 6395313--6395464 Score: 173
Period size: 37 Copynumber: 3.9 Consensus size: 37
6395303 TATGATCACT
*
6395313 TATCAC-TTGTC-CCTGATCAGATAAGTGTAGCCACC
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
* *
6395348 TATCACTTTGTTTCTTGATCAGATAAGTGTAGCCACT
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
6395385 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCAC
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGC-----C-A-C-C
*
6395430 TTATCACTTTGTCTCTTGATCAGATAAGTATAGCC
1 -TATCACTTTGTCTCTTGATCAGATAAGTGTAGCC
6395465 GAAGCTATCA
Statistics
Matches: 100, Mismatches: 6, Indels: 16
0.82 0.05 0.13
Matches are distributed among these distances:
35 6 0.06
36 4 0.04
37 54 0.54
41 1 0.01
42 1 0.01
43 1 0.01
44 1 0.01
46 32 0.32
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (37 bp):
TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
Found at i:6395448 original size:46 final size:46
Alignment explanation
Indices: 6395381--6395603 Score: 284
Period size: 52 Copynumber: 4.6 Consensus size: 46
6395371 TAAGTGTAGC
* **
6395381 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
6395427 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
6395473 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
6395525 CACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
6395577 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
6395604 AGTACTCAAA
Statistics
Matches: 164, Mismatches: 6, Indels: 14
0.89 0.03 0.08
Matches are distributed among these distances:
46 69 0.42
49 1 0.01
50 1 0.01
51 3 0.02
52 90 0.55
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:6395500 original size:52 final size:52
Alignment explanation
Indices: 6395424--6395597 Score: 285
Period size: 52 Copynumber: 3.3 Consensus size: 52
6395414 TAGCTAAAGC
* * *
6395424 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
6395477 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
* *
6395529 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
6395581 TATCACTTTGTCACTTG
1 TATCACTTT-TCACTTG
6395598 ATCAGAAGTA
Statistics
Matches: 114, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
52 96 0.84
53 18 0.16
ACGTcount: A:0.26, C:0.23, G:0.14, T:0.36
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
Found at i:6400460 original size:37 final size:37
Alignment explanation
Indices: 6400419--6400647 Score: 298
Period size: 37 Copynumber: 6.0 Consensus size: 37
6400409 TAGTTTTAGC
6400419 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
1 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
6400456 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
1 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
*
6400493 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGC
1 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
***
6400530 TACACTTATCTGATCAAG-TGTAAAGTGATAAGTGGTAGCCT
1 TACACTTATCTGATCAAGAAACAAAGTGATAAGT-G--G--T
*
6400571 AGCTACACTTATCTGATCAAGAAACAAAGTGATAAGTGGC
1 ---TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
****
6400611 TACACTTATCTGATCAAGTGGTAAAGTGATAAGTGGT
1 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
6400648 AGCCTAGCTA
Statistics
Matches: 169, Mismatches: 14, Indels: 18
0.84 0.07 0.09
Matches are distributed among these distances:
36 12 0.07
37 124 0.73
39 1 0.01
42 1 0.01
44 19 0.11
45 12 0.07
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.28
Consensus pattern (37 bp):
TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
Found at i:6400681 original size:118 final size:118
Alignment explanation
Indices: 6400381--6400686 Score: 344
Period size: 118 Copynumber: 2.6 Consensus size: 118
6400371 TTTGAGTACT
** *
6400381 TCTGATCAAGTGACAAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAAGAAACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG-CCTAGCTACACTTATCTGATCAAGAGAC-AAGT
* * *
6400446 GATAAGTGGTTACACTTATCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
64 GATAAGTAGCTACACTTATCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
** *
6400501 TCTGATCAAGAAACAAAGTGATAA---GT-G----GCTACACTTATCTGATCAAGTGTA-AAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGATCAAGAG-ACAAGTG
6400557 ATAAGTGGTAGCCTAGCTACACTTATCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
65 AT-A-----AG--TAGCTACACTTATCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
**
6400619 TCTGATCAAGTGGTAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGATCAAG-GACAAGTGA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGATCAAGAGACAAGTGA
6400683 TAAG
66 TAAG
6400687 AGGTCATATG
Statistics
Matches: 157, Mismatches: 11, Indels: 37
0.77 0.05 0.18
Matches are distributed among these distances:
110 7 0.04
111 21 0.13
112 1 0.01
116 3 0.02
117 2 0.01
118 66 0.42
119 2 0.01
120 22 0.14
121 2 0.01
122 1 0.01
124 2 0.01
125 8 0.05
126 20 0.13
ACGTcount: A:0.37, C:0.15, G:0.21, T:0.27
Consensus pattern (118 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGATCAAGAGACAAGTGA
TAAGTAGCTACACTTATCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
Found at i:6408197 original size:37 final size:37
Alignment explanation
Indices: 6408156--6408385 Score: 298
Period size: 37 Copynumber: 6.0 Consensus size: 37
6408146 TAGTTTTAGC
6408156 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
1 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
6408193 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
1 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
*
6408230 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGC
1 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
****
6408267 TACACTTATCTGATCAAGTGGTAAAGTGATAAGTGGTAGCCT
1 TACACTTATCTGATCAAGAAACAAAGTGATAAGT-G--G--T
*
6408309 AGCTACACTTATCTGATCAAGAAACAAAGTGATAAGTGGC
1 ---TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
****
6408349 TACACTTATCTGATCAAGTGGTAAAGTGATAAGTGGT
1 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
6408386 AGCCTAGCTA
Statistics
Matches: 169, Mismatches: 16, Indels: 16
0.84 0.08 0.08
Matches are distributed among these distances:
37 135 0.80
38 1 0.01
40 1 0.01
42 1 0.01
44 1 0.01
45 30 0.18
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.27
Consensus pattern (37 bp):
TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
Found at i:6408277 original size:74 final size:75
Alignment explanation
Indices: 6408156--6408386 Score: 347
Period size: 82 Copynumber: 3.0 Consensus size: 75
6408146 TAGTTTTAGC
* ****
6408156 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTATCTGATCAAGAAACAAAGTG
1 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTATCTGATCAAGTGGTAAAGTG
6408221 ATAAGTGGT-
66 ATAAGTGGTA
6408230 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTATCTGATCAAGTGGTAAAGTG
1 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTATCTGATCAAGTGGTAAAGTG
6408295 ATAAGTGGTAGCCTA
66 ATAAGT-G--G--TA
6408310 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTATCTGATCAAGTGGTAAAG
1 --TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTATCTGATCAAGTGGTAAAG
6408375 TGATAAGTGGTA
64 TGATAAGTGGTA
6408387 GCCTAGCTAC
Statistics
Matches: 144, Mismatches: 5, Indels: 13
0.89 0.03 0.08
Matches are distributed among these distances:
74 66 0.46
75 1 0.01
77 3 0.02
79 2 0.01
81 1 0.01
82 71 0.49
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.27
Consensus pattern (75 bp):
TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTATCTGATCAAGTGGTAAAGTG
ATAAGTGGTA
Found at i:6408316 original size:45 final size:45
Alignment explanation
Indices: 6408265--6408411 Score: 202
Period size: 45 Copynumber: 3.4 Consensus size: 45
6408255 GTGATAAGTG
6408265 GCTACACTTATCTGATCAAGTGGTAAAGTGATAAGTGGTAGCCTA
1 GCTACACTTATCTGATCAAGTGGTAAAGTGATAAGTGGTAGCCTA
****
6408310 GCTACACTTATCTGATCAAGAAACAAAGTGATAA---GT-G----
1 GCTACACTTATCTGATCAAGTGGTAAAGTGATAAGTGGTAGCCTA
6408347 GCTACACTTATCTGATCAAGTGGTAAAGTGATAAGTGGTAGCCTA
1 GCTACACTTATCTGATCAAGTGGTAAAGTGATAAGTGGTAGCCTA
6408392 GCTACACTTATCTGATCAAG
1 GCTACACTTATCTGATCAAG
6408412 GACAAGTGAT
Statistics
Matches: 86, Mismatches: 8, Indels: 16
0.78 0.07 0.15
Matches are distributed among these distances:
37 30 0.35
40 2 0.02
41 2 0.02
42 2 0.02
45 50 0.58
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (45 bp):
GCTACACTTATCTGATCAAGTGGTAAAGTGATAAGTGGTAGCCTA
Found at i:6408331 original size:82 final size:82
Alignment explanation
Indices: 6408230--6408424 Score: 367
Period size: 82 Copynumber: 2.4 Consensus size: 82
6408220 GATAAGTGGT
6408230 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTATCTGATCAAGTGGTAAAGTG
1 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTATCTGATCAAGTGGTAAAGTG
6408295 ATAAGTGGTAGCCTAGC
66 ATAAGTGGTAGCCTAGC
6408312 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTATCTGATCAAGTGGTAAAGTG
1 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTATCTGATCAAGTGGTAAAGTG
6408377 ATAAGTGGTAGCCTAGC
66 ATAAGTGGTAGCCTAGC
*
6408394 TACACTTATCTGATCAAG-GAC-AAGTGATAAG
1 TACACTTATCTGATCAAGAAACAAAGTGATAAG
6408425 AGGTCATATG
Statistics
Matches: 112, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
80 10 0.09
81 2 0.02
82 100 0.89
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.27
Consensus pattern (82 bp):
TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTATCTGATCAAGTGGTAAAGTG
ATAAGTGGTAGCCTAGC
Found at i:6415984 original size:19 final size:19
Alignment explanation
Indices: 6415939--6415983 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 19
6415929 AAAAAAATTC
6415939 TTAAAAATATTAGAAATGA
1 TTAAAAATATTAGAAATGA
6415958 TTAAAAATATT-GAAATTGA
1 TTAAAAATATTAGAAA-TGA
6415977 TATAAAA
1 T-TAAAA
6415984 TTATAAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.17
19 15 0.62
20 5 0.21
ACGTcount: A:0.58, C:0.00, G:0.09, T:0.33
Consensus pattern (19 bp):
TTAAAAATATTAGAAATGA
Found at i:6416002 original size:19 final size:20
Alignment explanation
Indices: 6415970--6416016 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
6415960 AAAAATATTG
* *
6415970 AAATTGATATAAAATTATAA
1 AAATTGATAAAAAATCATAA
6415990 AAATT-ATAAAAAATCATAA
1 AAATTGATAAAAAATCATAA
6416009 AAACTTGA
1 AAA-TTGA
6416017 ATTGGACCGG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 7 0.30
21 1 0.04
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.30
Consensus pattern (20 bp):
AAATTGATAAAAAATCATAA
Found at i:6416003 original size:10 final size:10
Alignment explanation
Indices: 6415970--6416011 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
6415960 AAAAATATTG
*
6415970 AAATTGATATA
1 AAATT-ATAAA
6415981 AAATTAT-AA
1 AAATTATAAA
6415990 AAATTATAAA
1 AAATTATAAA
*
6416000 AAATCATAAA
1 AAATTATAAA
6416010 AA
1 AA
6416012 CTTGAATTGG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
9 8 0.29
10 15 0.54
11 5 0.18
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (10 bp):
AAATTATAAA
Found at i:6416566 original size:39 final size:40
Alignment explanation
Indices: 6416532--6416612 Score: 109
Period size: 39 Copynumber: 2.1 Consensus size: 40
6416522 AGTTTTTATG
6416532 ATTTTATAAAATTTTA-AATATT-TTAGATATGTTTTATCA
1 ATTTTATAAAATTTTATAAT-TTATTAGATATGTTTTATCA
*
6416571 ATTTTATATAATTTTATAATTTATTAGAT-T-TTTTAT-A
1 ATTTTATAAAATTTTATAATTTATTAGATATGTTTTATCA
6416608 ATTTT
1 ATTTT
6416613 TATGAATTTA
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
37 6 0.15
38 6 0.15
39 18 0.46
40 9 0.23
ACGTcount: A:0.36, C:0.01, G:0.04, T:0.59
Consensus pattern (40 bp):
ATTTTATAAAATTTTATAATTTATTAGATATGTTTTATCA
Found at i:6416614 original size:47 final size:47
Alignment explanation
Indices: 6416563--6416661 Score: 114
Period size: 47 Copynumber: 2.1 Consensus size: 47
6416553 TTTAGATATG
*
6416563 TTTTATCAATTT-TATATAATTTTATAATTTAT-TA-GATTTTTTATAAT
1 TTTTATCAATTTATAT-TAATTTAAT-ATTTATGTATGA-TTTTTATAAT
* * *
6416610 TTTTATGAATTTATATTAATTTAATATTTTTGTATGATTTTTCTAAT
1 TTTTATCAATTTATATTAATTTAATATTTATGTATGATTTTTATAAT
6416657 TTTTA
1 TTTTA
6416662 AATATTTTTA
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
46 5 0.11
47 35 0.78
48 5 0.11
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.63
Consensus pattern (47 bp):
TTTTATCAATTTATATTAATTTAATATTTATGTATGATTTTTATAAT
Found at i:6416620 original size:10 final size:10
Alignment explanation
Indices: 6416515--6416631 Score: 56
Period size: 10 Copynumber: 12.2 Consensus size: 10
6416505 TTTCAATAAA
*
6416515 TTTTATGAGT
1 TTTTATGAAT
6416525 TTTTATG-A-
1 TTTTATGAAT
* *
6416533 TTTTATAAAA
1 TTTTATGAAT
6416543 TTTTA--AAT
1 TTTTATGAAT
6416551 ATTTTA-GATAT
1 -TTTTATGA-AT
*
6416562 GTTTTATCAAT
1 -TTTTATGAAT
6416573 TTTATAT-AA-
1 TTT-TATGAAT
6416582 TTTTAT-AAT
1 TTTTATGAAT
*
6416591 TTATTA-GATT
1 TT-TTATGAAT
6416601 TTTTAT-AAT
1 TTTTATGAAT
6416610 TTTTATGAAT
1 TTTTATGAAT
* *
6416620 TTATATTAAT
1 TTTTATGAAT
6416630 TT
1 TT
6416632 AATATTTTTG
Statistics
Matches: 86, Mismatches: 9, Indels: 24
0.72 0.08 0.20
Matches are distributed among these distances:
8 13 0.15
9 22 0.26
10 38 0.44
11 12 0.14
12 1 0.01
ACGTcount: A:0.33, C:0.01, G:0.06, T:0.60
Consensus pattern (10 bp):
TTTTATGAAT
Found at i:6423928 original size:24 final size:24
Alignment explanation
Indices: 6423875--6423922 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
6423865 GATAGATTAA
6423875 AAATTTTATTACAAATAGACACAT
1 AAATTTTATTACAAATAGACACAT
*
6423899 AAATTTTATTATAAATAGACACAT
1 AAATTTTATTACAAATAGACACAT
6423923 GTATTTATCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.50, C:0.10, G:0.04, T:0.35
Consensus pattern (24 bp):
AAATTTTATTACAAATAGACACAT
Found at i:6426596 original size:94 final size:94
Alignment explanation
Indices: 6426435--6426611 Score: 268
Period size: 94 Copynumber: 1.9 Consensus size: 94
6426425 CTTGGGGTAA
* *
6426435 TTGGCTGCTCATATCAAGATAAGTACTTTGTCACTTATGTCTTGTTGATGGTTAATACTTATTAA
1 TTGGCTGCTCATATCAAGATAAGTACTTGGTCACTTATGTCTTGTTGATGGTTAATACTTAATAA
*
6426500 GGTACTTAGTTGCTTAAGGGAATTTGTGG
66 GGTACTTAGTTACTTAAGGGAATTTGTGG
* *
6426529 TTGGCTGCTCATATCAAGATATA-TACTTGGTTACTTTTGTCGTT-TTGATGGTTAATACTTAAT
1 TTGGCTGCTCATATCAAGATA-AGTACTTGGTCACTTATGTC-TTGTTGATGGTTAATACTTAAT
*
6426592 AAGGTACTTTGTTACTTAAG
64 AAGGTACTTAGTTACTTAAG
6426612 AGACTTTATG
Statistics
Matches: 75, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
94 72 0.96
95 3 0.04
ACGTcount: A:0.25, C:0.12, G:0.20, T:0.43
Consensus pattern (94 bp):
TTGGCTGCTCATATCAAGATAAGTACTTGGTCACTTATGTCTTGTTGATGGTTAATACTTAATAA
GGTACTTAGTTACTTAAGGGAATTTGTGG
Found at i:6426726 original size:221 final size:219
Alignment explanation
Indices: 6426328--6426749 Score: 525
Period size: 221 Copynumber: 1.9 Consensus size: 219
6426318 ACATACATAT
*
6426328 ATATATACTTGGTTACTTATTTTCTTTGATGGTTAATACTTAAGAAGGTACGTAGTTAACTGATA
1 ATATATACTTGGTTACTTATTGTCTTTGATGGTTAATACTTAAGAAGGTACGTAGTTAACTGATA
** * * *
6426393 GAAATGTTTGGGTGGTAAAATTGAATCTATTTCTTGGGGTAATTGGCTGCTCATATCAAGATAAG
66 GAAATGTTTGGGTGGTAAAATTGAATAAATTTCGTGAGGTAATTGGCTGCTCATATCAAGATAAA
* * * **
6426458 TACTTTGTCACTTATGTCTTGTTGATGGTTAATACTTATTAAGGTACTTAGTTGCTTAAGGGAAT
131 TACTTGGTCACTTATGTCGTGTTGATGGTTAATACTTATTAAGGTACTTAGTTACTTAAGAAAAT
6426523 TTGTGGTTGGCTGCTCATATCAAG
196 TTGTGGTTGGCTGCTCATATCAAG
* * * *
6426547 ATATATACTTGGTTACTT-TTGTCGTTTTGATGGTTAATACTTAATAAGGTACTTTGTT-ACTTA
1 ATATATACTTGGTTACTTATTGTC--TTTGATGGTTAATACTTAAGAAGGTACGTAGTTAACTGA
* * *
6426610 -AGAGACT-TTATGGGTGGTAGAATTGAATAAATTT-GT-AGGTAATTTGCTGCTCATATCAAGA
64 TAGA-AATGTT-TGGGTGGTAAAATTGAATAAATTTCGTGAGGTAATTGGCTGCTCATATCAAG-
* * *
6426671 TATATATATACTTGGTTACTT-TTTGCGTGTTGATGGTTAATACTTTTTAAGGTACTTAGTTACT
126 -ATA-A-ATACTTGGTCACTTATGT-CGTGTTGATGGTTAATACTTATTAAGGTACTTAGTTACT
6426735 TAAGAAAATTTGTGG
187 TAAGAAAATTTGTGG
6426750 GTGGAATTGG
Statistics
Matches: 173, Mismatches: 21, Indels: 16
0.82 0.10 0.08
Matches are distributed among these distances:
217 22 0.13
218 10 0.06
219 48 0.28
220 33 0.19
221 60 0.35
ACGTcount: A:0.27, C:0.09, G:0.21, T:0.42
Consensus pattern (219 bp):
ATATATACTTGGTTACTTATTGTCTTTGATGGTTAATACTTAAGAAGGTACGTAGTTAACTGATA
GAAATGTTTGGGTGGTAAAATTGAATAAATTTCGTGAGGTAATTGGCTGCTCATATCAAGATAAA
TACTTGGTCACTTATGTCGTGTTGATGGTTAATACTTATTAAGGTACTTAGTTACTTAAGAAAAT
TTGTGGTTGGCTGCTCATATCAAG
Found at i:6426778 original size:104 final size:101
Alignment explanation
Indices: 6426638--6426956 Score: 325
Period size: 95 Copynumber: 3.1 Consensus size: 101
6426628 AGAATTGAAT
* * * *
6426638 AAATTTGTAGGT--AATTTGCTGCTCATATCAAGATATATATATACTTGGTTACTT-TTTGCGTG
1 AAATTTGTGGGTGGAATTGGCTGCTCATATCAA-ATATATATATA-TTGGTTACTTATGT-CCTG
**
6426700 TTGATGGTTAATACTTTTTAAGGTACTTAGTTACTTAAGA
63 TTGATGGTTAATACTTCATAAGGTACTTAGTTACTT-AGA
* *
6426740 AAATTTGTGGGTGGAATTGGCTGCTCATACCAATATATATATGTATATGTTTTGTTACTTATGTC
1 AAATTTGTGGGTGGAATTGGCTGCTCATATCAA-ATATATA--TATA---TTGGTTACTTATGTC
*
6426805 TTGTTGATGGTTAATACTTCATAAGGTACTTAGTTACTT-G-
60 CTGTTGATGGTTAATACTTCATAAGGTACTTAGTTACTTAGA
* * *
6426845 -AATTTGTGGGTGG--TTGGCTGCTAATATC-AAGATATATAT-TTGGTTTACTTATGTCCTTTT
1 AAATTTGTGGGTGGAATTGGCTGCTCATATCAAATATATATATATTGG-TTACTTATGTCCTGTT
*
6426905 GATGGTTAATACTTCATAAGGTAATTAGTTACTTCAGA
65 GATGGTTAATACTTCATAAGGTACTTAGTTACTT-AGA
* *
6426943 TAATTTTTGGGTGG
1 AAATTTGTGGGTGG
6426957 TAGAAGTGAA
Statistics
Matches: 187, Mismatches: 18, Indels: 27
0.81 0.08 0.12
Matches are distributed among these distances:
94 3 0.02
95 47 0.25
97 1 0.01
98 3 0.02
99 12 0.06
100 6 0.03
101 1 0.01
102 24 0.13
104 37 0.20
106 5 0.03
108 46 0.25
109 2 0.01
ACGTcount: A:0.26, C:0.10, G:0.20, T:0.44
Consensus pattern (101 bp):
AAATTTGTGGGTGGAATTGGCTGCTCATATCAAATATATATATATTGGTTACTTATGTCCTGTTG
ATGGTTAATACTTCATAAGGTACTTAGTTACTTAGA
Found at i:6427108 original size:329 final size:323
Alignment explanation
Indices: 6426461--6427088 Score: 807
Period size: 329 Copynumber: 1.9 Consensus size: 323
6426451 AGATAAGTAC
*
6426461 TTTGTCACTTATGTCTTGTTGATGGTTAATACTTATTAAGGTACTTAGTTGCTTAAGGGAATTTG
1 TTTGTCACTTATGTCTTGTTGATGGTTAATACTTATTAAGGTACTTAGTTACTT-A--GAATTTG
* * *
6426526 TGGTTGGCTGCTCATATCAAGATATATACTTGGTTACTTTTGTCGTTTTGATGGTTAATACTTAA
63 TGGTTGGCTGCTAATATCAAGATATATACTTGGTTACTTATGTCCTTTTGATGGTTAATACTTAA
* * * * **
6426591 TAAGGTACTTTGTTACTTAAGAGACTTTATGGGTGGTAGAATTGAATAAATTTGTAGGTAATTTG
128 TAAGGTAATTAGTTACTTAAGAGAATTTATGGGTGGTAGAAGTGAATAAATTTGTAGGTAATCGG
* * * **
6426656 CTGCTCATATCAAGATATATATATACTTGGTTACTTTTTGCGTGTTGATGGTTAATACTTTTTAA
193 CTGCTCATATCAAG--A-ATATACACTTGGTTACTTTGTGCGTATTGATGGTTAATACTTAATAA
** * **
6426721 GGTACTTAGTTACTTAAGAAAATTTGTGGGTGGAATTGGCTGCTCATACCAATATATATATGTAT
255 GGTACTTAGTTACTTAAGAAAATGCGGGGGTGGAATTGAATGCTCATACCAATATATATATGTAT
6426786 ATGT
320 ATGT
*
6426790 TTTGTTACTTATGTCTTGTTGATGGTTAATACTTCA-TAAGGTACTTAGTTACTT-GAATTTGTG
1 TTTGTCACTTATGTCTTGTTGATGGTTAATACTT-ATTAAGGTACTTAGTTACTTAGAA-TT-T-
*
6426853 GGTGGTTGGCTGCTAATATCAAGATATATATTTGGTTTACTTATGTCCTTTTGATGGTTAATACT
62 -GTGGTTGGCTGCTAATATCAAGATATATACTTGG-TTACTTATGTCCTTTTGATGGTTAATACT
* * * * *
6426918 TCATAAGGTAATTAGTTACTTCAGATAATTTTTGGGTGGTAGAAGTGAAT-AATTTGTGGGTAAT
125 TAATAAGGTAATTAGTTACTTAAGAGAATTTATGGGTGGTAGAAGTGAATAAATTTGTAGGTAAT
* * *
6426982 CGGCTGTTCATATCAAG-ATATGCACTTGGTTACTTATGT-CTTATTGATGGTTAATACTTAATA
190 CGGCTGCTCATATCAAGAATATACACTTGGTTACTT-TGTGCGTATTGATGGTTAATACTTAATA
* *
6427045 AGGTACTTAGTTACTTGAGAGAATGCGGGTGGTGGAATTGAATG
254 AGGTACTTAGTTACTTAAGAAAATGCGGG-GGTGGAATTGAATG
6427089 ACTTGTATCG
Statistics
Matches: 259, Mismatches: 32, Indels: 19
0.84 0.10 0.06
Matches are distributed among these distances:
325 63 0.24
326 16 0.06
327 1 0.00
329 109 0.42
330 70 0.27
ACGTcount: A:0.26, C:0.10, G:0.22, T:0.42
Consensus pattern (323 bp):
TTTGTCACTTATGTCTTGTTGATGGTTAATACTTATTAAGGTACTTAGTTACTTAGAATTTGTGG
TTGGCTGCTAATATCAAGATATATACTTGGTTACTTATGTCCTTTTGATGGTTAATACTTAATAA
GGTAATTAGTTACTTAAGAGAATTTATGGGTGGTAGAAGTGAATAAATTTGTAGGTAATCGGCTG
CTCATATCAAGAATATACACTTGGTTACTTTGTGCGTATTGATGGTTAATACTTAATAAGGTACT
TAGTTACTTAAGAAAATGCGGGGGTGGAATTGAATGCTCATACCAATATATATATGTATATGT
Found at i:6427168 original size:217 final size:216
Alignment explanation
Indices: 6426793--6427306 Score: 532
Period size: 217 Copynumber: 2.4 Consensus size: 216
6426783 TATATGTTTT
* * ** *
6426793 GTTACTTATGTCTTGTTGATGGTTAATACTTCATAAGGTACTTAGTTACTT--GAATTTGTG-GG
1 GTTACTTATGTCTTATTGATGGTTAATACTTAATAAGGTACTTAGTTACTTAGGAATGCGGGTGG
** *
6426855 TGG--TTGGCTGCTAATATCAAGATATATATTTGGTTTACTTATGTCCTTTTGATGGTTAATACT
66 TGGAATTGAATGCTAATATCAAGATATATATTTCGTTTACTTATGTCCTTTTGATGGTTAATA--
* * * *
6426918 TCATAAGGTAATTAGTTACTTCAGATAATTTTTGGGTGGTAGAAGT-GAAT-AATTTGTGGGTAA
129 -CAT-A-GCAATTAATTACTTAAGATAATTTTTGGGTGGTAGAA-TCGAATAAATTTCT-GGT--
* *
6426981 TCGGCTGTTCATATC-A-AGATATGCACTTG
187 TC-GCTGCTCACATCAACAGATATGCACTTG
6427010 GTTACTTATGTCTTATTGATGGTTAATACTTAATAAGGTACTTAGTTACTTGAGAGAATGCGGGT
1 GTTACTTATGTCTTATTGATGGTTAATACTTAATAAGGTACTTAGTTACTT-AG-GAATGCGGGT
** * **
6427075 GGTGGAATTGAATGACTTGTATCGAGATATATATTTCG-TTACTTATGTTGTTTTGATGGTTAAT
64 GGTGGAATTGAATG-CTAATATCAAGATATATATTTCGTTTACTTATGTCCTTTTGATGGTTAAT
* *
6427139 A-AT-GCATTTAATTACTTAAGATAATTTTTGGGTGGTAGAATCGAATAAAATTTCTGGTTCGTT
128 ACATAGCAATTAATTACTTAAGATAATTTTTGGGTGGTAGAATCGAAT-AAATTTCTGGTTCGCT
* *
6427202 GCTCACATCAACATATATGTACTTG
192 GCTCACATCAACAGATATGCACTTG
* **
6427227 GTTGCTTATGT-TGCTTCGATGGTTAATACTTAATAAGGTACTTAGTTACTTAAGGAAATTTGCG
1 GTTACTTATGTCTTATT-GATGGTTAATACTTAATAAGGTACTTAGTTACTT-AGG-AA--TGCG
6427291 GGTGGTGGAATTGAAT
61 GGTGGTGGAATTGAAT
6427307 AAGTTTTTCA
Statistics
Matches: 253, Mismatches: 27, Indels: 32
0.81 0.09 0.10
Matches are distributed among these distances:
215 9 0.04
216 8 0.03
217 145 0.57
218 3 0.01
219 26 0.10
220 2 0.01
221 6 0.02
222 5 0.02
224 30 0.12
225 19 0.08
ACGTcount: A:0.27, C:0.10, G:0.22, T:0.41
Consensus pattern (216 bp):
GTTACTTATGTCTTATTGATGGTTAATACTTAATAAGGTACTTAGTTACTTAGGAATGCGGGTGG
TGGAATTGAATGCTAATATCAAGATATATATTTCGTTTACTTATGTCCTTTTGATGGTTAATACA
TAGCAATTAATTACTTAAGATAATTTTTGGGTGGTAGAATCGAATAAATTTCTGGTTCGCTGCTC
ACATCAACAGATATGCACTTG
Found at i:6430325 original size:35 final size:35
Alignment explanation
Indices: 6430282--6430349 Score: 136
Period size: 35 Copynumber: 1.9 Consensus size: 35
6430272 AAGAATGTAT
6430282 TTAGAGAATTAATCATTAAGGATGGTCTCCCAGTA
1 TTAGAGAATTAATCATTAAGGATGGTCTCCCAGTA
6430317 TTAGAGAATTAATCATTAAGGATGGTCTCCCAG
1 TTAGAGAATTAATCATTAAGGATGGTCTCCCAG
6430350 GTCCCACCAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.31
Consensus pattern (35 bp):
TTAGAGAATTAATCATTAAGGATGGTCTCCCAGTA
Found at i:6432282 original size:7 final size:7
Alignment explanation
Indices: 6432270--6432305 Score: 72
Period size: 7 Copynumber: 5.1 Consensus size: 7
6432260 TTGGAGACCC
6432270 TCCCTAG
1 TCCCTAG
6432277 TCCCTAG
1 TCCCTAG
6432284 TCCCTAG
1 TCCCTAG
6432291 TCCCTAG
1 TCCCTAG
6432298 TCCCTAG
1 TCCCTAG
6432305 T
1 T
6432306 ATTGTCCTAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.14, C:0.42, G:0.14, T:0.31
Consensus pattern (7 bp):
TCCCTAG
Found at i:6433368 original size:11 final size:11
Alignment explanation
Indices: 6433352--6433430 Score: 53
Period size: 11 Copynumber: 7.5 Consensus size: 11
6433342 CTTAACAACA
6433352 TCTCAATTTCC
1 TCTCAATTTCC
6433363 TCTCAATTTCC
1 TCTCAATTTCC
6433374 T-TCCAAATTT-C
1 TCT-C-AATTTCC
*
6433385 TCTCAA-ATCC
1 TCTCAATTTCC
* **
6433395 -AT--ATTTAA
1 TCTCAATTTCC
*
6433403 TCTCAATTTGC
1 TCTCAATTTCC
6433414 TCTCAATTTCC
1 TCTCAATTTCC
6433425 TCTCAA
1 TCTCAA
6433431 ACTTCTCTTA
Statistics
Matches: 51, Mismatches: 9, Indels: 16
0.67 0.12 0.21
Matches are distributed among these distances:
7 1 0.02
8 1 0.02
9 3 0.06
10 4 0.08
11 36 0.71
12 6 0.12
ACGTcount: A:0.25, C:0.30, G:0.01, T:0.43
Consensus pattern (11 bp):
TCTCAATTTCC
Found at i:6433409 original size:51 final size:51
Alignment explanation
Indices: 6433351--6433451 Score: 150
Period size: 51 Copynumber: 2.0 Consensus size: 51
6433341 TCTTAACAAC
*
6433351 ATCTCAATTTCCTCTCAATTTCCT-TCCAAATTTCTCTCAAATCCATATTTA
1 ATCTCAATTTCCTCTCAATTTCCTCT-CAAACTTCTCTCAAATCCATATTTA
* * *
6433402 ATCTCAATTTGCTCTCAATTTCCTCTCAAACTTCTCTTAAATCCCTATTT
1 ATCTCAATTTCCTCTCAATTTCCTCTCAAACTTCTCTCAAATCCATATTT
6433452 TTTAATTATT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
51 44 0.98
52 1 0.02
ACGTcount: A:0.26, C:0.30, G:0.01, T:0.44
Consensus pattern (51 bp):
ATCTCAATTTCCTCTCAATTTCCTCTCAAACTTCTCTCAAATCCATATTTA
Found at i:6435088 original size:6 final size:6
Alignment explanation
Indices: 6435072--6435102 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
6435062 TTATGTGTCT
6435072 CCCTAAA CCCTAA CCCTAA CCCTAA CCCTAA
1 CCCT-AA CCCTAA CCCTAA CCCTAA CCCTAA
6435103 TCTAATTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 20 0.83
7 4 0.17
ACGTcount: A:0.35, C:0.48, G:0.00, T:0.16
Consensus pattern (6 bp):
CCCTAA
Found at i:6435510 original size:210 final size:204
Alignment explanation
Indices: 6435078--6435671 Score: 809
Period size: 205 Copynumber: 2.8 Consensus size: 204
6435068 GTCTCCCTAA
*
6435078 ACCCT-AACCCTAACCCTAACCCTAATCTAATTTTTAAAATTTTTTTAATTAAATTACTCAAGTA
1 ACCCTAAACCCTAACCCTAACCCTAATCTAATTTTTTAAATTTTTTTAATTAAATTACTCAAGTA
* * * *
6435142 ATCCTAAACCCTAATTTAATTGATTTTTTCTTAAAAATTAATAAACACGAAAACTAATCCAATTT
66 ACCCTAAACCCTAATTTAATTGA-TTTTTCTTAAAAAATAATAAACACAAAAACTAATCCAATTA
* *
6435207 TGACAAATTTATAAATATTTTAATTGACAAACCCTAAATTCTAAACCCTAATTTATTTAATTTTT
130 TGAAAAATTTATAAATAATTTAA-T---------T-AA--C-AAACCCTAATTTATTTAATTTTT
6435272 CCTTAAAAATCTTAACTTAAAAAC
181 CCTTAAAAATCTTAACTTAAAAAC
* *
6435296 ACCCTAAACCCTAAACCTAACCTTAACCCTGATCTAA-TTTTTAAATTTTTTTAATTAAATTATT
1 ACCCTAAACCCT-AA-C---CC-TAACCCTAATCTAATTTTTTAAATTTTTTTAATTAAATTACT
*
6435360 CAAGTAACCCTAAACCCTAATTTAATTGATTTTT-TTAAAAAATTAATAAACACGAAAACTAATC
60 CAAGTAACCCTAAACCCTAATTTAATTGATTTTTCTTAAAAAA-TAATAAACACAAAAACTAATC
* * *
6435424 CAATTTTGAAAAATTTATAAATAATTTAATTGAA-AAACCCTAATTTATTTGATTTTTTCTTAAA
124 CAATTATGAAAAATTTATAAATAATTTAATT-AACAAACCCTAATTTATTTAATTTTTCCTTAAA
6435488 AATCCTTAACTTAAAAAC
188 AAT-CTTAACTTAAAAAC
6435506 ACCCTAAACCCTAACCCTAACCCTAATCTAATTTTTTAAATTTTTTTAATTAAATTACTCAAGTA
1 ACCCTAAACCCTAACCCTAACCCTAATCTAATTTTTTAAATTTTTTTAATTAAATTACTCAAGTA
*
6435571 ACCCTAAACTCTAATTTAATTGATTTTTCTTAAAAAATAATAAACACAAAAACTAATCCAATTAT
66 ACCCTAAACCCTAATTTAATTGATTTTTCTTAAAAAATAATAAACACAAAAACTAATCCAATTAT
*
6435636 GACAAATTTATAAATAATTTAATTAACAAACCCTAA
131 GAAAAATTTATAAATAATTTAATTAACAAACCCTAA
6435672 ACTAGAGGTG
Statistics
Matches: 348, Mismatches: 16, Indels: 37
0.87 0.04 0.09
Matches are distributed among these distances:
204 15 0.04
205 119 0.34
206 8 0.02
208 1 0.00
209 33 0.09
210 26 0.07
213 3 0.01
218 5 0.01
219 6 0.02
220 2 0.01
221 1 0.00
222 8 0.02
223 53 0.15
224 55 0.16
225 13 0.04
ACGTcount: A:0.43, C:0.18, G:0.03, T:0.37
Consensus pattern (204 bp):
ACCCTAAACCCTAACCCTAACCCTAATCTAATTTTTTAAATTTTTTTAATTAAATTACTCAAGTA
ACCCTAAACCCTAATTTAATTGATTTTTCTTAAAAAATAATAAACACAAAAACTAATCCAATTAT
GAAAAATTTATAAATAATTTAATTAACAAACCCTAATTTATTTAATTTTTCCTTAAAAATCTTAA
CTTAAAAAC
Found at i:6435866 original size:24 final size:26
Alignment explanation
Indices: 6435839--6435901 Score: 78
Period size: 24 Copynumber: 2.5 Consensus size: 26
6435829 GAATATATAA
6435839 TAAATATTTTTTATTC-TTTA-ATTT
1 TAAATATTTTTTATTCTTTTATATTT
6435863 TAAA-ATATTTTTATTCTTTTTATATTT
1 TAAATAT-TTTTTATTC-TTTTATATTT
*
6435890 AAAATATTTTTT
1 TAAATATTTTTT
6435902 TCGTGTTTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
23 2 0.06
24 13 0.39
26 4 0.12
27 12 0.36
28 2 0.06
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (26 bp):
TAAATATTTTTTATTCTTTTATATTT
Found at i:6435872 original size:25 final size:27
Alignment explanation
Indices: 6435840--6435901 Score: 94
Period size: 25 Copynumber: 2.4 Consensus size: 27
6435830 AATATATAAT
6435840 AAATATTTTTTATTC-TTTAAT-TTTA
1 AAATATTTTTTATTCTTTTAATATTTA
*
6435865 AAATA-TTTTTATTCTTTTTATATTTA
1 AAATATTTTTTATTCTTTTAATATTTA
6435891 AAATATTTTTT
1 AAATATTTTTT
6435902 TCGTGTTTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
24 9 0.27
25 10 0.30
26 9 0.27
27 5 0.15
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (27 bp):
AAATATTTTTTATTCTTTTAATATTTA
Found at i:6435910 original size:26 final size:26
Alignment explanation
Indices: 6435840--6435911 Score: 87
Period size: 26 Copynumber: 2.8 Consensus size: 26
6435830 AATATATAAT
*
6435840 AAATATTTTTTATTCT-TTAAT-TTTA
1 AAATA-TTTTTATTCTGTTTATATTTA
*
6435865 AAATATTTTTATTCTTTTTATATTTA
1 AAATATTTTTATTCTGTTTATATTTA
6435891 AAATATTTTT-TTCGTGTTTAT
1 AAATATTTTTATTC-TGTTTAT
6435912 TAAATAATGG
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
24 10 0.24
25 12 0.29
26 20 0.48
ACGTcount: A:0.29, C:0.04, G:0.03, T:0.64
Consensus pattern (26 bp):
AAATATTTTTATTCTGTTTATATTTA
Found at i:6442099 original size:14 final size:14
Alignment explanation
Indices: 6442080--6442114 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
6442070 GACATTTTTT
*
6442080 TTCTAATGATACTA
1 TTCTAACGATACTA
*
6442094 TTCTAACGATATTA
1 TTCTAACGATACTA
6442108 TTCTAAC
1 TTCTAAC
6442115 ATGTAATTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.34, C:0.17, G:0.06, T:0.43
Consensus pattern (14 bp):
TTCTAACGATACTA
Found at i:6443315 original size:14 final size:14
Alignment explanation
Indices: 6443292--6443326 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
6443282 AAAACTTGGA
*
6443292 ATAAACTTTGTAAT
1 ATAAATTTTGTAAT
6443306 ATAAATTTTGTAAT
1 ATAAATTTTGTAAT
6443320 ATAAATT
1 ATAAATT
6443327 AAATACATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.46
Consensus pattern (14 bp):
ATAAATTTTGTAAT
Found at i:6443360 original size:62 final size:62
Alignment explanation
Indices: 6443269--6443436 Score: 309
Period size: 62 Copynumber: 2.7 Consensus size: 62
6443259 GCAACATACA
* *
6443269 ACATTACAACATTAAAACTTGGAATAAACTTTGTAATATAAATTTTGTAATATAAATTAAAT
1 ACATTACAACATTAAAACTTGGAACAAACTTTGTAATATAAATTTTATAATATAAATTAAAT
*
6443331 ACATTACAACATTAAAACTTAGAACAAACTTTGTAATATAAATTTTATAATATAAATTAAAT
1 ACATTACAACATTAAAACTTGGAACAAACTTTGTAATATAAATTTTATAATATAAATTAAAT
6443393 ACATTACAACATTAAAACTTGGAACAAACTTTGTAATATAAATT
1 ACATTACAACATTAAAACTTGGAACAAACTTTGTAATATAAATT
6443437 AGGTACATTG
Statistics
Matches: 102, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
62 102 1.00
ACGTcount: A:0.49, C:0.10, G:0.05, T:0.35
Consensus pattern (62 bp):
ACATTACAACATTAAAACTTGGAACAAACTTTGTAATATAAATTTTATAATATAAATTAAAT
Found at i:6446443 original size:18 final size:19
Alignment explanation
Indices: 6446408--6446443 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
6446398 ATTTTCCTTG
6446408 CTTCACAAGAGATTATAAA
1 CTTCACAAGAGATTATAAA
*
6446427 CTTCACAA-AGTTTATAA
1 CTTCACAAGAGATTATAA
6446444 CTAGATTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.44, C:0.17, G:0.08, T:0.31
Consensus pattern (19 bp):
CTTCACAAGAGATTATAAA
Found at i:6449416 original size:3 final size:3
Alignment explanation
Indices: 6449410--6449449 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
6449400 TATAAACACA
6449410 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
6449450 GTATAAACTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:6451624 original size:26 final size:26
Alignment explanation
Indices: 6451576--6451626 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
6451566 ATATAATTAT
6451576 TATTTTTATATGTAAAATATTTCAAA
1 TATTTTTATATGTAAAATATTTCAAA
6451602 TATTTTTATATGTAAAATATTTCAA
1 TATTTTTATATGTAAAATATTTCAA
6451627 TTAATTATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.51
Consensus pattern (26 bp):
TATTTTTATATGTAAAATATTTCAAA
Found at i:6452758 original size:8 final size:8
Alignment explanation
Indices: 6452747--6452771 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
6452737 ATATAAAAAT
6452747 ATTTTAAA
1 ATTTTAAA
6452755 ATTTTAAA
1 ATTTTAAA
6452763 ATTTTAAA
1 ATTTTAAA
6452771 A
1 A
6452772 ATTAATTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (8 bp):
ATTTTAAA
Found at i:6461726 original size:23 final size:21
Alignment explanation
Indices: 6461696--6461742 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 21
6461686 TCATCCGTCT
6461696 AAAAATTATAAAAAATGAAACAG
1 AAAAATTA-AAAAAATGAAA-AG
* *
6461719 AAAAATTAAATAAATGTAAAG
1 AAAAATTAAAAAAATGAAAAG
6461740 AAA
1 AAA
6461743 TCGAAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 5 0.23
22 9 0.41
23 8 0.36
ACGTcount: A:0.70, C:0.02, G:0.09, T:0.19
Consensus pattern (21 bp):
AAAAATTAAAAAAATGAAAAG
Found at i:6466141 original size:37 final size:37
Alignment explanation
Indices: 6466072--6466162 Score: 112
Period size: 37 Copynumber: 2.5 Consensus size: 37
6466062 ACACAAGTAG
6466072 TCCAACCAA-AACACGCCAAACACTCATAAGAGCTAA
1 TCCAACCAATAACACGCCAAACACTCATAAGAGCTAA
* * ** *
6466108 TCCAACCAATAACACTCCAAGCGGTCATGAGAGCTAA
1 TCCAACCAATAACACGCCAAACACTCATAAGAGCTAA
* *
6466145 TCCAACTAATAATACGCC
1 TCCAACCAATAACACGCC
6466163 TCGACACTAA
Statistics
Matches: 46, Mismatches: 8, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
36 9 0.20
37 37 0.80
ACGTcount: A:0.42, C:0.32, G:0.11, T:0.15
Consensus pattern (37 bp):
TCCAACCAATAACACGCCAAACACTCATAAGAGCTAA
Found at i:6474906 original size:4 final size:4
Alignment explanation
Indices: 6474897--6474923 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
6474887 TGTTGTTATT
6474897 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
6474924 CGATTTTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:6480396 original size:3 final size:3
Alignment explanation
Indices: 6480332--6480376 Score: 63
Period size: 3 Copynumber: 15.0 Consensus size: 3
6480322 CTATTACTCA
* * *
6480332 TAT TAT TAT TTT TAT TCT TAC TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
6480377 CATCATCATC
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:6480595 original size:12 final size:13
Alignment explanation
Indices: 6480578--6480606 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
6480568 GTTTTAATAT
6480578 TATTTG-TTTGTA
1 TATTTGTTTTGTA
6480590 TATTTGTTTTGTA
1 TATTTGTTTTGTA
6480603 TATT
1 TATT
6480607 ATGGATTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.38
13 10 0.62
ACGTcount: A:0.17, C:0.00, G:0.14, T:0.69
Consensus pattern (13 bp):
TATTTGTTTTGTA
Found at i:6484555 original size:26 final size:26
Alignment explanation
Indices: 6484517--6484598 Score: 92
Period size: 26 Copynumber: 3.2 Consensus size: 26
6484507 GTTAACACTT
* *
6484517 TGAAATGGCTATACGAAATGATTATA
1 TGAAATGGTTATACGAAATGGTTATA
* *
6484543 TGAATTGGTTATACGAAATGGTTATG
1 TGAAATGGTTATACGAAATGGTTATA
* * * *
6484569 TGAAATGATTAAAAGAATTGGTTATA
1 TGAAATGGTTATACGAAATGGTTATA
6484595 TGAA
1 TGAA
6484599 TAAGTTATAC
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 46 1.00
ACGTcount: A:0.40, C:0.04, G:0.22, T:0.34
Consensus pattern (26 bp):
TGAAATGGTTATACGAAATGGTTATA
Found at i:6484573 original size:13 final size:13
Alignment explanation
Indices: 6484517--6484598 Score: 74
Period size: 13 Copynumber: 6.3 Consensus size: 13
6484507 GTTAACACTT
*
6484517 TGAAATGGCTATA
1 TGAAATGGTTATA
* *
6484530 CGAAATGATTATA
1 TGAAATGGTTATA
*
6484543 TGAATTGGTTATA
1 TGAAATGGTTATA
* *
6484556 CGAAATGGTTATG
1 TGAAATGGTTATA
* *
6484569 TGAAATGATTAAA
1 TGAAATGGTTATA
* *
6484582 AGAATTGGTTATA
1 TGAAATGGTTATA
6484595 TGAA
1 TGAA
6484599 TAAGTTATAC
Statistics
Matches: 51, Mismatches: 18, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
13 51 1.00
ACGTcount: A:0.40, C:0.04, G:0.22, T:0.34
Consensus pattern (13 bp):
TGAAATGGTTATA
Found at i:6484653 original size:27 final size:25
Alignment explanation
Indices: 6484623--6484679 Score: 69
Period size: 27 Copynumber: 2.2 Consensus size: 25
6484613 ACAAATAAAC
*
6484623 GAAATACCTATATGAAGCGGTTATAT
1 GAAATAACTATATGAAG-GGTTATAT
* *
6484649 AGAAATAATTATATGAAGTGTTATAT
1 -GAAATAACTATATGAAGGGTTATAT
6484675 GAAAT
1 GAAAT
6484680 GTTTATATGG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 5 0.19
26 7 0.26
27 15 0.56
ACGTcount: A:0.44, C:0.05, G:0.18, T:0.33
Consensus pattern (25 bp):
GAAATAACTATATGAAGGGTTATAT
Found at i:6484685 original size:25 final size:27
Alignment explanation
Indices: 6484631--6484688 Score: 75
Period size: 25 Copynumber: 2.2 Consensus size: 27
6484621 ACGAAATACC
6484631 TATATGAAGCGGTTATATAGAAATAAT
1 TATATGAAGCGGTTATATAGAAATAAT
* **
6484658 TATATGAAG-TGTTATAT-GAAATGTT
1 TATATGAAGCGGTTATATAGAAATAAT
6484683 TATATG
1 TATATG
6484689 GATAGATATG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 12 0.43
26 7 0.25
27 9 0.32
ACGTcount: A:0.40, C:0.02, G:0.19, T:0.40
Consensus pattern (27 bp):
TATATGAAGCGGTTATATAGAAATAAT
Found at i:6487706 original size:13 final size:13
Alignment explanation
Indices: 6487690--6487745 Score: 85
Period size: 13 Copynumber: 4.3 Consensus size: 13
6487680 GAAGTGCTTG
6487690 AGAAGTACTTTTC
1 AGAAGTACTTTTC
6487703 AGAAGTACTTTTC
1 AGAAGTACTTTTC
* *
6487716 AGAAGTGCTTTTG
1 AGAAGTACTTTTC
*
6487729 AGAAGTACTTTTG
1 AGAAGTACTTTTC
6487742 AGAA
1 AGAA
6487746 ATTTGAGTGT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 40 1.00
ACGTcount: A:0.32, C:0.11, G:0.21, T:0.36
Consensus pattern (13 bp):
AGAAGTACTTTTC
Found at i:6487740 original size:39 final size:37
Alignment explanation
Indices: 6487673--6487745 Score: 110
Period size: 39 Copynumber: 1.9 Consensus size: 37
6487663 TTCTTCATTG
*
6487673 CTTTTGAGAAGTGCTTGAGAAGTACTTTTCAGAAGTA
1 CTTTTCAGAAGTGCTTGAGAAGTACTTTTCAGAAGTA
*
6487710 CTTTTCAGAAGTGCTTTTGAGAAGTACTTTTGAGAA
1 CTTTTCAGAAGTGC--TTGAGAAGTACTTTTCAGAA
6487746 ATTTGAGTGT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
37 13 0.41
39 19 0.59
ACGTcount: A:0.29, C:0.11, G:0.23, T:0.37
Consensus pattern (37 bp):
CTTTTCAGAAGTGCTTGAGAAGTACTTTTCAGAAGTA
Found at i:6487988 original size:29 final size:26
Alignment explanation
Indices: 6487914--6487989 Score: 73
Period size: 29 Copynumber: 2.7 Consensus size: 26
6487904 ACTTATTGTT
6487914 AATATTTTAATATATAATATTAATTTTA
1 AATATTTTAAT-TA-AATATTAATTTTA
*
6487942 AATATTTCTAAGTAAATATTAATTATTTA
1 AATATTT-TAATTAAATATTAA-T-TTTA
6487971 TAA-ATTTTAATTAGAATAT
1 -AATATTTTAATTA-AATAT
6487990 ATAAACTATA
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
27 8 0.20
28 15 0.37
29 16 0.39
30 2 0.05
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.50
Consensus pattern (26 bp):
AATATTTTAATTAAATATTAATTTTA
Found at i:6488356 original size:22 final size:21
Alignment explanation
Indices: 6488331--6488374 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 21
6488321 AAGCATATGA
*
6488331 AAATGATTTGGTTATATTCAAT
1 AAATGATTTGGTTA-ATACAAT
6488353 AAATGATTTGGTTAATACAAT
1 AAATGATTTGGTTAATACAAT
6488374 A
1 A
6488375 CTTATATTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.41, C:0.05, G:0.14, T:0.41
Consensus pattern (21 bp):
AAATGATTTGGTTAATACAAT
Found at i:6488383 original size:22 final size:22
Alignment explanation
Indices: 6488358--6488428 Score: 58
Period size: 22 Copynumber: 3.2 Consensus size: 22
6488348 TCAATAAATG
6488358 ATTTGGTTAATACAATACTTAT
1 ATTTGGTTAATACAATACTTAT
* * **
6488380 ATTT-GATAA-GCATATGA-AAAT
1 ATTTGGTTAATACA-AT-ACTTAT
6488401 GATTTGGTTAATACAATACTTAT
1 -ATTTGGTTAATACAATACTTAT
6488424 ATTTG
1 ATTTG
6488429 ATAAGCATAT
Statistics
Matches: 35, Mismatches: 8, Indels: 12
0.64 0.15 0.22
Matches are distributed among these distances:
20 2 0.06
21 8 0.23
22 15 0.43
23 8 0.23
24 2 0.06
ACGTcount: A:0.38, C:0.07, G:0.13, T:0.42
Consensus pattern (22 bp):
ATTTGGTTAATACAATACTTAT
Found at i:6488401 original size:44 final size:44
Alignment explanation
Indices: 6488353--6488446 Score: 188
Period size: 44 Copynumber: 2.1 Consensus size: 44
6488343 TATATTCAAT
6488353 AAATGATTTGGTTAATACAATACTTATATTTGATAAGCATATGA
1 AAATGATTTGGTTAATACAATACTTATATTTGATAAGCATATGA
6488397 AAATGATTTGGTTAATACAATACTTATATTTGATAAGCATATGA
1 AAATGATTTGGTTAATACAATACTTATATTTGATAAGCATATGA
6488441 AAATGA
1 AAATGA
6488447 AAGTCGAGAC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 50 1.00
ACGTcount: A:0.43, C:0.06, G:0.14, T:0.37
Consensus pattern (44 bp):
AAATGATTTGGTTAATACAATACTTATATTTGATAAGCATATGA
Found at i:6496720 original size:21 final size:22
Alignment explanation
Indices: 6496696--6496744 Score: 57
Period size: 21 Copynumber: 2.2 Consensus size: 22
6496686 GCCTAAATGG
*
6496696 CCAGCCAGTGTGGC-CA-ATAGT
1 CCAGCC-GTGTGCCTCACATAGT
6496717 CCAGACCGTGTGCCTCACATAGT
1 CCAG-CCGTGTGCCTCACATAGT
6496740 CCAGC
1 CCAGC
6496745 ACATGGCCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
21 10 0.42
22 5 0.21
23 9 0.38
ACGTcount: A:0.22, C:0.35, G:0.24, T:0.18
Consensus pattern (22 bp):
CCAGCCGTGTGCCTCACATAGT
Found at i:6503335 original size:24 final size:25
Alignment explanation
Indices: 6503282--6503332 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
6503272 GCAAAGCACA
*
6503282 AACTAGTGTTTTATGTTTAAAACTT
1 AACTAGTGTTTAATGTTTAAAACTT
6503307 AACTAGTGTTTAATGTTTAAAACTT
1 AACTAGTGTTTAATGTTTAAAACTT
6503332 A
1 A
6503333 CTACGTATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.35, C:0.08, G:0.12, T:0.45
Consensus pattern (25 bp):
AACTAGTGTTTAATGTTTAAAACTT
Found at i:6503343 original size:24 final size:25
Alignment explanation
Indices: 6503282--6503351 Score: 81
Period size: 25 Copynumber: 2.8 Consensus size: 25
6503272 GCAAAGCACA
* *
6503282 AACTAGTGTTTTATGTTTAAAACTT
1 AACTAGTGATTAATGTTTAAAACTT
*
6503307 AACTAGTGTTTAATGTTTAAAACTT
1 AACTAGTGATTAATGTTTAAAACTT
*
6503332 -ACTACGT-ATTAAAGTTTAAA
1 AACTA-GTGATTAATGTTTAAA
6503352 CCAAAGATTT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
24 15 0.37
25 26 0.63
ACGTcount: A:0.37, C:0.09, G:0.11, T:0.43
Consensus pattern (25 bp):
AACTAGTGATTAATGTTTAAAACTT
Found at i:6503990 original size:37 final size:38
Alignment explanation
Indices: 6503903--6503992 Score: 119
Period size: 37 Copynumber: 2.4 Consensus size: 38
6503893 ACCACTCCGA
* * * *
6503903 CCACCCTACACACCACATATGGGCTATAGTATGCCCAT
1 CCACCCTACACACCACATATGGACCATAATAGGCCCAT
* *
6503941 CCACCTTGCACACCACATA-GGACCATAATAGGCCCAT
1 CCACCCTACACACCACATATGGACCATAATAGGCCCAT
6503978 CCACCCTACACACCA
1 CCACCCTACACACCA
6503993 AAATTGTGGA
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
37 27 0.61
38 17 0.39
ACGTcount: A:0.31, C:0.41, G:0.11, T:0.17
Consensus pattern (38 bp):
CCACCCTACACACCACATATGGACCATAATAGGCCCAT
Found at i:6508563 original size:24 final size:24
Alignment explanation
Indices: 6508536--6508583 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
6508526 ATTGAAATGG
6508536 ATTG-ATTTAGTATGTGA-TGAATTT
1 ATTGAATTTA-TAT-TGATTGAATTT
6508560 ATTGAATTTATATTGATTGAATTT
1 ATTGAATTTATATTGATTGAATTT
6508584 GTATATATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 3 0.14
24 14 0.64
25 5 0.23
ACGTcount: A:0.31, C:0.00, G:0.17, T:0.52
Consensus pattern (24 bp):
ATTGAATTTATATTGATTGAATTT
Found at i:6515545 original size:25 final size:22
Alignment explanation
Indices: 6515491--6515553 Score: 63
Period size: 25 Copynumber: 2.7 Consensus size: 22
6515481 AAACAACCAT
*
6515491 AAAAATAAAAAAATATAGTTCA
1 AAAAATAAAAAAAAATAGTTCA
* *
6515513 AAATATAAAAACAAAATAAGTTTA
1 AAAAATAAAAA-AAAAT-AGTTCA
6515537 AGAAAATAAAAATAAAA
1 A-AAAATAAAAA-AAAA
6515554 ATAAAAATAA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
22 10 0.30
23 4 0.12
24 6 0.18
25 13 0.39
ACGTcount: A:0.71, C:0.03, G:0.05, T:0.21
Consensus pattern (22 bp):
AAAAATAAAAAAAAATAGTTCA
Found at i:6515548 original size:6 final size:6
Alignment explanation
Indices: 6515539--6515583 Score: 81
Period size: 6 Copynumber: 7.5 Consensus size: 6
6515529 TAAGTTTAAG
*
6515539 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAACA AAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAA
6515584 TAGACTCAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.84, C:0.02, G:0.00, T:0.13
Consensus pattern (6 bp):
AAAATA
Found at i:6517373 original size:35 final size:36
Alignment explanation
Indices: 6517327--6517405 Score: 99
Period size: 35 Copynumber: 2.2 Consensus size: 36
6517317 AAGGACAAAT
*
6517327 GTTAAATTGAG-TTTAATGACTCATTTAATTCA-GAC
1 GTTAATTTGAGTTTTAATGACTC-TTTAATTCACGAC
*
6517362 GTTAATTTGAGTTTTTAATGGCTCTTTAATTCACGGAC
1 GTTAATTTGAG-TTTTAATGACTCTTTAATTCAC-GAC
6517400 GTTAAT
1 GTTAAT
6517406 GGCTCCAGTA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
35 10 0.26
36 9 0.24
37 10 0.26
38 9 0.24
ACGTcount: A:0.29, C:0.11, G:0.16, T:0.43
Consensus pattern (36 bp):
GTTAATTTGAGTTTTAATGACTCTTTAATTCACGAC
Found at i:6518381 original size:31 final size:32
Alignment explanation
Indices: 6518338--6518407 Score: 88
Period size: 31 Copynumber: 2.2 Consensus size: 32
6518328 TTGATATAAT
* * *
6518338 TATACACTTGAAATTTTAATTGTGGTTTAA-A
1 TATATACTTGAAACTTTAATTGTGATTTAACA
*
6518369 TATATACTTGAAACTTTAATTTTGATTTAATCA
1 TATATACTTGAAACTTTAATTGTGATTTAA-CA
6518402 TATATA
1 TATATA
6518408 TTTACAAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 26 0.79
33 7 0.21
ACGTcount: A:0.37, C:0.07, G:0.09, T:0.47
Consensus pattern (32 bp):
TATATACTTGAAACTTTAATTGTGATTTAACA
Found at i:6518558 original size:30 final size:29
Alignment explanation
Indices: 6518524--6518581 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
6518514 AATTTACAAG
6518524 AATTAAATC-AAATCAAAATTTCATGTATAA
1 AATTAAA-CAAAATCAAAATTT-ATGTATAA
* *
6518554 AATTACACAAAATCAAAGTTTATGTATA
1 AATTAAACAAAATCAAAATTTATGTATA
6518582 CACTTGCACA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 8 0.32
30 17 0.68
ACGTcount: A:0.52, C:0.10, G:0.05, T:0.33
Consensus pattern (29 bp):
AATTAAACAAAATCAAAATTTATGTATAA
Found at i:6522624 original size:10 final size:10
Alignment explanation
Indices: 6522611--6522639 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
6522601 CGATTTTCAA
6522611 TTTTATTTTT
1 TTTTATTTTT
6522621 TTTTA-TTTT
1 TTTTATTTTT
6522630 TTTTATTTTT
1 TTTTATTTTT
6522640 AAGAAGAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (10 bp):
TTTTATTTTT
Found at i:6524092 original size:5 final size:5
Alignment explanation
Indices: 6524077--6524107 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
6524067 AATTCAAAAT
6524077 TATACA TATAA TATAA TATAA TATAA TATAA
1 TATA-A TATAA TATAA TATAA TATAA TATAA
6524108 ATTGTGATCT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 21 0.84
6 4 0.16
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (5 bp):
TATAA
Found at i:6525577 original size:37 final size:37
Alignment explanation
Indices: 6525536--6525649 Score: 101
Period size: 37 Copynumber: 3.1 Consensus size: 37
6525526 TAGTTGAGTT
6525536 GATTTATTTGATGTGGAATAAAATTAGGTTGTCGTGA
1 GATTTATTTGATGTGGAATAAAATTAGGTTGTCGTGA
* * * ** * * *
6525573 GATTTCTATGACTTTATAA-ATAATTTA-GTTG-AGT-T
1 GATTTATTTGA-TGTGGAATA-AAATTAGGTTGTCGTGA
*
6525608 GATTTATTTGATGTGGAATAAAATTAGGTGGTCGTGA
1 GATTTATTTGATGTGGAATAAAATTAGGTTGTCGTGA
6525645 GATTT
1 GATTT
6525650 GTTCGACTAG
Statistics
Matches: 54, Mismatches: 17, Indels: 12
0.65 0.20 0.14
Matches are distributed among these distances:
34 9 0.17
35 13 0.24
36 4 0.07
37 19 0.35
38 9 0.17
ACGTcount: A:0.30, C:0.04, G:0.24, T:0.43
Consensus pattern (37 bp):
GATTTATTTGATGTGGAATAAAATTAGGTTGTCGTGA
Found at i:6525612 original size:35 final size:35
Alignment explanation
Indices: 6525504--6525612 Score: 96
Period size: 35 Copynumber: 3.1 Consensus size: 35
6525494 CAAAAAAAAA
6525504 TTCTATGACTTTAGAAATAATTTAGTTGAGTTGAT
1 TTCTATGACTTTAGAAATAATTTAGTTGAGTTGAT
* * * * * * *
6525539 TTATTTGA-TGT-GGAATAAAATTAGGTTGTCGTGAGAT
1 TTCTATGACTTTAGAAAT-AATTTA-GTTG-AGT-TGAT
*
6525576 TTCTATGACTTTATAAATAATTTAGTTGAGTTGAT
1 TTCTATGACTTTAGAAATAATTTAGTTGAGTTGAT
6525611 TT
1 TT
6525613 ATTTGATGTG
Statistics
Matches: 53, Mismatches: 15, Indels: 12
0.66 0.19 0.15
Matches are distributed among these distances:
33 4 0.08
34 7 0.13
35 15 0.28
36 4 0.08
37 13 0.25
38 7 0.13
39 3 0.06
ACGTcount: A:0.30, C:0.05, G:0.19, T:0.46
Consensus pattern (35 bp):
TTCTATGACTTTAGAAATAATTTAGTTGAGTTGAT
Found at i:6525621 original size:72 final size:72
Alignment explanation
Indices: 6525504--6525649 Score: 274
Period size: 72 Copynumber: 2.0 Consensus size: 72
6525494 CAAAAAAAAA
*
6525504 TTCTATGACTTTAGAAATAATTTAGTTGAGTTGATTTATTTGATGTGGAATAAAATTAGGTTGTC
1 TTCTATGACTTTAGAAATAATTTAGTTGAGTTGATTTATTTGATGTGGAATAAAATTAGGTGGTC
6525569 GTGAGAT
66 GTGAGAT
*
6525576 TTCTATGACTTTATAAATAATTTAGTTGAGTTGATTTATTTGATGTGGAATAAAATTAGGTGGTC
1 TTCTATGACTTTAGAAATAATTTAGTTGAGTTGATTTATTTGATGTGGAATAAAATTAGGTGGTC
6525641 GTGAGAT
66 GTGAGAT
6525648 TT
1 TT
6525650 GTTCGACTAG
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 72 1.00
ACGTcount: A:0.30, C:0.04, G:0.22, T:0.44
Consensus pattern (72 bp):
TTCTATGACTTTAGAAATAATTTAGTTGAGTTGATTTATTTGATGTGGAATAAAATTAGGTGGTC
GTGAGAT
Found at i:6538521 original size:16 final size:15
Alignment explanation
Indices: 6538496--6538533 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
6538486 AAAGAAAAAC
*
6538496 AATATGTAAATGATAT
1 AATATATAAATGAT-T
6538512 AATATATAAATGATT
1 AATATATAAATGATT
6538527 AA-ATATA
1 AATATATA
6538534 CAAATAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 5 0.24
15 3 0.14
16 13 0.62
ACGTcount: A:0.55, C:0.00, G:0.08, T:0.37
Consensus pattern (15 bp):
AATATATAAATGATT
Found at i:6541988 original size:14 final size:14
Alignment explanation
Indices: 6541969--6542008 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
6541959 TTGATTGCCA
6541969 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
6541983 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
6541997 GAAAAATGTTTT
1 GTAAAATGTTTT
6542009 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.35, C:0.07, G:0.15, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:6542017 original size:20 final size:20
Alignment explanation
Indices: 6541992--6542030 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
6541982 CGTAAAATGA
*
6541992 TTTCTGAAAAATGTTTTACT
1 TTTCTGAAAAATGATTTACT
*
6542012 TTTCTGTAAAATGATTTAC
1 TTTCTGAAAAATGATTTAC
6542031 CGAAAATATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.31, C:0.10, G:0.10, T:0.49
Consensus pattern (20 bp):
TTTCTGAAAAATGATTTACT
Found at i:6542037 original size:34 final size:34
Alignment explanation
Indices: 6541977--6542042 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 34
6541967 CAGTAAAATG
* *
6541977 TTTTCCGTAAAATGATTTCTGAAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTCCGAAAAATATTTTAC
*
6542011 TTTTCTGTAAAATGATTTACCG-AAAATATTTT
1 TTTTCCGTAAAATGATTT-CCGAAAAATATTTT
6542043 CTGGTGTTTG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 26 0.93
35 2 0.07
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.45
Consensus pattern (34 bp):
TTTTCCGTAAAATGATTTCCGAAAAATATTTTAC
Found at i:6543561 original size:21 final size:21
Alignment explanation
Indices: 6543536--6543578 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
6543526 TATAAACAAA
* *
6543536 AAATGCTCGTAGCAGCAACAC
1 AAATGCTCGTAACAACAACAC
6543557 AAATGCTCGTAACAACAACAC
1 AAATGCTCGTAACAACAACAC
6543578 A
1 A
6543579 TAACAATCCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.44, C:0.28, G:0.14, T:0.14
Consensus pattern (21 bp):
AAATGCTCGTAACAACAACAC
Found at i:6544206 original size:162 final size:170
Alignment explanation
Indices: 6543805--6544211 Score: 388
Period size: 162 Copynumber: 2.4 Consensus size: 170
6543795 ATTCGGTTCA
* * * * * * * *
6543805 AATAAAGCATCAAAATAATCATTACAACCATAGAACCCAACTTCAAAACTAAATAAAAATCTGAA
1 AATAAAGCATCATAATAATCATTACATCCTTAAAACCCAACTTCCAAATTTAGTAAAAATCTGAA
* * * *
6543870 CTTTAAGGACTATCTATATTTCCTATATTTTCCCATCCATTTTTTAACCCAAATTTCTCATTTTC
66 CTGTAAAGACTA--TATATTTCCTATATTTCCCCATCCATTTTCTAACCCAAATTTCTCATTTTC
**
6543935 CATTCCTTTCTCAGAGACCAAACAAACTTTCCTTTTCATTTAGTTC
129 CATTCCTTTCTCAGAGACCAAACAAACGGTCC---TCATTTA-TTC
* * * * * * ** *
6543981 AGATAAAGCATAATAATAAATCCTTATATACTTATAACCCAACTTTCGTATGTAGTAAAAATCTG
1 A-ATAAAGCATCATAAT-AATCATTACATCCTTAAAACCCAACTTCCAAATTTAGTAAAAATCTG
* *
6544046 AACTGTAAAGACTA-A-A-TTCACTGTATTTCCCCATCCATTTTCTAA-CCAAACTTT-TCCTTT
64 AACTGTAAAGACTATATATTTC-CTATATTTCCCCATCCATTTTCTAACCCAAA-TTTCT-CATT
6544106 TTCCA-TCCTTTCTCAGAGACCAAAC-AA-GGTCC-CA-TT-TTC
126 TTCCATTCCTTTCTCAGAGACCAAACAAACGGTCCTCATTTATTC
*
6544145 -ATTAAGCATCATAATACATCATTACATCCTTAAAACCCAACTTCCAAATTTAGTAAAAATCTGA
1 AATAAAGCATCATAATA-ATCATTACATCCTTAAAACCCAACTTCCAAATTTAGTAAAAATCTGA
6544209 ACT
65 ACT
6544212 TTAAGATCAC
Statistics
Matches: 191, Mismatches: 34, Indels: 26
0.76 0.14 0.10
Matches are distributed among these distances:
161 1 0.01
162 55 0.29
164 3 0.02
166 2 0.01
167 2 0.01
171 3 0.02
172 2 0.01
173 29 0.15
174 34 0.18
175 1 0.01
176 1 0.01
177 13 0.07
178 45 0.24
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.34
Consensus pattern (170 bp):
AATAAAGCATCATAATAATCATTACATCCTTAAAACCCAACTTCCAAATTTAGTAAAAATCTGAA
CTGTAAAGACTATATATTTCCTATATTTCCCCATCCATTTTCTAACCCAAATTTCTCATTTTCCA
TTCCTTTCTCAGAGACCAAACAAACGGTCCTCATTTATTC
Found at i:6546019 original size:13 final size:13
Alignment explanation
Indices: 6545984--6546016 Score: 50
Period size: 12 Copynumber: 2.5 Consensus size: 13
6545974 TAATTGAAAT
6545984 AATAGTTTAATTTG
1 AATA-TTTAATTTG
6545998 AATATTTAA-TTG
1 AATATTTAATTTG
6546010 AATATTT
1 AATATTT
6546017 TAAATTTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 10 0.53
13 5 0.26
14 4 0.21
ACGTcount: A:0.39, C:0.00, G:0.09, T:0.52
Consensus pattern (13 bp):
AATATTTAATTTG
Found at i:6549544 original size:33 final size:34
Alignment explanation
Indices: 6549502--6549652 Score: 129
Period size: 33 Copynumber: 4.6 Consensus size: 34
6549492 ACTCTAGCTA
*
6549502 TGTTTACTGTCCCAATGA-ACTATCTCTTTTCTG
1 TGTTTACTGTCCCAATCAGACTATCTCTTTTCTG
* * *
6549535 TGTTTACTGTCTC-ATCAGACAATCTC--TTCTT
1 TGTTTACTGTCCCAATCAGACTATCTCTTTTCTG
* * *
6549566 TGTTTACTGTTCCACT-GGACTATCTCTGTTT-TG
1 TGTTTACTGTCCCAATCAGACTATCTCT-TTTCTG
* * * * *
6549599 TGTTTACTATCCCAA-CAGACTATTTATGTTCTA
1 TGTTTACTGTCCCAATCAGACTATCTCTTTTCTG
6549632 TGTTTACTGTCCCAAT-AGACT
1 TGTTTACTGTCCCAATCAGACT
6549653 GTCATTGTGG
Statistics
Matches: 91, Mismatches: 19, Indels: 16
0.72 0.15 0.13
Matches are distributed among these distances:
31 23 0.25
32 6 0.07
33 60 0.66
34 2 0.02
ACGTcount: A:0.20, C:0.23, G:0.13, T:0.44
Consensus pattern (34 bp):
TGTTTACTGTCCCAATCAGACTATCTCTTTTCTG
Found at i:6549916 original size:51 final size:51
Alignment explanation
Indices: 6549837--6549962 Score: 157
Period size: 51 Copynumber: 2.5 Consensus size: 51
6549827 GTTGCCATGA
* *
6549837 CATCTTTCATCCT-TGGTCGTACGCTACATAA-TCTATACTAAACTACCAAAG
1 CATCTTTCAT-CTATAGTCTTACGCTACATAATTC-ATACTAAACTACCAAAG
* * * * *
6549888 CGTCTTTTATCTATAGTCTTACGCTACATACTTCATACTAGACTGCCAAAG
1 CATCTTTCATCTATAGTCTTACGCTACATAATTCATACTAAACTACCAAAG
6549939 CATCTTTCATCTATAGTCTTACGC
1 CATCTTTCATCTATAGTCTTACGC
6549963 CATATATCGT
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
50 2 0.03
51 60 0.94
52 2 0.03
ACGTcount: A:0.28, C:0.27, G:0.10, T:0.35
Consensus pattern (51 bp):
CATCTTTCATCTATAGTCTTACGCTACATAATTCATACTAAACTACCAAAG
Found at i:6556849 original size:28 final size:27
Alignment explanation
Indices: 6556782--6556849 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 27
6556772 TTATAGCATG
* *
6556782 TTTATTTTTATTTTAAAAATAGGAATTTT
1 TTTA-TTTT-TTTTAAAAATAGGAAATTA
*
6556811 TTGTATTTTTTTTAAACATAGGAAATTA
1 TT-TATTTTTTTTAAAAATAGGAAATTA
*
6556839 TTTATTATTTT
1 TTTATTTTTTT
6556850 ATTAGTAATT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
27 8 0.24
28 18 0.53
29 6 0.18
30 2 0.06
ACGTcount: A:0.32, C:0.01, G:0.07, T:0.59
Consensus pattern (27 bp):
TTTATTTTTTTTAAAAATAGGAAATTA
Found at i:6557412 original size:21 final size:21
Alignment explanation
Indices: 6557387--6557426 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
6557377 CAACTTGACC
6557387 ATAATCACTTTGTATATATAT
1 ATAATCACTTTGTATATATAT
6557408 ATAATCACTTTGTATATAT
1 ATAATCACTTTGTATATAT
6557427 CAAGGAGAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.38, C:0.10, G:0.05, T:0.47
Consensus pattern (21 bp):
ATAATCACTTTGTATATATAT
Found at i:6561038 original size:44 final size:44
Alignment explanation
Indices: 6560955--6561038 Score: 107
Period size: 44 Copynumber: 1.9 Consensus size: 44
6560945 TCATATAAGA
* *
6560955 ATATTTATTAACAATTTTATTAAATTATATATTATTATTAAATT
1 ATATTTAATAACAATTTTATTAAATTATATATTAGTATTAAATT
* * *
6560999 ATATTTAATAATAATTATT-TTAAATTATGTTTTAGTATTA
1 ATATTTAATAACAATT-TTATTAAATTATATATTAGTATTA
6561039 TATATTATGA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
44 32 0.94
45 2 0.06
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.55
Consensus pattern (44 bp):
ATATTTAATAACAATTTTATTAAATTATATATTAGTATTAAATT
Found at i:6561043 original size:118 final size:117
Alignment explanation
Indices: 6560872--6561359 Score: 794
Period size: 117 Copynumber: 4.3 Consensus size: 117
6560862 AATAAAGTAG
6560872 ATTA-TAAATTATATTTAATAATAATTATTTAAATTATATTTTAGTATTATATATTATGATTTTA
1 ATTATTAAATTATATTTAATAATAATTATTTAAATTATATTTTAGTATTATATATTATGATTTTA
6560936 TTAGTAAATTCATATAAGAATATTTATTAACAATTTTATTAAATTATATATT
66 TTAGTAAATTCATATAAGAATATTTATTAACAATTTTATTAAATTATATATT
*
6560988 ATTATTAAATTATATTTAATAATAATTATTTTAAATTATGTTTTAGTATTATATATTATGATTTT
1 ATTATTAAATTATATTTAATAATAATTA-TTTAAATTATATTTTAGTATTATATATTATGATTTT
6561053 ATTAGTAAATTCATATAAGAATATTTATTAACAATTTTATTAAA-T-TATA-T
65 ATTAGTAAATTCATATAAGAATATTTATTAACAATTTTATTAAATTATATATT
6561103 ATT-TT--ATTA-A--TAAT--T-A-T-TTTAAATTATATTTTAGTATTATATATTATGATTTTA
1 ATTATTAAATTATATTTAATAATAATTATTTAAATTATATTTTAGTATTATATATTATGATTTTA
*
6561157 TTAGTAAATTCATATAAGAATATTTATTTACAATTTTATTAAATTATATATT
66 TTAGTAAATTCATATAAGAATATTTATTAACAATTTTATTAAATTATATATT
6561209 -TTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTAGTATTATATATTATGATTTT
1 ATTATTAAATTATATTTAATAATAATTA-TTTAAATTATATTTTAGTATTATATATTATGATTTT
6561273 ATTAGTAAATTCATATAAGAATATTTATTAACAATTTTATTAAATTATATATT
65 ATTAGTAAATTCATATAAGAATATTTATTAACAATTTTATTAAATTATATATT
* *
6561326 -TTATTAAATTATATTTTATAACAATTATGTTAAA
1 ATTATTAAATTATATTTAATAATAATTAT-TTAAA
6561360 ATATGATTAA
Statistics
Matches: 348, Mismatches: 6, Indels: 35
0.89 0.02 0.09
Matches are distributed among these distances:
103 78 0.22
104 1 0.00
105 7 0.02
106 4 0.01
107 1 0.00
108 4 0.01
109 5 0.01
111 5 0.01
112 4 0.01
113 1 0.00
114 3 0.01
115 5 0.01
116 9 0.03
117 142 0.41
118 79 0.23
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.53
Consensus pattern (117 bp):
ATTATTAAATTATATTTAATAATAATTATTTAAATTATATTTTAGTATTATATATTATGATTTTA
TTAGTAAATTCATATAAGAATATTTATTAACAATTTTATTAAATTATATATT
Found at i:6561106 original size:17 final size:17
Alignment explanation
Indices: 6561086--6561222 Score: 72
Period size: 17 Copynumber: 8.0 Consensus size: 17
6561076 TTTATTAACA
6561086 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
6561103 ATTTTATT-AA-TA-AT
1 ATTTTATTAAATTATAT
*
6561117 -TATT-TTAAATTATAT
1 ATTTTATTAAATTATAT
6561132 -TTTAGTATTATATATTATGAT
1 ATTT--TATTA-A-ATTAT-AT
* *
6561153 TTTATTAGTAAATTCATAT
1 ATT-TTATTAAATT-ATAT
*** * * *
6561172 AAGAATATTTATTTACA-
1 -ATTTTATTAAATTATAT
6561189 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
6561206 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
6561223 TTAATAATAA
Statistics
Matches: 89, Mismatches: 17, Indels: 28
0.66 0.13 0.21
Matches are distributed among these distances:
12 2 0.02
13 5 0.06
14 4 0.04
15 6 0.07
16 12 0.13
17 26 0.29
18 5 0.06
19 12 0.13
20 8 0.09
21 6 0.07
22 2 0.02
23 1 0.01
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.55
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:6561126 original size:103 final size:103
Alignment explanation
Indices: 6560989--6561332 Score: 496
Period size: 103 Copynumber: 3.2 Consensus size: 103
6560979 TTATATATTA
* *
6560989 TTATTAAA-T-TATA-TTTAATAATAATTATTTTAAATTATGTTTTAGTATTATATATTATGATT
1 TTATTAAATTATATATTTTATTAATAATTATTTTAAATTATATTTTAGTATTATATATTATGATT
6561051 TTATTAGTAAATTCATATAAGAATATTTATTAACAATT
66 TTATTAGTAAATTCATATAAGAATATTTATTAACAATT
6561089 TTATTAAATTATATATTTTATTAATAATTATTTTAAATTATATTTTAGTATTATATATTATGATT
1 TTATTAAATTATATATTTTATTAATAATTATTTTAAATTATATTTTAGTATTATATATTATGATT
*
6561154 TTATTAGTAAATTCATATAAGAATATTTATTTACAATT
66 TTATTAGTAAATTCATATAAGAATATTTATTAACAATT
**
6561192 TTATTAAATTATATATTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTAGTAT
1 TTATTAAATTATATATTTTATT-AA-TA-A-TT-AT--T--TTAAATT--A-T--ATTTTAGTAT
6561257 TATATATTATGATTTTATTAGTAAATTCATATAAGAATATTTATTAACAATT
52 TATATATTATGATTTTATTAGTAAATTCATATAAGAATATTTATTAACAATT
6561309 TTATTAAATTATATATTTTATTAA
1 TTATTAAATTATATATTTTATTAA
6561333 ATTATATTTT
Statistics
Matches: 221, Mismatches: 6, Indels: 18
0.90 0.02 0.07
Matches are distributed among these distances:
100 8 0.04
101 1 0.00
102 4 0.02
103 106 0.48
104 2 0.01
105 2 0.01
106 1 0.00
107 2 0.01
108 2 0.01
110 1 0.00
112 5 0.02
114 1 0.00
115 1 0.00
116 2 0.01
117 83 0.38
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (103 bp):
TTATTAAATTATATATTTTATTAATAATTATTTTAAATTATATTTTAGTATTATATATTATGATT
TTATTAGTAAATTCATATAAGAATATTTATTAACAATT
Found at i:6561140 original size:20 final size:21
Alignment explanation
Indices: 6561117--6561156 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
6561107 TATTAATAAT
*
6561117 TATTTTAAATTAT-ATTTTAG
1 TATTATAAATTATGATTTTAG
*
6561137 TATTATATATTATGATTTTA
1 TATTATAAATTATGATTTTA
6561157 TTAGTAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (21 bp):
TATTATAAATTATGATTTTAG
Found at i:6561147 original size:27 final size:29
Alignment explanation
Indices: 6561076--6561131 Score: 87
Period size: 29 Copynumber: 1.9 Consensus size: 29
6561066 TATAAGAATA
*
6561076 TTTATTAACAATT-TTATTAAATTATATAT
1 TTTATTAATAATTATT-TTAAATTATATAT
6561105 TTTATTAATAATTATTTTAAATTATAT
1 TTTATTAATAATTATTTTAAATTATAT
6561132 TTTAGTATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
29 23 0.92
30 2 0.08
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (29 bp):
TTTATTAATAATTATTTTAAATTATATAT
Found at i:6561193 original size:59 final size:59
Alignment explanation
Indices: 6561130--6561325 Score: 197
Period size: 59 Copynumber: 3.3 Consensus size: 59
6561120 TTTAAATTAT
6561130 ATTTTAGTATTATATATTATGATTTTATTAGTAAATTCATATAAGAATATTTATTTACA
1 ATTTTAGTATTATATATTATGATTTTATTAGTAAATTCATATAAGAATATTTATTTACA
* * * * * * * *
6561189 ATTTTATTA-AAT-TA-TAT-ATTTTATTAAATTATATTTA-ATAATAATTATTTTAAATTA-T
1 ATTTTAGTATTATATATTATGATTTTATT--AGTAAATTCATATAAGAA-TA-TTT-ATTTACA
*
6561247 ATTTTAGTATTATATATTATGATTTTATTAGTAAATTCATATAAGAATATTTATTAACA
1 ATTTTAGTATTATATATTATGATTTTATTAGTAAATTCATATAAGAATATTTATTTACA
*
6561306 ATTTTATTAAATTATATATT
1 ATTTTAGT--ATTATATATT
6561326 TTATTAAATT
Statistics
Matches: 106, Mismatches: 18, Indels: 24
0.72 0.12 0.16
Matches are distributed among these distances:
55 8 0.08
56 9 0.08
57 11 0.10
58 16 0.15
59 24 0.23
60 11 0.10
61 19 0.18
62 8 0.08
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (59 bp):
ATTTTAGTATTATATATTATGATTTTATTAGTAAATTCATATAAGAATATTTATTTACA
Found at i:6561343 original size:220 final size:221
Alignment explanation
Indices: 6560881--6561332 Score: 856
Period size: 220 Copynumber: 2.1 Consensus size: 221
6560871 GATTATAAAT
*
6560881 TATA-TTTAATAATAATTA-TTTAAATTATATTTTAGTATTATATATTATGATTTTATTAGTAAA
1 TATATTTTATTAATAATTATTTTAAATTATATTTTAGTATTATATATTATGATTTTATTAGTAAA
6560944 TTCATATAAGAATATTTATTAACAATTTTATTAAATTATATATTATTATTAAATTATATTTAATA
66 TTCATATAAGAATATTTATTAACAATTTTATTAAATTATATATTATTATTAAATTATATTTAATA
*
6561009 ATAATTATTTTAAATTATGTTTTAGTATTATATATTATGATTTTATTAGTAAATTCATATAAGAA
131 ATAATTATTTTAAATTATATTTTAGTATTATATATTATGATTTTATTAGTAAATTCATATAAGAA
6561074 TATTTATTAACAATTTTATTAAATTA
196 TATTTATTAACAATTTTATTAAATTA
6561100 TATATTTTATTAATAATTATTTTAAATTATATTTTAGTATTATATATTATGATTTTATTAGTAAA
1 TATATTTTATTAATAATTATTTTAAATTATATTTTAGTATTATATATTATGATTTTATTAGTAAA
*
6561165 TTCATATAAGAATATTTATTTACAATTTTATTAAATTATATATT-TTATTAAATTATATTTAATA
66 TTCATATAAGAATATTTATTAACAATTTTATTAAATTATATATTATTATTAAATTATATTTAATA
6561229 ATAATTATTTTAAATTATATTTTAGTATTATATATTATGATTTTATTAGTAAATTCATATAAGAA
131 ATAATTATTTTAAATTATATTTTAGTATTATATATTATGATTTTATTAGTAAATTCATATAAGAA
6561294 TATTTATTAACAATTTTATTAAATTA
196 TATTTATTAACAATTTTATTAAATTA
6561320 TATATTTTATTAA
1 TATATTTTATTAA
6561333 ATTATATTTT
Statistics
Matches: 228, Mismatches: 3, Indels: 3
0.97 0.01 0.01
Matches are distributed among these distances:
219 4 0.02
220 136 0.60
221 88 0.39
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (221 bp):
TATATTTTATTAATAATTATTTTAAATTATATTTTAGTATTATATATTATGATTTTATTAGTAAA
TTCATATAAGAATATTTATTAACAATTTTATTAAATTATATATTATTATTAAATTATATTTAATA
ATAATTATTTTAAATTATATTTTAGTATTATATATTATGATTTTATTAGTAAATTCATATAAGAA
TATTTATTAACAATTTTATTAAATTA
Found at i:6561344 original size:15 final size:17
Alignment explanation
Indices: 6561306--6561339 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
6561296 TTTATTAACA
6561306 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
6561323 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
6561340 TTTATAACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:6561353 original size:16 final size:15
Alignment explanation
Indices: 6561306--6561353 Score: 51
Period size: 15 Copynumber: 3.0 Consensus size: 15
6561296 TTTATTAACA
*
6561306 ATTTTATTAAATTATAT
1 ATTTTA-TAAAAT-TAT
*
6561323 ATTTTATTAAATTAT
1 ATTTTATAAAATTAT
6561338 ATTTTATAACAATTAT
1 ATTTTATAA-AATTAT
6561354 GTTAAAATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 11 0.41
16 10 0.37
17 6 0.22
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (15 bp):
ATTTTATAAAATTAT
Found at i:6561531 original size:39 final size:43
Alignment explanation
Indices: 6561486--6561593 Score: 134
Period size: 46 Copynumber: 2.5 Consensus size: 43
6561476 TTTCCTTATG
* *
6561486 CTATTACACCTCTATTCCATT-C-AACCAAACACAAGAA-TAC
1 CTATTACGCCTCTATTCCATTACTAACCAAACAAAAGAATTAC
*
6561526 C-ATTACGCCTCTATTCCATTACATTTAACTAAACAAAAGAATTAC
1 CTATTACGCCTCTATTCCATTAC---TAACCAAACAAAAGAATTAC
6561571 CTATTACGCCTCTATTCCATTAC
1 CTATTACGCCTCTATTCCATTAC
6561594 AGCGAACCAA
Statistics
Matches: 58, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
39 18 0.31
40 2 0.03
44 13 0.22
45 4 0.07
46 21 0.36
ACGTcount: A:0.36, C:0.30, G:0.04, T:0.31
Consensus pattern (43 bp):
CTATTACGCCTCTATTCCATTACTAACCAAACAAAAGAATTAC
Found at i:6561583 original size:46 final size:44
Alignment explanation
Indices: 6561503--6561594 Score: 139
Period size: 46 Copynumber: 2.0 Consensus size: 44
6561493 ACCTCTATTC
*
6561503 CATTCAACCAAACACAAGAATACCATTACGCCTCTATTCCATTA
1 CATTCAACCAAACAAAAGAATACCATTACGCCTCTATTCCATTA
* *
6561547 CATTTAACTAAACAAAAGAATTACCTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACAAAAGAA-TACC-ATTACGCCTCTATTCCATTA
6561593 CA
1 CA
6561595 GCGAACCAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
44 17 0.40
45 4 0.09
46 22 0.51
ACGTcount: A:0.39, C:0.28, G:0.04, T:0.28
Consensus pattern (44 bp):
CATTCAACCAAACAAAAGAATACCATTACGCCTCTATTCCATTA
Found at i:6562840 original size:38 final size:38
Alignment explanation
Indices: 6562797--6562873 Score: 111
Period size: 38 Copynumber: 2.0 Consensus size: 38
6562787 GTAATAGAAT
*
6562797 AATTCAAT-ACTAGAAATAGACATGTTTAACATGTACTC
1 AATTC-ATCACTACAAATAGACATGTTTAACATGTACTC
* *
6562835 AATTCATCATTACTAATAGACATGTTTAACATGTACTC
1 AATTCATCACTACAAATAGACATGTTTAACATGTACTC
6562873 A
1 A
6562874 GTAGAGCAGT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
37 2 0.06
38 33 0.94
ACGTcount: A:0.40, C:0.17, G:0.09, T:0.34
Consensus pattern (38 bp):
AATTCATCACTACAAATAGACATGTTTAACATGTACTC
Found at i:6564435 original size:23 final size:26
Alignment explanation
Indices: 6564376--6564428 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
6564366 TAATTAAAAG
*
6564376 ATTAAATAATAAATCTAATATATATT
1 ATTAAATAATAAACCTAATATATATT
6564402 ATTAAATAATAAACCTAATATATATT
1 ATTAAATAATAAACCTAATATATATT
6564428 A
1 A
6564429 AATAATATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.40
Consensus pattern (26 bp):
ATTAAATAATAAACCTAATATATATT
Found at i:6566878 original size:43 final size:43
Alignment explanation
Indices: 6566813--6566932 Score: 127
Period size: 43 Copynumber: 2.8 Consensus size: 43
6566803 CGTACAATGT
* * *
6566813 CAACGTCCCAGACGTGGTCTTACATGTGATCACAAATCGACGC
1 CAACGTCCCAGACGTGGTCTTACACGTAAACACAAATCGACGC
* *
6566856 C-ACTGTCCCAGACAG-GGTCTTACACGTAAACACAAGTCGATGC
1 CAAC-GTCCCAGAC-GTGGTCTTACACGTAAACACAAATCGACGC
* * **
6566899 CAACGTCCCAGATGTGGTCCTACACAAAAACACA
1 CAACGTCCCAGACGTGGTCTTACACGTAAACACA
6566933 TATAAAAAAT
Statistics
Matches: 64, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
42 3 0.05
43 58 0.91
44 3 0.05
ACGTcount: A:0.32, C:0.31, G:0.19, T:0.18
Consensus pattern (43 bp):
CAACGTCCCAGACGTGGTCTTACACGTAAACACAAATCGACGC
Found at i:6588637 original size:16 final size:16
Alignment explanation
Indices: 6588612--6588643 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
6588602 GATTTGGGAG
*
6588612 ATTTTCTTTTTATTTT
1 ATTTTATTTTTATTTT
6588628 ATTTTATTTTTATTTT
1 ATTTTATTTTTATTTT
6588644 TTTCTGTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.81
Consensus pattern (16 bp):
ATTTTATTTTTATTTT
Found at i:6590948 original size:3 final size:3
Alignment explanation
Indices: 6590942--6591117 Score: 96
Period size: 3 Copynumber: 58.3 Consensus size: 3
6590932 TGGTTTCGAC
* *
6590942 AAT AAT AA- AAT TAT AAT AAT AAAT AAT AATT CATT AAT AA- ACA- AAT
1 AAT AAT AAT AAT AAT AAT AAT -AAT AAT AA-T -AAT AAT AAT A-AT AAT
* * * **
6590988 AAT AA- AAGT AAAT AAAT AAAT AAG AGT AAT AAT AGT AAT AAT AAT GGT
1 AAT AAT AA-T -AAT -AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * *
6591036 AGT AAA AAT AA- AAT AA- AAA AAT AAT AGT AAT AGT AAT AAT AGT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
6591082 AAT AGT AAC AA- AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
6591118 GGAATAAAGT
Statistics
Matches: 135, Mismatches: 26, Indels: 24
0.73 0.14 0.13
Matches are distributed among these distances:
2 12 0.09
3 106 0.79
4 14 0.10
5 3 0.02
ACGTcount: A:0.64, C:0.02, G:0.06, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:6595421 original size:3 final size:3
Alignment explanation
Indices: 6595413--6595449 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
6595403 TATAATGATA
6595413 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
6595450 TTATAATGTT
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:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:6595818 original size:31 final size:29
Alignment explanation
Indices: 6595751--6595818 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
6595741 TATTATTTGC
* *
6595751 CTAATTTTTCTGATTTTAAATATATTTTT
1 CTAATTTTTCTAATTTTAAAAATATTTTT
*
6595780 CTTATTTTT-TAATTATTAAAAATTATATTTT
1 CTAATTTTTCTAATT-TTAAAAA-TAT-TTTT
6595811 CTAATTTT
1 CTAATTTT
6595819 GAACTGATCT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
28 4 0.12
29 14 0.44
30 3 0.09
31 11 0.34
ACGTcount: A:0.31, C:0.06, G:0.01, T:0.62
Consensus pattern (29 bp):
CTAATTTTTCTAATTTTAAAAATATTTTT
Found at i:6605623 original size:8 final size:8
Alignment explanation
Indices: 6605612--6605636 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
6605602 TGATGATAGA
6605612 TTATATGT
1 TTATATGT
6605620 TTATATGT
1 TTATATGT
6605628 TTATATGT
1 TTATATGT
6605636 T
1 T
6605637 CACTGAATGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.64
Consensus pattern (8 bp):
TTATATGT
Found at i:6608783 original size:15 final size:15
Alignment explanation
Indices: 6608763--6608794 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
6608753 AATTTCACTG
*
6608763 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
6608778 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
6608793 TT
1 TT
6608795 TGCATACATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:6613190 original size:17 final size:17
Alignment explanation
Indices: 6613155--6613190 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
6613145 ATTATTTTAA
*
6613155 TAGTTTAATATTAAATT
1 TAGTTTAATACTAAATT
*
6613172 TAGTTTAATACTAATTT
1 TAGTTTAATACTAAATT
6613189 TA
1 TA
6613191 ATAGTATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.39, C:0.03, G:0.06, T:0.53
Consensus pattern (17 bp):
TAGTTTAATACTAAATT
Found at i:6613216 original size:25 final size:26
Alignment explanation
Indices: 6613183--6613236 Score: 67
Period size: 25 Copynumber: 2.1 Consensus size: 26
6613173 AGTTTAATAC
* *
6613183 TAATTTTAATAGT-ATTTTATTAAT-T
1 TAATATTAA-AGTGATTATATTAATGT
6613208 TAATATTAAAGTGATTATATTAATGT
1 TAATATTAAAGTGATTATATTAATGT
6613234 TAA
1 TAA
6613237 ATTTAATTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 3 0.12
25 18 0.72
26 4 0.16
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (26 bp):
TAATATTAAAGTGATTATATTAATGT
Found at i:6613224 original size:20 final size:18
Alignment explanation
Indices: 6613142--6613248 Score: 51
Period size: 20 Copynumber: 5.8 Consensus size: 18
6613132 TTCTAAAAAT
* *
6613142 AATATTATTTTAATAGTTT
1 AATATTAATTTAATA-TTA
*
6613161 AATATTAAATTTAGT-TT-
1 AATATT-AATTTAATATTA
* *
6613178 AATACTAATTTTAATAGTA
1 AATATTAA-TTTAATATTA
**
6613197 TTTTATTAATTTAATATTA
1 -AATATTAATTTAATATTA
*
6613216 AAGTGATT-ATATTAATGTTA
1 AA-T-ATTAAT-TTAATATTA
6613236 AAT-TTAATTTAAT
1 AATATTAATTTAAT
6613249 GTTTATCATG
Statistics
Matches: 67, Mismatches: 12, Indels: 20
0.68 0.12 0.20
Matches are distributed among these distances:
16 2 0.03
17 17 0.25
18 5 0.07
19 19 0.28
20 24 0.36
ACGTcount: A:0.41, C:0.01, G:0.06, T:0.52
Consensus pattern (18 bp):
AATATTAATTTAATATTA
Found at i:6613299 original size:62 final size:59
Alignment explanation
Indices: 6613227--6613343 Score: 153
Period size: 62 Copynumber: 1.9 Consensus size: 59
6613217 AGTGATTATA
* * * * *
6613227 TTAATGTTAAATTTAATTTAATGTTTATCATGTAGATAAACATTCTATTATTTTAATAAGAT
1 TTAATATTAAATTTAATCTAATATTTATC-T-T-GATAAACATTATATTAATTTAATAAGAT
*
6613289 TTAATATTAAATTTAATCTAATATTTATCTTGATAAATATTATATTAATTTAATA
1 TTAATATTAAATTTAATCTAATATTTATCTTGATAAACATTATATTAATTTAATA
6613344 TTAAAGTGAT
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
59 21 0.43
60 1 0.02
61 1 0.02
62 26 0.53
ACGTcount: A:0.41, C:0.04, G:0.05, T:0.50
Consensus pattern (59 bp):
TTAATATTAAATTTAATCTAATATTTATCTTGATAAACATTATATTAATTTAATAAGAT
Found at i:6616915 original size:20 final size:20
Alignment explanation
Indices: 6616892--6616940 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
6616882 TTGTACTTCG
*
6616892 GTGCCCCTGAATGCAAATTT
1 GTGCCCCTGAACGCAAATTT
* *
6616912 GTGCCCCTAAACGCACATTT
1 GTGCCCCTGAACGCAAATTT
6616932 GTGCCCCTG
1 GTGCCCCTG
6616941 TTCACACTTC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.20, C:0.33, G:0.20, T:0.27
Consensus pattern (20 bp):
GTGCCCCTGAACGCAAATTT
Found at i:6617016 original size:20 final size:20
Alignment explanation
Indices: 6616932--6617017 Score: 70
Period size: 20 Copynumber: 4.3 Consensus size: 20
6616922 ACGCACATTT
* *
6616932 GTGCCCCTGTTCACACTTCG
1 GTGCCCTTGTTCACACTTCA
*
6616952 GTGCCCTTGTAT-ACACTTCG
1 GTGCCCTTGT-TCACACTTCA
* *
6616972 GTGTCCTTGTTTGCACA-TTTA
1 GTGCCCTTG-TT-CACACTTCA
*
6616993 -TGCCCTTGTTCGCACTTCA
1 GTGCCCTTGTTCACACTTCA
6617012 GTGCCC
1 GTGCCC
6617018 CTGACCGCAC
Statistics
Matches: 53, Mismatches: 7, Indels: 12
0.74 0.10 0.17
Matches are distributed among these distances:
18 3 0.06
19 5 0.09
20 38 0.72
21 4 0.08
22 3 0.06
ACGTcount: A:0.12, C:0.33, G:0.20, T:0.36
Consensus pattern (20 bp):
GTGCCCTTGTTCACACTTCA
Done.