Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: 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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 213 of 221
Found at i:62273183 original size:11 final size:11
Alignment explanation
Indices: 62273167--62273194 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
62273157 GCTCAAGTAG
62273167 AAAGAGATACA
1 AAAGAGATACA
62273178 AAAGAGATACA
1 AAAGAGATACA
62273189 AAAGAG
1 AAAGAG
62273195 TACCAAGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.64, C:0.07, G:0.21, T:0.07
Consensus pattern (11 bp):
AAAGAGATACA
Found at i:62287203 original size:37 final size:37
Alignment explanation
Indices: 62287161--62287234 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
62287151 TCCTCACACC
*
62287161 ATTTTTGCTCTTACTCTTTCTTCTAACAAGTTCCATG
1 ATTTTTGCTCCTACTCTTTCTTCTAACAAGTTCCATG
*
62287198 ATTTTTGCTCCTACTCTTTCTTCTAACAAGTTTCATG
1 ATTTTTGCTCCTACTCTTTCTTCTAACAAGTTCCATG
62287235 GTATACTCAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.19, C:0.24, G:0.08, T:0.49
Consensus pattern (37 bp):
ATTTTTGCTCCTACTCTTTCTTCTAACAAGTTCCATG
Found at i:62287520 original size:22 final size:22
Alignment explanation
Indices: 62287494--62287564 Score: 58
Period size: 22 Copynumber: 3.2 Consensus size: 22
62287484 CATTTCTATT
62287494 GTTAAAAAACTAATCCTCGTAC
1 GTTAAAAAACTAATCCTCGTAC
** * *
62287516 GTTAACAAATGTACA-CAT--TATT
1 GTTAA-AAAACTA-ATCCTCGTA-C
62287538 GTTAAAAAACTAATCCTCGTAC
1 GTTAAAAAACTAATCCTCGTAC
62287560 GTTAA
1 GTTAA
62287565 CAAATGTACA
Statistics
Matches: 35, Mismatches: 8, Indels: 12
0.64 0.15 0.22
Matches are distributed among these distances:
20 1 0.03
21 9 0.26
22 15 0.43
23 9 0.26
24 1 0.03
ACGTcount: A:0.41, C:0.18, G:0.10, T:0.31
Consensus pattern (22 bp):
GTTAAAAAACTAATCCTCGTAC
Found at i:62287540 original size:44 final size:44
Alignment explanation
Indices: 62287490--62287577 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
62287480 TATTCATTTC
62287490 TATTGTTAAAAAACTAATCCTCGTACGTTAACAAATGTACACAT
1 TATTGTTAAAAAACTAATCCTCGTACGTTAACAAATGTACACAT
62287534 TATTGTTAAAAAACTAATCCTCGTACGTTAACAAATGTACACAT
1 TATTGTTAAAAAACTAATCCTCGTACGTTAACAAATGTACACAT
62287578 ACATATCACT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (44 bp):
TATTGTTAAAAAACTAATCCTCGTACGTTAACAAATGTACACAT
Found at i:62292362 original size:20 final size:20
Alignment explanation
Indices: 62292337--62292378 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
62292327 CTATTTCATA
*
62292337 TTTAGTAAATTATATTAAAT
1 TTTAGTAAATTACATTAAAT
**
62292357 TTTAGTGTATTACATTAAAT
1 TTTAGTAAATTACATTAAAT
62292377 TT
1 TT
62292379 CAAACTAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.02, G:0.07, T:0.52
Consensus pattern (20 bp):
TTTAGTAAATTACATTAAAT
Found at i:62316035 original size:9 final size:9
Alignment explanation
Indices: 62316021--62316052 Score: 64
Period size: 9 Copynumber: 3.6 Consensus size: 9
62316011 AACTTGGTGC
62316021 ATTTTGTTT
1 ATTTTGTTT
62316030 ATTTTGTTT
1 ATTTTGTTT
62316039 ATTTTGTTT
1 ATTTTGTTT
62316048 ATTTT
1 ATTTT
62316053 AATATTTGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.12, C:0.00, G:0.09, T:0.78
Consensus pattern (9 bp):
ATTTTGTTT
Found at i:62322664 original size:21 final size:21
Alignment explanation
Indices: 62322630--62322669 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
62322620 TATTAAAGCT
*
62322630 AGTTACAATCAAACTAAACTA
1 AGTTACAATCAAACAAAACTA
62322651 AGTTAC-ATCAAAACAAAAC
1 AGTTACAATC-AAACAAAAC
62322670 AGCAATATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.55, C:0.20, G:0.05, T:0.20
Consensus pattern (21 bp):
AGTTACAATCAAACAAAACTA
Found at i:62327217 original size:21 final size:21
Alignment explanation
Indices: 62327183--62327222 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
62327173 TATTAAAGCT
*
62327183 AGTTACAATCAAACTAAACTA
1 AGTTACAATCAAACAAAACTA
62327204 AGTTAC-ATCAAAACAAAAC
1 AGTTACAATC-AAACAAAAC
62327223 AGCAATATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.55, C:0.20, G:0.05, T:0.20
Consensus pattern (21 bp):
AGTTACAATCAAACAAAACTA
Found at i:62341425 original size:21 final size:21
Alignment explanation
Indices: 62341399--62341439 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
62341389 AGACGAGCAA
* *
62341399 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
62341420 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
62341440 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:62366622 original size:22 final size:23
Alignment explanation
Indices: 62366570--62366612 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
62366560 AAAATTTGTA
62366570 TAAA-TAAAAATAGATTAAATAT
1 TAAATTAAAAATAGATTAAATAT
62366592 TAAATTAAAAATA-ATATAAAT
1 TAAATTAAAAATAGAT-TAAAT
62366613 TTATTTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (23 bp):
TAAATTAAAAATAGATTAAATAT
Found at i:62366932 original size:6 final size:6
Alignment explanation
Indices: 62366921--62366972 Score: 86
Period size: 6 Copynumber: 8.7 Consensus size: 6
62366911 ATGCATGTAC
* *
62366921 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT ATGTAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
62366969 GTAT
1 GTAT
62366973 GAAATTCTTC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (6 bp):
GTATAT
Found at i:62375440 original size:18 final size:18
Alignment explanation
Indices: 62375413--62375457 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
62375403 AATATTTAAA
62375413 TTTTATTTTAA-AAATAT
1 TTTTATTTTAATAAATAT
*
62375430 TTTTCATTTTAATAATTA-
1 TTTT-ATTTTAATAAATAT
62375448 TTTTATTTTA
1 TTTTATTTTA
62375458 CTATTTGCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 10 0.40
18 11 0.44
19 4 0.16
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (18 bp):
TTTTATTTTAATAAATAT
Found at i:62377503 original size:27 final size:26
Alignment explanation
Indices: 62377452--62377512 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
62377442 ATCAGGTTTG
*
62377452 TTTAAAATAAAAATTTTACATTTAAA
1 TTTAAAATAAAAATTATACATTTAAA
*
62377478 TTTAAAACTGAAAATTATA-ATATTAAA
1 TTTAAAA-TAAAAATTATACAT-TTAAA
62377505 TATTAAAA
1 T-TTAAAA
62377513 ATTATTTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 9 0.30
27 15 0.50
28 6 0.20
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.39
Consensus pattern (26 bp):
TTTAAAATAAAAATTATACATTTAAA
Found at i:62377867 original size:21 final size:22
Alignment explanation
Indices: 62377843--62377890 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
62377833 AATTTAAACC
62377843 TTTTTTA-AAATTTCTTTTACA
1 TTTTTTACAAATTTCTTTTACA
** *
62377864 TTTTTTACAGTTTTTTTTTACA
1 TTTTTTACAAATTTCTTTTACA
62377886 TTTTT
1 TTTTT
62377891 AATAATATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 7 0.30
22 16 0.70
ACGTcount: A:0.21, C:0.08, G:0.02, T:0.69
Consensus pattern (22 bp):
TTTTTTACAAATTTCTTTTACA
Found at i:62378173 original size:21 final size:21
Alignment explanation
Indices: 62378139--62378179 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
62378129 TTTGTTATTA
*
62378139 TTTATGAAAAATA-TTAAAAT
1 TTTATCAAAAATATTTAAAAT
62378159 TTTATCAAATAATATTTAAAA
1 TTTATCAAA-AATATTTAAAA
62378180 ACTATAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 8 0.44
21 4 0.22
22 6 0.33
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.41
Consensus pattern (21 bp):
TTTATCAAAAATATTTAAAAT
Found at i:62379509 original size:18 final size:18
Alignment explanation
Indices: 62379482--62379518 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
62379472 TATAGTTTGA
62379482 TATTCAAGTTATTCGAAT
1 TATTCAAGTTATTCGAAT
*
62379500 TATTCGAGTTATTCGAAT
1 TATTCAAGTTATTCGAAT
62379518 T
1 T
62379519 CGAAAACTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (18 bp):
TATTCAAGTTATTCGAAT
Found at i:62381338 original size:50 final size:50
Alignment explanation
Indices: 62381263--62381424 Score: 214
Period size: 50 Copynumber: 3.4 Consensus size: 50
62381253 TACACGAAAT
* *
62381263 CACTTATC-CTTTATCTCTTGTCACTGATAAGATAAGTGTAGCTAAGCTAC
1 CACTTATCAC-TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTAC
62381313 CACTTATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCT-A---A-
1 CACTTATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTAC
* *
62381358 -AC-TACCACTTATCACTTGTCACTGATCAGATAAGTGCAGCTAAAGCTAC
1 CACTTATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTAC
62381407 CACTTATCACTTATCACT
1 CACTTATCACTTATCACT
62381425 GATCAGAAGT
Statistics
Matches: 98, Mismatches: 5, Indels: 17
0.82 0.04 0.14
Matches are distributed among these distances:
43 37 0.38
44 2 0.02
45 1 0.01
46 1 0.01
48 1 0.01
49 1 0.01
50 41 0.42
51 14 0.14
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (50 bp):
CACTTATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTAC
Found at i:62381367 original size:43 final size:43
Alignment explanation
Indices: 62381273--62381431 Score: 201
Period size: 43 Copynumber: 3.5 Consensus size: 43
62381263 CACTTATCCT
* * *
62381273 TTATCTCTTGTCACTGATAAGATAAGTGTAGCTAAGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCT-A---A--AC-TACCAC
62381323 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAACTACCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAACTACCAC
*
62381366 TTATCACTTGTCACTGATCAGATAAGTGCAGCTAAAGCTACCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAA-CTACCAC
*
62381410 TTATCACTTATCACTGATCAGA
1 TTATCACTTGTCACTGATCAGA
62381432 AGTACTCAAA
Statistics
Matches: 103, Mismatches: 5, Indels: 8
0.89 0.04 0.07
Matches are distributed among these distances:
43 40 0.39
44 30 0.29
46 1 0.01
49 1 0.01
50 31 0.30
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.31
Consensus pattern (43 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAACTACCAC
Found at i:62384347 original size:50 final size:50
Alignment explanation
Indices: 62384272--62384564 Score: 388
Period size: 50 Copynumber: 5.8 Consensus size: 50
62384262 ATTTAGGTAA
* *
62384272 AGAGGTCCTATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* **
62384322 AGAGGTCCCATGTAAGAACATGTCTGGGACATGGTTTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * *
62384372 AGAGGTCCCATATAAGACCATGTCCGGGACATGGCATTGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * * *
62384422 AGAGGTCCCATGTGAGACCATGTTTGGGACATGGCGTTGGTATCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * *
62384472 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * *
62384522 AGAACATCCCATGTAAAACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
62384565 TGTTATTATC
Statistics
Matches: 207, Mismatches: 35, Indels: 1
0.85 0.14 0.00
Matches are distributed among these distances:
50 174 0.84
51 33 0.16
ACGTcount: A:0.26, C:0.22, G:0.31, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:62387107 original size:237 final size:237
Alignment explanation
Indices: 62386692--62387163 Score: 865
Period size: 237 Copynumber: 2.0 Consensus size: 237
62386682 AAAGCTTGCG
62386692 ATGAATGACAACTTCCAACAAGTTTCCCTTTTCATTCATCAGCTCAAACACACAAACGTCTCCCA
1 ATGAATGACAACTTCCAACAAGTTTCCCTTTTCATTCATCAGCTCAAACACACAAACGTCTCCCA
* * * *
62386757 CCTCGAATTCATTGTCCATCGCAAATTGTCCCCAACTCTTACCCCCAAACACTGTTTTTCTACCT
66 CCTCAAATTCATTGTCCATCGCAAATAGTCCCCAACTCTTACCCCCAAACACTGCTTTTCTACAT
*
62386822 TTACTCCTTCCTCTTCTTTCATACTCAACTTTCCAACTCCTCCCATCCGCAACTCTTAGTTCCAT
131 TTACTCCTTCCTCTTCTTTCATACTCAACTTTCCAACTCCTCCCATCCGCAACTCTCAGTTCCAT
*
62386887 TGAATAAATACACAAAATCATCAAACAGTTCCAATTTGGACA
196 TGAATAAATACACAAAATCATCAAACAATTCCAATTTGGACA
62386929 ATGAATGACAACTTCCAACAAG-TTCCCATTTTCATTCATCAGCTCAAACACACAAACGTCTCCC
1 ATGAATGACAACTTCCAACAAGTTTCCC-TTTTCATTCATCAGCTCAAACACACAAACGTCTCCC
*
62386993 ACCTCAAATTCATTGTCCATCGCAAATAGTCCCGAACTCTTACCCCCAAACACTGCTTTTCTACA
65 ACCTCAAATTCATTGTCCATCGCAAATAGTCCCCAACTCTTACCCCCAAACACTGCTTTTCTACA
62387058 TTTACTCCTTCCTCTTCTTTCATACTCAACTTTCCAACTCCTCCCATCCGCAACTCTCAGTTCCA
130 TTTACTCCTTCCTCTTCTTTCATACTCAACTTTCCAACTCCTCCCATCCGCAACTCTCAGTTCCA
62387123 TTGAATAAATACACAAAATCATCAAACAATTCCAATTTGGA
195 TTGAATAAATACACAAAATCATCAAACAATTCCAATTTGGA
62387164 TTGAAATACT
Statistics
Matches: 227, Mismatches: 7, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
236 5 0.02
237 222 0.98
ACGTcount: A:0.30, C:0.33, G:0.07, T:0.30
Consensus pattern (237 bp):
ATGAATGACAACTTCCAACAAGTTTCCCTTTTCATTCATCAGCTCAAACACACAAACGTCTCCCA
CCTCAAATTCATTGTCCATCGCAAATAGTCCCCAACTCTTACCCCCAAACACTGCTTTTCTACAT
TTACTCCTTCCTCTTCTTTCATACTCAACTTTCCAACTCCTCCCATCCGCAACTCTCAGTTCCAT
TGAATAAATACACAAAATCATCAAACAATTCCAATTTGGACA
Found at i:62387433 original size:282 final size:282
Alignment explanation
Indices: 62386929--62388486 Score: 2058
Period size: 282 Copynumber: 5.7 Consensus size: 282
62386919 AATTTGGACA
*
62386929 ATGAATGACAACTTCCAACAAGTTCCCATTTTCATTCATCAGCTCAAACACACAAACGTCTCCCA
1 ATGAATGACAACTTCCAACAAGTTTCCATTTTCATTCATCAGCTCAAACACACAAACGTCTCCCA
* * *
62386994 CCTCAAATTCATTGTCCATCGCAAATAGTCCCGAACTCTTACCCCCAAACACTGCTTTTCTACAT
66 CCTCGAATTCATTGTCCATCGCAAATTGTCCCCAACTCTTACCCCCAAACACTGCTTTTCTACAT
62387059 TTACTCCTTCCTCTTCTTTCATACTCAACTTTCCAACTCCTCCCATCCGCAACTCTCAGTTCCAT
131 TTACTCCTTCCTCTTCTTTCATACTCAACTTTCCAACTCCTCCCATCCGCAACTCTCAGTTCCAT
62387124 TGAATAAATACACAAAATCATCAAACAATTCCAATTTGGATTGAAATACTTGACAACTTAATTAA
196 TGAATAAATACACAAAATCATCAAACAATTCCAATTTGGATTGAAATACTTGACAACTTAATTAA
62387189 TTTCGACGAGTAAAAGCTTGCG
261 TTTCGACGAGTAAAAGCTTGCG
62387211 ATGAATGACAACTTCCAACAAGTTTCCATTTTCATTCATCAGCTCAAACACACAAACGTCTCCCA
1 ATGAATGACAACTTCCAACAAGTTTCCATTTTCATTCATCAGCTCAAACACACAAACGTCTCCCA
62387276 CCTCGAATTCATTGTCCATCGCAAATTGTCCCCAACTCTTACCCCCAAACACTGCTTTTCTACAT
66 CCTCGAATTCATTGTCCATCGCAAATTGTCCCCAACTCTTACCCCCAAACACTGCTTTTCTACAT
*
62387341 TTACTCCTTCCACTTCTTTCATACTCAACTTTCCAACTCCTCCCATCCGCAACTCTCAGTTCCAT
131 TTACTCCTTCCTCTTCTTTCATACTCAACTTTCCAACTCCTCCCATCCGCAACTCTCAGTTCCAT
62387406 TGAATAAATACACAAAATCATCAAACAATTCCAATTTGGATTGAAATACTTGACAACTTAATTAA
196 TGAATAAATACACAAAATCATCAAACAATTCCAATTTGGATTGAAATACTTGACAACTTAATTAA
62387471 TTTCGACGAGTAAAAGCTTGCG
261 TTTCGACGAGTAAAAGCTTGCG
62387493 ATGAATGACAACTTCCAACAAGTTTCCATTTTCATTCATCAGCTCAAACACACAAACGTCTCCCA
1 ATGAATGACAACTTCCAACAAGTTTCCATTTTCATTCATCAGCTCAAACACACAAACGTCTCCCA
*
62387558 CCTCGAATTCATTGTCCATCGCAAATTGTCCCCAACTCTTACCCCCAAACACTGCTTTTCTACCT
66 CCTCGAATTCATTGTCCATCGCAAATTGTCCCCAACTCTTACCCCCAAACACTGCTTTTCTACAT
* *
62387623 TTACTCCTTCCTCTTCTTTCATACTCAACTTTCCAACTCCTCCTATCCGCAACTCTTAGTTCCAT
131 TTACTCCTTCCTCTTCTTTCATACTCAACTTTCCAACTCCTCCCATCCGCAACTCTCAGTTCCAT
* * *
62387688 TGAATAAATACACAAAATCATCAAACAGTTCCAATTTGGA---CAATGA-ATGACAACTTCCAA-
196 TGAATAAATACACAAAATCATCAAACAATTCCAATTTGGATTGAAAT-ACTTGACAACTT--AAT
* * * * ***
62387748 CAAGTTC--CCATTTTCA--TT-C-
258 TAATTTCGACGAGTAAAAGCTTGCG
* * * * * * ** * * * * **
62387767 ATCAGCTCA-AAC-ACACAA-ACGTCTCCCA-CCTCAAATTCAT-TG-TCCATCGCA-AATTGTC
1 ATGA-ATGACAACTTC-CAACAAGT-TTCCATTTTC--ATTCATCAGCTCAAACACACAAACGTC
* *** * * *** * ** * **
62387825 -CCCAACTC---TT-A-CCCCCAAACACTGCTTTTCTAC-A-T-TTA-CTCC-TTC-CT-CTTCT
61 TCCCACCTCGAATTCATTGTCC-ATCGCAAATTGTCCCCAACTCTTACCCCCAAACACTGCTT-T
** * * * ** *
62387877 T-T-CA--TACT-C-AACT-TTC---CA-ACTC--C-TCCCATCCGCAACTC-----------TC
124 TCTACATTTACTCCTTCCTCTTCTTTCATACTCAACTTTCCA-ACTCCTCCCATCCGCAACTCTC
62387917 AGTTCCATTGAATAAATACACAAAATCATCAAACAATTCCAATTTGGATTGAAATACTTGACAAC
188 AGTTCCATTGAATAAATACACAAAATCATCAAACAATTCCAATTTGGATTGAAATACTTGACAAC
62387982 TTAATTAATTTCGACGAGTAAAAGCTTGCG
253 TTAATTAATTTCGACGAGTAAAAGCTTGCG
62388012 ATGAATGACAACTTCCAACAAGTTTCCATTTTCATTCATCAGCTCAAACACACAAACGTCTCCCA
1 ATGAATGACAACTTCCAACAAGTTTCCATTTTCATTCATCAGCTCAAACACACAAACGTCTCCCA
62388077 CCTCGAATTCATTGTCCATCGCAAATTGTCCCCAACTCTTACCCCCAAACACTGCTTTTCTACCT
66 CCTCGAATTCATTGTCCATCGCAAATTGTCCCCAACTCTTACCCCCAAACACTGCTTTTCTA-C-
* *
62388142 TTACTTACTCCTTCCTCTTCTTTCATACTCAACTTTCCAACTCCTCCCATCTGCAACTCTCAGTT
129 --ATTTACTCCTTCCTCTTCTTTCATACTCAACTTTCCAACTCCTCCCATCCGCAACTCTCAGTT
*
62388207 CCATTGAATAAATACACAAAATCATCAAACAGTTCCAATTTGGATTGAAATACTTGACAACTTAA
192 CCATTGAATAAATACACAAAATCATCAAACAATTCCAATTTGGATTGAAATACTTGACAACTTAA
62388272 TTAATTTCGACGAGTAAAAGCTTGCG
257 TTAATTTCGACGAGTAAAAGCTTGCG
62388298 ATGAATGACAACTTCCAACAAGTTTCCATTTTCATTCATCAGCTCAAACACACAAACGTCTCCCA
1 ATGAATGACAACTTCCAACAAGTTTCCATTTTCATTCATCAGCTCAAACACACAAACGTCTCCCA
*
62388363 CCTCGAATTCATTGTCCATCGCAAATTGTCCCCAACTCTTACCCCCAAACACTGCTTTTCTACCT
66 CCTCGAATTCATTGTCCATCGCAAATTGTCCCCAACTCTTACCCCCAAACACTGCTTTTCTACAT
62388428 TTACTCCTTCCTCTTCTTTCATACTCAACTTTCCAACTCCTCCCATCCGCAACTCTCAG
131 TTACTCCTTCCTCTTCTTTCATACTCAACTTTCCAACTCCTCCCATCCGCAACTCTCAG
62388487 CATCATTTCT
Statistics
Matches: 1095, Mismatches: 110, Indels: 142
0.81 0.08 0.11
Matches are distributed among these distances:
237 48 0.04
238 2 0.00
239 6 0.01
240 12 0.01
241 4 0.00
243 2 0.00
244 9 0.01
245 14 0.01
246 12 0.01
247 9 0.01
248 11 0.01
250 4 0.00
251 4 0.00
252 9 0.01
253 3 0.00
254 4 0.00
255 5 0.00
256 4 0.00
257 5 0.00
258 4 0.00
259 5 0.00
260 4 0.00
261 5 0.00
262 1 0.00
263 3 0.00
264 4 0.00
265 1 0.00
266 7 0.01
267 10 0.01
268 4 0.00
269 3 0.00
271 7 0.01
272 7 0.01
273 16 0.01
274 14 0.01
275 14 0.01
276 6 0.01
278 4 0.00
279 12 0.01
280 6 0.01
281 2 0.00
282 565 0.52
285 1 0.00
286 223 0.20
ACGTcount: A:0.30, C:0.31, G:0.08, T:0.30
Consensus pattern (282 bp):
ATGAATGACAACTTCCAACAAGTTTCCATTTTCATTCATCAGCTCAAACACACAAACGTCTCCCA
CCTCGAATTCATTGTCCATCGCAAATTGTCCCCAACTCTTACCCCCAAACACTGCTTTTCTACAT
TTACTCCTTCCTCTTCTTTCATACTCAACTTTCCAACTCCTCCCATCCGCAACTCTCAGTTCCAT
TGAATAAATACACAAAATCATCAAACAATTCCAATTTGGATTGAAATACTTGACAACTTAATTAA
TTTCGACGAGTAAAAGCTTGCG
Found at i:62387736 original size:519 final size:521
Alignment explanation
Indices: 62387211--62388250 Score: 1994
Period size: 519 Copynumber: 2.0 Consensus size: 521
62387201 AAAGCTTGCG
*
62387211 ATGAATGACAACTTCCAACAAGTTTCCATTTTCATTCATCAGCTCAAACACACAAACGTCTCCCA
1 ATGAATGACAACTTCCAACAAGTTCCCATTTTCATTCATCAGCTCAAACACACAAACGTCTCCCA
*
62387276 CCTCGAATTCATTGTCCATCGCAAATTGTCCCCAACTCTTACCCCCAAACACTGCTTTTCTACAT
66 CCTCAAATTCATTGTCCATCGCAAATTGTCCCCAACTCTTACCCCCAAACACTGCTTTTCTACAT
62387341 TTACTCCTTCCACTTCTTTCATACTCAACTTTCCAACTCCTCCCATCCGCAACTCTCAGTTCCAT
131 TTACTCCTTCCACTTCTTTCATACTCAACTTTCCAACTCCTCCCATCCGCAACTCTCAGTTCCAT
62387406 TGAATAAATACACAAAATCATCAAACAATTCCAATTTGGATTGAAATACTTGACAACTTAATTAA
196 TGAATAAATACACAAAATCATCAAACAATTCCAATTTGGATTGAAATACTTGACAACTTAATTAA
62387471 TTTCGACGAGTAAAAGCTTGCGATGAATGACAACTTCCAACAAGTTTCCATTTTCATTCATCAGC
261 TTTCGACGAGTAAAAGCTTGCGATGAATGACAACTTCCAACAAGTTTCCATTTTCATTCATCAGC
62387536 TCAAACACACAAACGTCTCCCACCTCGAATTCATTGTCCATCGCAAATTGTCCCCAACTCTTACC
326 TCAAACACACAAACGTCTCCCACCTCGAATTCATTGTCCATCGCAAATTGTCCCCAACTCTTACC
62387601 CCCAAACACTGCTTTTCTACC-T-TTACTCCTTCCTCTTCTTTCATACTCAACTTTCCAACTCCT
391 CCCAAACACTGCTTTTCTACCTTATTACTCCTTCCTCTTCTTTCATACTCAACTTTCCAACTCCT
* *
62387664 CCTATCCGCAACTCTTAGTTCCATTGAATAAATACACAAAATCATCAAACAGTTCCAATTTGGAC
456 CCCATCCGCAACTCTCAGTTCCATTGAATAAATACACAAAATCATCAAACAGTTCCAATTTGGAC
62387729 A
521 A
62387730 ATGAATGACAACTTCCAACAAGTTCCCATTTTCATTCATCAGCTCAAACACACAAACGTCTCCCA
1 ATGAATGACAACTTCCAACAAGTTCCCATTTTCATTCATCAGCTCAAACACACAAACGTCTCCCA
62387795 CCTCAAATTCATTGTCCATCGCAAATTGTCCCCAACTCTTACCCCCAAACACTGCTTTTCTACAT
66 CCTCAAATTCATTGTCCATCGCAAATTGTCCCCAACTCTTACCCCCAAACACTGCTTTTCTACAT
*
62387860 TTACTCCTTCCTCTTCTTTCATACTCAACTTTCCAACTCCTCCCATCCGCAACTCTCAGTTCCAT
131 TTACTCCTTCCACTTCTTTCATACTCAACTTTCCAACTCCTCCCATCCGCAACTCTCAGTTCCAT
62387925 TGAATAAATACACAAAATCATCAAACAATTCCAATTTGGATTGAAATACTTGACAACTTAATTAA
196 TGAATAAATACACAAAATCATCAAACAATTCCAATTTGGATTGAAATACTTGACAACTTAATTAA
62387990 TTTCGACGAGTAAAAGCTTGCGATGAATGACAACTTCCAACAAGTTTCCATTTTCATTCATCAGC
261 TTTCGACGAGTAAAAGCTTGCGATGAATGACAACTTCCAACAAGTTTCCATTTTCATTCATCAGC
62388055 TCAAACACACAAACGTCTCCCACCTCGAATTCATTGTCCATCGCAAATTGTCCCCAACTCTTACC
326 TCAAACACACAAACGTCTCCCACCTCGAATTCATTGTCCATCGCAAATTGTCCCCAACTCTTACC
62388120 CCCAAACACTGCTTTTCTACCTTTACTTACTCCTTCCTCTTCTTTCATACTCAACTTTCCAACTC
391 CCCAAACACTGCTTTTCTACC-TTA-TTACTCCTTCCTCTTCTTTCATACTCAACTTTCCAACTC
*
62388185 CTCCCATCTGCAACTCTCAGTTCCATTGAATAAATACACAAAATCATCAAACAGTTCCAATTTGG
454 CTCCCATCCGCAACTCTCAGTTCCATTGAATAAATACACAAAATCATCAAACAGTTCCAATTTGG
62388250 A
519 A
62388251 TTGAAATACT
Statistics
Matches: 511, Mismatches: 6, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
519 408 0.80
521 1 0.00
523 102 0.20
ACGTcount: A:0.31, C:0.32, G:0.07, T:0.30
Consensus pattern (521 bp):
ATGAATGACAACTTCCAACAAGTTCCCATTTTCATTCATCAGCTCAAACACACAAACGTCTCCCA
CCTCAAATTCATTGTCCATCGCAAATTGTCCCCAACTCTTACCCCCAAACACTGCTTTTCTACAT
TTACTCCTTCCACTTCTTTCATACTCAACTTTCCAACTCCTCCCATCCGCAACTCTCAGTTCCAT
TGAATAAATACACAAAATCATCAAACAATTCCAATTTGGATTGAAATACTTGACAACTTAATTAA
TTTCGACGAGTAAAAGCTTGCGATGAATGACAACTTCCAACAAGTTTCCATTTTCATTCATCAGC
TCAAACACACAAACGTCTCCCACCTCGAATTCATTGTCCATCGCAAATTGTCCCCAACTCTTACC
CCCAAACACTGCTTTTCTACCTTATTACTCCTTCCTCTTCTTTCATACTCAACTTTCCAACTCCT
CCCATCCGCAACTCTCAGTTCCATTGAATAAATACACAAAATCATCAAACAGTTCCAATTTGGAC
A
Found at i:62387910 original size:237 final size:237
Alignment explanation
Indices: 62387493--62387964 Score: 890
Period size: 237 Copynumber: 2.0 Consensus size: 237
62387483 AAAGCTTGCG
*
62387493 ATGAATGACAACTTCCAACAAGTTTCCATTTTCATTCATCAGCTCAAACACACAAACGTCTCCCA
1 ATGAATGACAACTTCCAACAAGTTCCCATTTTCATTCATCAGCTCAAACACACAAACGTCTCCCA
* *
62387558 CCTCGAATTCATTGTCCATCGCAAATTGTCCCCAACTCTTACCCCCAAACACTGCTTTTCTACCT
66 CCTCAAATTCATTGTCCATCGCAAATTGTCCCCAACTCTTACCCCCAAACACTGCTTTTCTACAT
* *
62387623 TTACTCCTTCCTCTTCTTTCATACTCAACTTTCCAACTCCTCCTATCCGCAACTCTTAGTTCCAT
131 TTACTCCTTCCTCTTCTTTCATACTCAACTTTCCAACTCCTCCCATCCGCAACTCTCAGTTCCAT
*
62387688 TGAATAAATACACAAAATCATCAAACAGTTCCAATTTGGACA
196 TGAATAAATACACAAAATCATCAAACAATTCCAATTTGGACA
62387730 ATGAATGACAACTTCCAACAAGTTCCCATTTTCATTCATCAGCTCAAACACACAAACGTCTCCCA
1 ATGAATGACAACTTCCAACAAGTTCCCATTTTCATTCATCAGCTCAAACACACAAACGTCTCCCA
62387795 CCTCAAATTCATTGTCCATCGCAAATTGTCCCCAACTCTTACCCCCAAACACTGCTTTTCTACAT
66 CCTCAAATTCATTGTCCATCGCAAATTGTCCCCAACTCTTACCCCCAAACACTGCTTTTCTACAT
62387860 TTACTCCTTCCTCTTCTTTCATACTCAACTTTCCAACTCCTCCCATCCGCAACTCTCAGTTCCAT
131 TTACTCCTTCCTCTTCTTTCATACTCAACTTTCCAACTCCTCCCATCCGCAACTCTCAGTTCCAT
62387925 TGAATAAATACACAAAATCATCAAACAATTCCAATTTGGA
196 TGAATAAATACACAAAATCATCAAACAATTCCAATTTGGA
62387965 TTGAAATACT
Statistics
Matches: 229, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
237 229 1.00
ACGTcount: A:0.30, C:0.33, G:0.06, T:0.30
Consensus pattern (237 bp):
ATGAATGACAACTTCCAACAAGTTCCCATTTTCATTCATCAGCTCAAACACACAAACGTCTCCCA
CCTCAAATTCATTGTCCATCGCAAATTGTCCCCAACTCTTACCCCCAAACACTGCTTTTCTACAT
TTACTCCTTCCTCTTCTTTCATACTCAACTTTCCAACTCCTCCCATCCGCAACTCTCAGTTCCAT
TGAATAAATACACAAAATCATCAAACAATTCCAATTTGGACA
Found at i:62388273 original size:286 final size:283
Alignment explanation
Indices: 62387730--62388486 Score: 1428
Period size: 286 Copynumber: 2.7 Consensus size: 283
62387720 AATTTGGACA
*
62387730 ATGAATGACAACTTCCAACAAGTTCCCATTTTCATTCATCAGCTCAAACACACAAACGTCTCCCA
1 ATGAATGACAACTTCCAACAAGTTTCCATTTTCATTCATCAGCTCAAACACACAAACGTCTCCCA
* *
62387795 CCTCAAATTCATTGTCCATCGCAAATTGTCCCCAACTCTTACCCCCAAACACTGCTTTTCTACAT
66 CCTCGAATTCATTGTCCATCGCAAATTGTCCCCAACTCTTACCCCCAAACACTGCTTTTCTACCT
62387860 -TTACTCCTTCCTCTTCTTTCATACTCAACTTTCCAACTCCTCCCATCCGCAACTCTCAGTTCCA
131 ATTACTCCTTCCTCTTCTTTCATACTCAACTTTCCAACTCCTCCCATCCGCAACTCTCAGTTCCA
62387924 TTGAATAAATACACAAAATCATCAAACAATTCCAATTTGGATTGAAATACTTGACAACTTAATTA
196 TTGAATAAATACACAAAATCATCAAACAATTCCAATTTGGATTGAAATACTTGACAACTTAATTA
62387989 ATTTCGACGAGTAAAAGCTTGCG
261 ATTTCGACGAGTAAAAGCTTGCG
62388012 ATGAATGACAACTTCCAACAAGTTTCCATTTTCATTCATCAGCTCAAACACACAAACGTCTCCCA
1 ATGAATGACAACTTCCAACAAGTTTCCATTTTCATTCATCAGCTCAAACACACAAACGTCTCCCA
62388077 CCTCGAATTCATTGTCCATCGCAAATTGTCCCCAACTCTTACCCCCAAACACTGCTTTTCTACCT
66 CCTCGAATTCATTGTCCATCGCAAATTGTCCCCAACTCTTACCCCCAAACACTGCTTTTCTACC-
*
62388142 TTACTTACTCCTTCCTCTTCTTTCATACTCAACTTTCCAACTCCTCCCATCTGCAACTCTCAGTT
130 -TA-TTACTCCTTCCTCTTCTTTCATACTCAACTTTCCAACTCCTCCCATCCGCAACTCTCAGTT
*
62388207 CCATTGAATAAATACACAAAATCATCAAACAGTTCCAATTTGGATTGAAATACTTGACAACTTAA
193 CCATTGAATAAATACACAAAATCATCAAACAATTCCAATTTGGATTGAAATACTTGACAACTTAA
62388272 TTAATTTCGACGAGTAAAAGCTTGCG
258 TTAATTTCGACGAGTAAAAGCTTGCG
62388298 ATGAATGACAACTTCCAACAAGTTTCCATTTTCATTCATCAGCTCAAACACACAAACGTCTCCCA
1 ATGAATGACAACTTCCAACAAGTTTCCATTTTCATTCATCAGCTCAAACACACAAACGTCTCCCA
62388363 CCTCGAATTCATTGTCCATCGCAAATTGTCCCCAACTCTTACCCCCAAACACTGCTTTTCTACCT
66 CCTCGAATTCATTGTCCATCGCAAATTGTCCCCAACTCTTACCCCCAAACACTGCTTTTCTACCT
62388428 -TTACTCCTTCCTCTTCTTTCATACTCAACTTTCCAACTCCTCCCATCCGCAACTCTCAG
131 ATTACTCCTTCCTCTTCTTTCATACTCAACTTTCCAACTCCTCCCATCCGCAACTCTCAG
62388487 CATCATTTCT
Statistics
Matches: 465, Mismatches: 6, Indels: 8
0.97 0.01 0.02
Matches are distributed among these distances:
282 184 0.40
284 2 0.00
286 279 0.60
ACGTcount: A:0.30, C:0.32, G:0.08, T:0.31
Consensus pattern (283 bp):
ATGAATGACAACTTCCAACAAGTTTCCATTTTCATTCATCAGCTCAAACACACAAACGTCTCCCA
CCTCGAATTCATTGTCCATCGCAAATTGTCCCCAACTCTTACCCCCAAACACTGCTTTTCTACCT
ATTACTCCTTCCTCTTCTTTCATACTCAACTTTCCAACTCCTCCCATCCGCAACTCTCAGTTCCA
TTGAATAAATACACAAAATCATCAAACAATTCCAATTTGGATTGAAATACTTGACAACTTAATTA
ATTTCGACGAGTAAAAGCTTGCG
Found at i:62394776 original size:208 final size:207
Alignment explanation
Indices: 62394418--62394837 Score: 732
Period size: 208 Copynumber: 2.0 Consensus size: 207
62394408 TCATTGGCCA
* *
62394418 AAAGCCTAACATGGCCCAAATCTAACCAAACTCTAGCCCAACAAAAATTTTCAGCAAAACCTAGT
1 AAAGCCTAACATGGACCAAATCTAACCAAACCCTAGCCCAACAAAAATTTTCAGCAAAACCTAGT
**
62394483 TGCCTCCCCCAAACCCTAGTCCCCATGTACGTTGCTCCTCCTTGGGCGCACCACCCGCACCTCAT
66 TGCCTCCCCCAAACCCTAGTCCCCATGTACGCCGCTCCTCCTTGGGCGCACCACCCGCACCTCAT
*
62394548 CCCGAGGTCTGACCTCCCTCTGTTGACCACGCCTAACCTGCAAAGAAATAATAAAAATGGCAGCA
131 CCCGAGGTCTGACCTCCCTCTGTTGACCACGCCTAACCTGC-AAGAAATAATAAAAATGACAGCA
62394613 ACAACAGTGGCAG
195 ACAACAGTGGCAG
62394626 AAAGCCTAACATGGACCAAATCTAACCAAACCCTAGCCCAACAAAAATTTTCAGCAAAACCTAGT
1 AAAGCCTAACATGGACCAAATCTAACCAAACCCTAGCCCAACAAAAATTTTCAGCAAAACCTAGT
* * * *
62394691 TGCCTCCCTCAAACCCTAGTCCCCATGTACGCCGCTCCTCCTTGGGCGCACCTCCCGCGCCTCGT
66 TGCCTCCCCCAAACCCTAGTCCCCATGTACGCCGCTCCTCCTTGGGCGCACCACCCGCACCTCAT
* *
62394756 CCCGAGGTCTGGCCTCCCTCTGTTGACCACGCCTAACCTGCGAGAAATAATAAAAATGACAGCAA
131 CCCGAGGTCTGACCTCCCTCTGTTGACCACGCCTAACCTGCAAGAAATAATAAAAATGACAGCAA
62394821 CAACAGTGGCAG
196 CAACAGTGGCAG
62394833 AAAGC
1 AAAGC
62394838 AAGAACACAC
Statistics
Matches: 201, Mismatches: 11, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
207 39 0.19
208 162 0.81
ACGTcount: A:0.30, C:0.35, G:0.16, T:0.18
Consensus pattern (207 bp):
AAAGCCTAACATGGACCAAATCTAACCAAACCCTAGCCCAACAAAAATTTTCAGCAAAACCTAGT
TGCCTCCCCCAAACCCTAGTCCCCATGTACGCCGCTCCTCCTTGGGCGCACCACCCGCACCTCAT
CCCGAGGTCTGACCTCCCTCTGTTGACCACGCCTAACCTGCAAGAAATAATAAAAATGACAGCAA
CAACAGTGGCAG
Found at i:62396037 original size:9 final size:9
Alignment explanation
Indices: 62396020--62396059 Score: 55
Period size: 9 Copynumber: 4.6 Consensus size: 9
62396010 TACTATGTAA
*
62396020 TTTAAATTG
1 TTTATATTG
62396029 TTTATATTG
1 TTTATATTG
*
62396038 TTTAT-TTC
1 TTTATATTG
62396046 TTTATATTG
1 TTTATATTG
62396055 TTTAT
1 TTTAT
62396060 TTCAAAACTG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
8 7 0.26
9 20 0.74
ACGTcount: A:0.23, C:0.03, G:0.07, T:0.68
Consensus pattern (9 bp):
TTTATATTG
Found at i:62396051 original size:17 final size:17
Alignment explanation
Indices: 62396029--62396062 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
62396019 ATTTAAATTG
62396029 TTTATATTGTTTATTTC
1 TTTATATTGTTTATTTC
62396046 TTTATATTGTTTATTTC
1 TTTATATTGTTTATTTC
62396063 AAAACTGTTT
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:0.18, C:0.06, G:0.06, T:0.71
Consensus pattern (17 bp):
TTTATATTGTTTATTTC
Found at i:62410057 original size:24 final size:24
Alignment explanation
Indices: 62410025--62410072 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
62410015 AATTGAAAAA
*
62410025 GATTAAAAAGTTGTCCTTGCTCTT
1 GATTAAAAAGTTGTCCGTGCTCTT
62410049 GATTAAAAAGTTGTCCGTGCTCTT
1 GATTAAAAAGTTGTCCGTGCTCTT
62410073 TCTCCGCTTT
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:0.25, C:0.17, G:0.19, T:0.40
Consensus pattern (24 bp):
GATTAAAAAGTTGTCCGTGCTCTT
Found at i:62419135 original size:21 final size:20
Alignment explanation
Indices: 62419087--62419135 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
62419077 ACAATTTTAT
62419087 ATGATAATTAAAAAAATTAAA
1 ATGA-AATTAAAAAAATTAAA
*
62419108 ATCAAATTGAAAAAAA-TAGAA
1 ATGAAATT-AAAAAAATTA-AA
62419129 ATGAAAT
1 ATGAAAT
62419136 GTTACATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 6 0.25
21 18 0.75
ACGTcount: A:0.65, C:0.02, G:0.08, T:0.24
Consensus pattern (20 bp):
ATGAAATTAAAAAAATTAAA
Found at i:62422362 original size:5 final size:5
Alignment explanation
Indices: 62422352--62422376 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
62422342 ATGCAATTAG
62422352 TTTAT TTTAT TTTAT TTTAT TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT
62422377 AGAGTAGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTAT
Found at i:62426476 original size:29 final size:28
Alignment explanation
Indices: 62426418--62426478 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
62426408 TTTTGGGATT
* *
62426418 AAATTTTAGGGTTTAATATAAGTTTTAA
1 AAATTTTAGAGTTTAATAGAAGTTTTAA
*
62426446 AAATTTTACGAGTTTAATGGAA-TTTTAA
1 AAATTTTA-GAGTTTAATAGAAGTTTTAA
62426474 AAATT
1 AAATT
62426479 AGGGGTCTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 19 0.66
29 10 0.34
ACGTcount: A:0.41, C:0.02, G:0.13, T:0.44
Consensus pattern (28 bp):
AAATTTTAGAGTTTAATAGAAGTTTTAA
Found at i:62427630 original size:48 final size:48
Alignment explanation
Indices: 62427559--62427650 Score: 123
Period size: 48 Copynumber: 1.9 Consensus size: 48
62427549 CTTTTATATA
* * * * *
62427559 TATTAGTTATAATGTTATATGCGTTGTACGTGGTTTTATGTGTATTTC
1 TATTAGTTATAATGTTACATGCGTCGTACATGATTTTATCTGTATTTC
62427607 TATTAGTT-TCAATGTTACATGCGTCGTACATGATTTTATCTGTA
1 TATTAGTTAT-AATGTTACATGCGTCGTACATGATTTTATCTGTA
62427651 ACTTTTAATT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
47 1 0.03
48 37 0.97
ACGTcount: A:0.23, C:0.10, G:0.18, T:0.49
Consensus pattern (48 bp):
TATTAGTTATAATGTTACATGCGTCGTACATGATTTTATCTGTATTTC
Found at i:62431142 original size:19 final size:18
Alignment explanation
Indices: 62431115--62431160 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 18
62431105 ACAAATATAT
* *
62431115 ATATATATACAAATTCAAA
1 ATATTTATAAAAATTC-AA
*
62431134 ATATTTATAAAAATTCTA
1 ATATTTATAAAAATTCAA
62431152 ATATTTATA
1 ATATTTATA
62431161 TTTTAAAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
18 10 0.42
19 14 0.58
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (18 bp):
ATATTTATAAAAATTCAA
Found at i:62449093 original size:3 final size:3
Alignment explanation
Indices: 62449085--62449114 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
62449075 CGGTGTTAAC
62449085 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
62449115 CGAACCCTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:62454497 original size:3 final size:3
Alignment explanation
Indices: 62454489--62454530 Score: 59
Period size: 3 Copynumber: 14.0 Consensus size: 3
62454479 CACCGGCCTT
*
62454489 TCC TCC TCC TTCC TCC T-C TCC CCC TCC TCC TCC TCC TCC TCC
1 TCC TCC TCC -TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC
62454531 AAAAAATTCC
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
3 30 0.86
4 3 0.09
ACGTcount: A:0.00, C:0.67, G:0.00, T:0.33
Consensus pattern (3 bp):
TCC
Found at i:62456570 original size:16 final size:16
Alignment explanation
Indices: 62456549--62456582 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
62456539 GGCCATGCTA
62456549 TATAATGGGTTACTAT
1 TATAATGGGTTACTAT
62456565 TATAATGGGTTACTAT
1 TATAATGGGTTACTAT
62456581 TA
1 TA
62456583 ACTTATTATT
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:0.32, C:0.06, G:0.18, T:0.44
Consensus pattern (16 bp):
TATAATGGGTTACTAT
Found at i:62457365 original size:6 final size:6
Alignment explanation
Indices: 62457351--62457381 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
62457341 AGGTTGTCTT
62457351 GGGGG- GGGGGC GGGGGC GGGGGC GGGGGC GG
1 GGGGGC GGGGGC GGGGGC GGGGGC GGGGGC GG
62457382 TTGGGCTGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.20
6 20 0.80
ACGTcount: A:0.00, C:0.13, G:0.87, T:0.00
Consensus pattern (6 bp):
GGGGGC
Found at i:62464188 original size:30 final size:31
Alignment explanation
Indices: 62464130--62464195 Score: 91
Period size: 30 Copynumber: 2.2 Consensus size: 31
62464120 CATCTTGATA
62464130 ACTTAAATAAAATTTTTTAAATAATTTAATG
1 ACTTAAATAAAATTTTTTAAATAATTTAATG
* * *
62464161 ACTTAAAT-AATTTTTTTTAATAGTTTAATG
1 ACTTAAATAAAATTTTTTAAATAATTTAATG
62464191 A-TTAA
1 ACTTAA
62464196 TTTATAACTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
29 4 0.12
30 20 0.62
31 8 0.25
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (31 bp):
ACTTAAATAAAATTTTTTAAATAATTTAATG
Found at i:62464425 original size:16 final size:17
Alignment explanation
Indices: 62464404--62464437 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
62464394 TTTTTTGCCA
*
62464404 AATTTGGC-TATCAAGT
1 AATTTGGCAAATCAAGT
62464420 AATTTGGCAAATCAAGT
1 AATTTGGCAAATCAAGT
62464437 A
1 A
62464438 GGGTGGCGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.32
Consensus pattern (17 bp):
AATTTGGCAAATCAAGT
Found at i:62494479 original size:61 final size:62
Alignment explanation
Indices: 62494352--62494487 Score: 152
Period size: 60 Copynumber: 2.2 Consensus size: 62
62494342 GGACCTAAAA
* * * *
62494352 TTTTTTTTGATCCAAGTTTAAGCCCTGAATTTGGTAATTCTTCTCACATTTGGGGCATGAAC
1 TTTTTTTTGATCCAAGTTTAAGCCATAAACTTGGCAATTCTTCTCACATTTGGGGCATGAAC
* * * * **
62494414 TTTTTTGT-ATCCAAG-TTAGGCCATAAACTTGGCAATTCTTTTTACA-TTGGGGTTTGAAC
1 TTTTTTTTGATCCAAGTTTAAGCCATAAACTTGGCAATTCTTCTCACATTTGGGGCATGAAC
*
62494473 TTTTTTTTGGTCCAA
1 TTTTTTTTGATCCAA
62494488 ATTAGTCCTT
Statistics
Matches: 61, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
59 18 0.30
60 29 0.48
61 7 0.11
62 7 0.11
ACGTcount: A:0.22, C:0.16, G:0.18, T:0.44
Consensus pattern (62 bp):
TTTTTTTTGATCCAAGTTTAAGCCATAAACTTGGCAATTCTTCTCACATTTGGGGCATGAAC
Found at i:62495150 original size:30 final size:29
Alignment explanation
Indices: 62495116--62495187 Score: 83
Period size: 29 Copynumber: 2.4 Consensus size: 29
62495106 GTCTTTGTAC
*
62495116 CTTTTATAGATTTGGAATTTAGTCTCTATA
1 CTTTTATAGATTT-GAATTTAGTCCCTATA
** *
62495146 CTTTTATTTATATGAATTTAGTCCCTATA
1 CTTTTATAGATTTGAATTTAGTCCCTATA
62495175 CATTTT-TAGATTT
1 C-TTTTATAGATTT
62495188 TAAAATTTAG
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
29 20 0.59
30 14 0.41
ACGTcount: A:0.26, C:0.11, G:0.10, T:0.53
Consensus pattern (29 bp):
CTTTTATAGATTTGAATTTAGTCCCTATA
Found at i:62503525 original size:31 final size:32
Alignment explanation
Indices: 62503479--62503545 Score: 82
Period size: 31 Copynumber: 2.1 Consensus size: 32
62503469 GTAATCACAT
* * *
62503479 GGACCAAAATTGAGAAAAGTTGTAAAGTTTAG
1 GGACCAAAATTGAGAAAACTTATAAAGTTCAG
* *
62503511 GGACC-AAGTTGAGAAAACTTATCAAGTTCAG
1 GGACCAAAATTGAGAAAACTTATAAAGTTCAG
62503542 GGAC
1 GGAC
62503546 TAAATGTTGC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
31 25 0.83
32 5 0.17
ACGTcount: A:0.40, C:0.12, G:0.25, T:0.22
Consensus pattern (32 bp):
GGACCAAAATTGAGAAAACTTATAAAGTTCAG
Found at i:62514192 original size:4 final size:4
Alignment explanation
Indices: 62514183--62514261 Score: 149
Period size: 4 Copynumber: 19.8 Consensus size: 4
62514173 TTGCGTGCAC
*
62514183 CATA CATA CATA CATA CATA CATA CATA CATA CATA CTTA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
62514231 CATA CATA CATA CATA CATA CATA CATA CAT
1 CATA CATA CATA CATA CATA CATA CATA CAT
62514262 GTAAAGAACT
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
4 73 1.00
ACGTcount: A:0.48, C:0.25, G:0.00, T:0.27
Consensus pattern (4 bp):
CATA
Found at i:62518916 original size:16 final size:15
Alignment explanation
Indices: 62518895--62518942 Score: 60
Period size: 16 Copynumber: 3.1 Consensus size: 15
62518885 GATGTGAATA
62518895 ATAAAATATATAAAAT
1 ATAAAATAT-TAAAAT
62518911 ATAAAATATTAAAAT
1 ATAAAATATTAAAAT
* *
62518926 ATCAAAACATTAGAAT
1 AT-AAAATATTAAAAT
62518942 A
1 A
62518943 ATAATAATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
15 8 0.28
16 21 0.72
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (15 bp):
ATAAAATATTAAAAT
Found at i:62518925 original size:8 final size:8
Alignment explanation
Indices: 62518891--62518942 Score: 52
Period size: 8 Copynumber: 6.5 Consensus size: 8
62518881 TAATGATGTG
*
62518891 AATAATAA
1 AATATTAA
62518899 AATATATAA
1 AATAT-TAA
62518908 AATA-TAA
1 AATATTAA
62518915 AATATTAA
1 AATATTAA
*
62518923 AATATCAA
1 AATATTAA
* *
62518931 AACATTAG
1 AATATTAA
62518939 AATA
1 AATA
62518943 ATAATAATTA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
7 7 0.19
8 22 0.61
9 7 0.19
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (8 bp):
AATATTAA
Found at i:62518942 original size:24 final size:24
Alignment explanation
Indices: 62518890--62518946 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
62518880 ATAATGATGT
62518890 GAATAATAAAATATATAAAATATA
1 GAATAATAAAATATATAAAATATA
* *
62518914 AAATATTAAAATATCA-AAACAT-TA
1 GAATAATAAAATAT-ATAAA-ATATA
62518938 GAATAATAA
1 GAATAATAA
62518947 TAATTAATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
24 24 0.89
25 3 0.11
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.28
Consensus pattern (24 bp):
GAATAATAAAATATATAAAATATA
Found at i:62519124 original size:25 final size:23
Alignment explanation
Indices: 62519096--62519158 Score: 76
Period size: 22 Copynumber: 2.7 Consensus size: 23
62519086 CGTGATAATA
62519096 TTAAAAATATGTACATAATATAGTG
1 TTAAAAATA--TACATAATATAGTG
62519121 TTAAAAATATACATAATATA--G
1 TTAAAAATATACATAATATAGTG
*
62519142 TTAAGATATATACATAA
1 TTAA-AAATATACATAA
62519159 GATAACATGT
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
21 5 0.14
22 11 0.31
23 11 0.31
25 9 0.25
ACGTcount: A:0.52, C:0.05, G:0.08, T:0.35
Consensus pattern (23 bp):
TTAAAAATATACATAATATAGTG
Found at i:62519207 original size:31 final size:31
Alignment explanation
Indices: 62519147--62519227 Score: 94
Period size: 31 Copynumber: 2.6 Consensus size: 31
62519137 TATAGTTAAG
* * *
62519147 ATATATACATAAGATAACATGTAAAATATAT
1 ATATATAAATAATATAATATGTAAAATATAT
62519178 ATATATAAATAATATAATAT-TAAAGATATAT
1 ATATATAAATAATATAATATGTAAA-ATATAT
* *
62519209 ACATA-AAATAGTATAATAT
1 ATATATAAATAATATAATAT
62519228 ATATACGTAA
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
30 17 0.39
31 27 0.61
ACGTcount: A:0.57, C:0.04, G:0.05, T:0.35
Consensus pattern (31 bp):
ATATATAAATAATATAATATGTAAAATATAT
Found at i:62519305 original size:23 final size:25
Alignment explanation
Indices: 62519262--62519307 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
62519252 TATACCTAAT
62519262 ATATTAAAAGAATATATATAATATA
1 ATATTAAAAGAATATATATAATATA
*
62519287 ATATTAAGA-AATATA-ATAATA
1 ATATTAAAAGAATATATATAATA
62519308 ACAAAAAAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (25 bp):
ATATTAAAAGAATATATATAATATA
Found at i:62519863 original size:30 final size:30
Alignment explanation
Indices: 62519837--62519967 Score: 235
Period size: 30 Copynumber: 4.4 Consensus size: 30
62519827 AATGGAGCAA
* *
62519837 GTGTGGCTAGTGGATTTGGTGGTGGAGAAG
1 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
62519867 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
1 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
*
62519897 GAGTGGCTAGTGGAGTTGGTGGTGGAAAAG
1 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
62519927 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
1 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
62519957 GTGTGGCTAGT
1 GTGTGGCTAGT
62519968 TGAGAAAAGT
Statistics
Matches: 97, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 97 1.00
ACGTcount: A:0.19, C:0.04, G:0.50, T:0.27
Consensus pattern (30 bp):
GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
Found at i:62520838 original size:76 final size:74
Alignment explanation
Indices: 62520680--62520854 Score: 262
Period size: 76 Copynumber: 2.3 Consensus size: 74
62520670 TGTGAACCCA
*
62520680 AGGCTCAACTCACATCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAATACCTCAG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAATACCTCAG
62520745 CGTGTCCTG
66 CGTGTCCTG
* * * *
62520754 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTAACAACAGAAA-TTGAAATTACCT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTGAAAAACAGAAATTTAAAAATACCT
*
62520818 CATCGTGTCCTG
63 CAGCGTGTCCTG
62520830 AGGCTCAACTCACCTCTCGCAATAT
1 AGGCTCAACTCACCTCTCGCAATAT
62520855 AAATTGAAAA
Statistics
Matches: 92, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
74 31 0.34
76 46 0.50
77 15 0.16
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.30
Consensus pattern (74 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAATACCTCAG
CGTGTCCTG
Found at i:62521004 original size:210 final size:205
Alignment explanation
Indices: 62520682--62521072 Score: 597
Period size: 210 Copynumber: 1.9 Consensus size: 205
62520672 TGAACCCAAG
* *
62520682 GCTCAACTCACATCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAATACCTCAGCG
1 GCTCAACTCACATCTCGCAATATGAGTTGATTTTTAAAAAACAGAAATTTAAAAATACCTCAGCA
*
62520747 TGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTAACAACAGAAATTGAAA
66 TGTCCTGAGGCTCAACTCACCTCTCGCAATATAAGTTGA-TTTTTTTTAA-AACAGAAATTGAAA
* *
62520812 TTACCTCATCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATAAATTGAAAAAAATACCACAGT
129 ATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATAAATTGAAAAAAATACCACAGT
62520877 GTGTAATCTGAA
194 GTGTAATCTGAA
*
62520889 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAAAAAAACAGAAA-TTAAAAATACCTCA
1 GCTCAACTCACATCTCGCAATATGAGTTGA-TTTTT--AAAAAACAGAAATTTAAAAATACCTCA
62520953 GCATGTAAACC-GAGGCTCAACTCACCTCTCGCAAATATAAGTTGATTTTTTTTAAAACAGAAAT
63 GCATGT---CCTGAGGCTCAACTCACCTCTCGC-AATATAAGTTGATTTTTTTTAAAACAGAAAT
* ** *
62521017 TGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATAAGTTGAA
124 TGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATAAATTGAA
62521073 TTTTGAAAAC
Statistics
Matches: 167, Mismatches: 10, Indels: 11
0.89 0.05 0.06
Matches are distributed among these distances:
207 29 0.17
208 5 0.03
209 19 0.11
210 70 0.42
211 31 0.19
212 13 0.08
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.29
Consensus pattern (205 bp):
GCTCAACTCACATCTCGCAATATGAGTTGATTTTTAAAAAACAGAAATTTAAAAATACCTCAGCA
TGTCCTGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTAAAACAGAAATTGAAAAT
ACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATAAATTGAAAAAAATACCACAGTGT
GTAATCTGAA
Found at i:62521176 original size:148 final size:147
Alignment explanation
Indices: 62520884--62521241 Score: 434
Period size: 148 Copynumber: 2.4 Consensus size: 147
62520874 AGTGTGTAAT
* * * *
62520884 CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAAAAAAACAGAAATTAAAAATAC
1 CTGAGGCTCAACTCACCTCTAGCAATATAAGTTGA--TTTT--GAAAAACAGAAATTAAAAATAC
62520949 CTCAGCATGTAAACCGAGGCTCAACTCACCTCTCGCAAATATAAGTTGATTTTTTTTAAAACAGA
62 CTCAGCATGT--ACCGAGGCTCAACTCACCTCTCGCAAATATAAGTTGATTTTTTTTAAAACAGA
62521014 AATTGAAAATACCTCAACGTGTC
125 AATTGAAAATACCTCAACGTGTC
* ** * * *
62521037 TTGAGGCTCAACTCATTTCTCGCAATATAAGTTGAATTTTG-AAAACAGAAATTGAAATTACCTC
1 CTGAGGCTCAACTCACCTCTAGCAATATAAGTTG-ATTTTGAAAAACAGAAATTAAAAATACCTC
* ** * *
62521101 AGCGTGT-CCTGAGGCTCAACTCATTTCTTGC-AATATGAGTTGATTTTTTTTTAACAACAGAAA
65 AGCATGTACC-GAGGCTCAACTCACCTCTCGCAAATATAAGTTGA-TTTTTTTTAA-AACAGAAA
* *
62521164 TTGAAATTACCTCAGCGTGTC
127 TTGAAAATACCTCAACGTGTC
* *
62521185 CTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAA
1 CTGAGGCTCAACTCACCTCTAGCAATATAAGTTGATTTTGAAAAACAGAAATTAAAA
62521242 GGCTTAACTC
Statistics
Matches: 178, Mismatches: 22, Indels: 15
0.83 0.10 0.07
Matches are distributed among these distances:
146 13 0.07
147 34 0.19
148 70 0.39
149 27 0.15
152 4 0.02
153 29 0.16
154 1 0.01
ACGTcount: A:0.36, C:0.19, G:0.14, T:0.30
Consensus pattern (147 bp):
CTGAGGCTCAACTCACCTCTAGCAATATAAGTTGATTTTGAAAAACAGAAATTAAAAATACCTCA
GCATGTACCGAGGCTCAACTCACCTCTCGCAAATATAAGTTGATTTTTTTTAAAACAGAAATTGA
AAATACCTCAACGTGTC
Found at i:62521187 original size:76 final size:75
Alignment explanation
Indices: 62520884--62521223 Score: 411
Period size: 72 Copynumber: 4.5 Consensus size: 75
62520874 AGTGTGTAAT
* *** *
62520884 CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAAAAAAACAGAAATTAAAAATAC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT-TTTAAAACAGAAATTGAAAATAC
*
62520949 CTCAGCATGTAAAC
65 CTCAGCGTGT---C
*
62520963 C-GAGGCTCAACTCACCTCTCGCAAATATAAGTTGA-TTTTTTTTAAAACAGAAATTGAAAATAC
1 CTGAGGCTCAACTCACCTCTCGC-AATATGAGTTGATTTTTTTTTAAAACAGAAATTGAAAATAC
*
62521026 CTCAACGTGTC
65 CTCAGCGTGTC
* ** * * * *
62521037 TTGAGGCTCAACTCATTTCTCGCAATATAAGTTGA---ATTTTGAAAACAGAAATTGAAATTACC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTAAAACAGAAATTGAAAATACC
62521099 TCAGCGTGTC
66 TCAGCGTGTC
** * *
62521109 CTGAGGCTCAACTCATTTCTTGCAATATGAGTTGATTTTTTTTTAACAACAGAAATTGAAATTAC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTAA-AACAGAAATTGAAAATAC
62521174 CTCAGCGTGTC
65 CTCAGCGTGTC
*
62521185 CTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
62521224 GAAAAACAAA
Statistics
Matches: 232, Mismatches: 23, Indels: 15
0.86 0.09 0.06
Matches are distributed among these distances:
72 65 0.28
74 13 0.06
75 25 0.11
76 65 0.28
77 27 0.12
78 25 0.11
79 12 0.05
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.31
Consensus pattern (75 bp):
CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTAAAACAGAAATTGAAAATACC
TCAGCGTGTC
Found at i:62521391 original size:71 final size:70
Alignment explanation
Indices: 62521241--62521416 Score: 203
Period size: 71 Copynumber: 2.5 Consensus size: 70
62521231 AAAAATTAAA
* * * * * * **
62521241 AGGCTTAACTCACCTCTCGCAATATGAG-TCAATTTAAAACATAAACTAAAAATACCTCGGCGTG
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAAAAAAAACTAAAAATACCTCAACGTG
62521305 CCCCG
66 CCCCG
* *
62521310 ATGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAAAAAAAATTAAAAATACCTCAACGT
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT-AAAAAAAAAACTAAAAATACCTCAACGT
* **
62521375 GTCTTG
65 GCCCCG
62521381 AGGCTCAACTCA-TCTCTCGCAATATGAGTTGATTTT
1 AGGCTCAACTCACT-TCTCGCAATATGAGTTGATTTT
62521417 CCTTGGAAAG
Statistics
Matches: 90, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
69 25 0.28
70 6 0.07
71 59 0.66
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.29
Consensus pattern (70 bp):
AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAAAAAAAACTAAAAATACCTCAACGTG
CCCCG
Found at i:62521405 original size:193 final size:198
Alignment explanation
Indices: 62521040--62521416 Score: 476
Period size: 193 Copynumber: 1.9 Consensus size: 198
62521030 ACGTGTCTTG
** * * * *
62521040 AGGCTCAACTCATTTCTCGCAATATAAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCG
1 AGGCTCAACTCACCTCTCGCAATATAAGTTCAATTTTGAAAACAGAAACTAAAAATACCTCAGCG
* * * * * * * *
62521105 TGTCCTGAGGCTCAACTCATTTCTTGCAATATGAGTTGATTTTTTTTTAACAACAGAAATTGAAA
66 TGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGA---TTTTTGAACAAAAAAAATTAAAA
* *
62521170 TTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAA
128 ATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAA
62521235 ATTAAA
193 ATTAAA
* * * *
62521241 AGGCTTAACTCACCTCTCGCAATATGAG-TCAA-TTT-AAAACATAAACTAAAAATACCTCGGCG
1 AGGCTCAACTCACCTCTCGCAATATAAGTTCAATTTTGAAAACAGAAACTAAAAATACCTCAGCG
*
62521303 TGCCCCGATGCTCAACTCACTTCTCGCAATATGAGTTGA-TTTTGAA-AAAAAAAATTAAAAATA
66 TGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAACAAAAAAAATTAAAAATA
* * *
62521366 CCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTT
131 CCTCAACGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTT
62521417 CCTTGGAAAG
Statistics
Matches: 152, Mismatches: 24, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
193 60 0.39
194 6 0.04
198 56 0.37
199 3 0.02
200 3 0.02
201 24 0.16
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.31
Consensus pattern (198 bp):
AGGCTCAACTCACCTCTCGCAATATAAGTTCAATTTTGAAAACAGAAACTAAAAATACCTCAGCG
TGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAACAAAAAAAATTAAAAATA
CCTCAACGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATT
AAA
Found at i:62529743 original size:16 final size:15
Alignment explanation
Indices: 62529722--62529769 Score: 60
Period size: 16 Copynumber: 3.1 Consensus size: 15
62529712 GATGTGAATA
62529722 ATAAAATATATAAAAT
1 ATAAAATAT-TAAAAT
62529738 ATAAAATATTAAAAT
1 ATAAAATATTAAAAT
* *
62529753 ATCAAAACATTAGAAT
1 AT-AAAATATTAAAAT
62529769 A
1 A
62529770 ATAATAATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
15 8 0.28
16 21 0.72
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (15 bp):
ATAAAATATTAAAAT
Found at i:62529752 original size:8 final size:8
Alignment explanation
Indices: 62529718--62529769 Score: 52
Period size: 8 Copynumber: 6.5 Consensus size: 8
62529708 TAATGATGTG
*
62529718 AATAATAA
1 AATATTAA
62529726 AATATATAA
1 AATAT-TAA
62529735 AATA-TAA
1 AATATTAA
62529742 AATATTAA
1 AATATTAA
*
62529750 AATATCAA
1 AATATTAA
* *
62529758 AACATTAG
1 AATATTAA
62529766 AATA
1 AATA
62529770 ATAATAATTA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
7 7 0.19
8 22 0.61
9 7 0.19
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (8 bp):
AATATTAA
Found at i:62529769 original size:24 final size:24
Alignment explanation
Indices: 62529717--62529773 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
62529707 ATAATGATGT
62529717 GAATAATAAAATATATAAAATATA
1 GAATAATAAAATATATAAAATATA
* *
62529741 AAATATTAAAATATCA-AAACAT-TA
1 GAATAATAAAATAT-ATAAA-ATATA
62529765 GAATAATAA
1 GAATAATAA
62529774 TAATTAATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
24 24 0.89
25 3 0.11
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.28
Consensus pattern (24 bp):
GAATAATAAAATATATAAAATATA
Found at i:62529954 original size:25 final size:23
Alignment explanation
Indices: 62529926--62529988 Score: 76
Period size: 22 Copynumber: 2.7 Consensus size: 23
62529916 CGTGATAATA
62529926 TTAAAAATATGTACATAATATAGTG
1 TTAAAAATA--TACATAATATAGTG
62529951 TTAAAAATATACATAATATA--G
1 TTAAAAATATACATAATATAGTG
*
62529972 TTAAGATATATACATAA
1 TTAA-AAATATACATAA
62529989 GATAACATGT
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
21 5 0.14
22 11 0.31
23 11 0.31
25 9 0.25
ACGTcount: A:0.52, C:0.05, G:0.08, T:0.35
Consensus pattern (23 bp):
TTAAAAATATACATAATATAGTG
Found at i:62530039 original size:31 final size:31
Alignment explanation
Indices: 62529977--62530057 Score: 85
Period size: 31 Copynumber: 2.6 Consensus size: 31
62529967 TATAGTTAAG
* * *
62529977 ATATATACATAAGATAACATGTAAAAAATAT
1 ATATATAAATAATATAATATGTAAAAAATAT
*
62530008 ATATATAAATAATATAATAT-T-AAAGATAT
1 ATATATAAATAATATAATATGTAAAAAATAT
* *
62530037 ATACATAAAATAGTATAATAT
1 ATATAT-AAATAATATAATAT
62530058 ATATATACGT
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
29 12 0.28
30 14 0.33
31 17 0.40
ACGTcount: A:0.58, C:0.04, G:0.05, T:0.33
Consensus pattern (31 bp):
ATATATAAATAATATAATATGTAAAAAATAT
Found at i:62530044 original size:25 final size:25
Alignment explanation
Indices: 62529920--62530139 Score: 99
Period size: 25 Copynumber: 9.0 Consensus size: 25
62529910 TAAATACGTG
* *
62529920 ATAATATTAAAAATATGTACATAAT
1 ATAATATTAAAGATATATACATAAT
* *
62529945 ATAGTGTTAAA-A-ATATACATAAT
1 ATAATATTAAAGATATATACATAAT
* *
62529968 AT-A-GTT-AAGATATATACATAAG
1 ATAATATTAAAGATATATACATAAT
* * *
62529990 ATAACATGTAAAAAATATATATATAAATAAT
1 ATAATAT-T----AA-AGATATATACATAAT
*
62530021 ATAATATTAAAGATATATACATAAA
1 ATAATATTAAAGATATATACATAAT
* * *
62530046 ATAGTA-TAATATATATATACGTAAT
1 ATAATATTAA-AGATATATACATAAT
* * *
62530071 CTAGA-ATTTAA-A-ATATACCTAAT
1 ATA-ATATTAAAGATATATACATAAT
* *
62530094 AT-AT-TAAAAGA-ATATATATAAT
1 ATAATATTAAAGATATATACATAAT
*
62530116 ATAATATT-AAGAAATATA-ATAAT
1 ATAATATTAAAGATATATACATAAT
62530139 A
1 A
62530140 ACAAAAAAGG
Statistics
Matches: 149, Mismatches: 27, Indels: 40
0.69 0.12 0.19
Matches are distributed among these distances:
20 2 0.01
21 8 0.05
22 24 0.16
23 36 0.24
24 12 0.08
25 43 0.29
26 4 0.03
30 2 0.01
31 18 0.12
ACGTcount: A:0.55, C:0.04, G:0.06, T:0.35
Consensus pattern (25 bp):
ATAATATTAAAGATATATACATAAT
Found at i:62530063 original size:27 final size:27
Alignment explanation
Indices: 62529957--62530064 Score: 80
Period size: 27 Copynumber: 4.1 Consensus size: 27
62529947 AGTGTTAAAA
*
62529957 ATATACATAATATAGT-TAAGATATAT
1 ATATACATAATATAGTATAATATATAT
* * * * *
62529983 ACATAAGATAACAT-GTAAAAAATATAT
1 ATAT-ACATAATATAGTATAATATATAT
* * * *
62530010 ATATAAATAATATA--ATATTAAAGAT
1 ATATACATAATATAGTATAATATATAT
*
62530035 ATATACATAAAATAGTATAATATATAT
1 ATATACATAATATAGTATAATATATAT
62530062 ATA
1 ATA
62530065 CGTAATCTAG
Statistics
Matches: 59, Mismatches: 18, Indels: 9
0.69 0.21 0.10
Matches are distributed among these distances:
25 18 0.31
26 12 0.20
27 29 0.49
ACGTcount: A:0.56, C:0.04, G:0.06, T:0.34
Consensus pattern (27 bp):
ATATACATAATATAGTATAATATATAT
Found at i:62530745 original size:30 final size:30
Alignment explanation
Indices: 62530625--62530769 Score: 186
Period size: 30 Copynumber: 4.8 Consensus size: 30
62530615 TAGGTACAAG
* *
62530625 TGGTGGTGGAGCAA-GTGTGGTTAGTGGAGT
1 TGGTGGTGGA-AAAGGTGTGGCTAGTGGAGT
* ** * *
62530655 AGGTAATGGAGCAA-GTGTGGCTAGTGGATT
1 TGGTGGTGGA-AAAGGTGTGGCTAGTGGAGT
*
62530685 TGGTGGTGGAGAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
62530715 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
62530745 TGGTGGTGGAAAAGGTGTGGCTAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGT
62530770 TGAGAAAAGT
Statistics
Matches: 103, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
29 2 0.02
30 101 0.98
ACGTcount: A:0.20, C:0.04, G:0.48, T:0.28
Consensus pattern (30 bp):
TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
Found at i:62534343 original size:14 final size:14
Alignment explanation
Indices: 62534320--62534350 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
62534310 TATTGCGTTC
*
62534320 TTAGTTAATTTAGA
1 TTAGTAAATTTAGA
62534334 TTAGTAAATTTAGA
1 TTAGTAAATTTAGA
62534348 TTA
1 TTA
62534351 AAACAATTCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.13, T:0.48
Consensus pattern (14 bp):
TTAGTAAATTTAGA
Found at i:62551637 original size:22 final size:22
Alignment explanation
Indices: 62551598--62551640 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
62551588 TCATAAAATA
62551598 AAAAATAAAAAACGAATCAATCC
1 AAAAATAAAAAAC-AATCAATCC
62551621 AAAAATAATAAAA-AATCAAT
1 AAAAATAA-AAAACAATCAAT
62551641 TTATTTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 7 0.37
23 8 0.42
24 4 0.21
ACGTcount: A:0.70, C:0.12, G:0.02, T:0.16
Consensus pattern (22 bp):
AAAAATAAAAAACAATCAATCC
Found at i:62553394 original size:38 final size:38
Alignment explanation
Indices: 62553322--62553394 Score: 110
Period size: 38 Copynumber: 1.9 Consensus size: 38
62553312 TACCCATTGC
* * *
62553322 AAGAGAAGCAGAGAAAGAAAAATAGGGATTGATGAAGA
1 AAGAGAAGCAGAGAAAGAAAAACAGGAATCGATGAAGA
*
62553360 AAGAGAAGCATAGAAAGAAAAACAGGAATCGATGA
1 AAGAGAAGCAGAGAAAGAAAAACAGGAATCGATGA
62553395 TGAGAGAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 31 1.00
ACGTcount: A:0.56, C:0.05, G:0.29, T:0.10
Consensus pattern (38 bp):
AAGAGAAGCAGAGAAAGAAAAACAGGAATCGATGAAGA
Found at i:62557419 original size:23 final size:24
Alignment explanation
Indices: 62557370--62557421 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
62557360 AAATATTCTC
* * **
62557370 ATTTTAACTAAAAAAATTATCTAA
1 ATTTAAACTAAAAAAATCAAATAA
62557394 ATTTAAACTAAAAAAATCAAAT-A
1 ATTTAAACTAAAAAAATCAAATAA
62557417 ATTTA
1 ATTTA
62557422 TAATTTATGG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
23 6 0.25
24 18 0.75
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.35
Consensus pattern (24 bp):
ATTTAAACTAAAAAAATCAAATAA
Found at i:62563203 original size:40 final size:40
Alignment explanation
Indices: 62563154--62563302 Score: 151
Period size: 40 Copynumber: 3.8 Consensus size: 40
62563144 CGGAATTTAA
** *
62563154 CCGGATATAGCT-ACTCGTTCAAATGCCTTCAGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCAGGACATAAC
* * *
62563194 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCAGGACATAAC
* * * * *
62563234 CCGGATTTAGTAACTCGCACCAATGCCTTC-GGGCTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCAGGACATAAC
*
62563273 CCGGA-ATTAGTATCTCGCACAAATGCCTTC
1 CCGGATA-TAGTAACTCGCACAAATGCCTTC
62563303 GGATCTTAGT
Statistics
Matches: 93, Mismatches: 14, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
39 34 0.37
40 59 0.63
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.26
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCAGGACATAAC
Found at i:62563275 original size:79 final size:79
Alignment explanation
Indices: 62563175--62563357 Score: 201
Period size: 79 Copynumber: 2.3 Consensus size: 79
62563165 TACTCGTTCA
* * *
62563175 AATGCCTTCAGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTC-GGGCTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
62563238 ATTTAGTAAC-TCGCACC
63 ATATAGTAACTTAGCA-C
* **
62563255 AATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGATA
1 AATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGATA
* *
62563320 TGGTCACTTAGCAC
66 TAGTAACTTAGCAC
*
62563334 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGG-CTTAGCCCGGA
62563358 CATCATTCAA
Statistics
Matches: 88, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
78 3 0.03
79 60 0.68
80 25 0.28
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (79 bp):
AATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGATA
TAGTAACTTAGCAC
Found at i:62563290 original size:39 final size:39
Alignment explanation
Indices: 62563173--62563357 Score: 194
Period size: 40 Copynumber: 4.6 Consensus size: 39
62563163 GCTACTCGTT
* *
62563173 CAAATGCCTTCAGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTC-GGGCTTAGCCCGGATT-TAGTAACTCGCA
*
62563213 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGATTTAGTAACTCGCA
* * *
62563253 CCAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGATTTAGTAACTCGCA
* * * * * *
62563292 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGG-GCTTAGCCCGGATTTAGTAAC-TCGCA
62563333 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGG-CTTAGCCCGGA
62563358 CATCATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
39 36 0.30
40 76 0.62
41 10 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGATTTAGTAACTCGCA
Found at i:62571342 original size:24 final size:25
Alignment explanation
Indices: 62571303--62571358 Score: 94
Period size: 25 Copynumber: 2.2 Consensus size: 25
62571293 CATAGATCAG
* *
62571303 TTTTTAATAGTAAAAATGGATGAAA
1 TTTTTAACAGTAAAAATGAATGAAA
62571328 TTTTTAACAGTAAAAATGAATGAAA
1 TTTTTAACAGTAAAAATGAATGAAA
62571353 TTTTTA
1 TTTTTA
62571359 GGAGAATGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.46, C:0.02, G:0.12, T:0.39
Consensus pattern (25 bp):
TTTTTAACAGTAAAAATGAATGAAA
Found at i:62577911 original size:27 final size:27
Alignment explanation
Indices: 62577881--62577932 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
62577871 TGACTAAAAC
62577881 AGAAAAA-TTCAAATAGTTGGGTGACAA
1 AGAAAAAGTT-AAATAGTTGGGTGACAA
*
62577908 AGAAAAAGTTTAATAGTTGGGTGAC
1 AGAAAAAGTTAAATAGTTGGGTGAC
62577933 TATTTTGTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 21 0.91
28 2 0.09
ACGTcount: A:0.44, C:0.06, G:0.25, T:0.25
Consensus pattern (27 bp):
AGAAAAAGTTAAATAGTTGGGTGACAA
Found at i:62584817 original size:34 final size:35
Alignment explanation
Indices: 62584773--62584839 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
62584763 CAATAAAATA
*
62584773 TTTTCCGTAAAATGATTT-CAGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACAGGAAAATATTTTAC
* *
62584807 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACAGGAAAATATTTT
62584840 CTGATGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.33, C:0.09, G:0.13, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACAGGAAAATATTTTAC
Found at i:62586755 original size:96 final size:96
Alignment explanation
Indices: 62586591--62586788 Score: 360
Period size: 96 Copynumber: 2.1 Consensus size: 96
62586581 CAATTCAACC
* *
62586591 GATTTCAATACTAAAGAAGGAGAAACTGATATCTAGAGAAAAATAACATTTTCGGTAGCTGATTT
1 GATTTCAATACTAAAGAAGGAGAAACTGATATCTAGAGAAAAATAACATTTCCAGTAGCTGATTT
*
62586656 AATAGGTTCTAAGTCCCCAACATAATTTATT
66 AATAGGTTCCAAGTCCCCAACATAATTTATT
*
62586687 GATTTCAATACTAAAGAAGGAGAAACTGATATCTAGAGAAAAATAATATTTCCAGTAGCTGATTT
1 GATTTCAATACTAAAGAAGGAGAAACTGATATCTAGAGAAAAATAACATTTCCAGTAGCTGATTT
62586752 AATAGGTTCCAAGTCCCCAACATAATTTATT
66 AATAGGTTCCAAGTCCCCAACATAATTTATT
62586783 GATTTC
1 GATTTC
62586789 TAACGTGGCT
Statistics
Matches: 98, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
96 98 1.00
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.31
Consensus pattern (96 bp):
GATTTCAATACTAAAGAAGGAGAAACTGATATCTAGAGAAAAATAACATTTCCAGTAGCTGATTT
AATAGGTTCCAAGTCCCCAACATAATTTATT
Found at i:62592557 original size:5 final size:5
Alignment explanation
Indices: 62592547--62592571 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
62592537 TTACTATCAG
62592547 CTGTA CTGTA CTGTA CTGTA CTGTA
1 CTGTA CTGTA CTGTA CTGTA CTGTA
62592572 ATGGTATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.40
Consensus pattern (5 bp):
CTGTA
Found at i:62594641 original size:19 final size:18
Alignment explanation
Indices: 62594605--62594647 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
62594595 TTTATTTTAC
*
62594605 ATATGATATAAATTACATA
1 ATAT-ATATAAATAACATA
62594624 ATATATATAAAGTAACATA
1 ATATATATAAA-TAACATA
*
62594643 TTATA
1 ATATA
62594648 AATTTGAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.37
Consensus pattern (18 bp):
ATATATATAAATAACATA
Found at i:62595849 original size:29 final size:29
Alignment explanation
Indices: 62595787--62595849 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 29
62595777 TTGTTACTCG
*
62595787 ACTATGAAAAGTTAAAAAATAGTCACCCA
1 ACTATAAAAAGTTAAAAAATAGTCACCCA
* * * * *
62595816 GCTATAAAAAGTTACAAAATGGTCATCGA
1 ACTATAAAAAGTTAAAAAATAGTCACCCA
62595845 ACTAT
1 ACTAT
62595850 TCAATTTTAT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.48, C:0.16, G:0.13, T:0.24
Consensus pattern (29 bp):
ACTATAAAAAGTTAAAAAATAGTCACCCA
Found at i:62597564 original size:6 final size:7
Alignment explanation
Indices: 62597539--62597563 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
62597529 ATAATAAATA
62597539 TTTTTAT
1 TTTTTAT
62597546 TTTTTAT
1 TTTTTAT
62597553 TTTTTAT
1 TTTTTAT
62597560 TTTT
1 TTTT
62597564 AAAATATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTAT
Found at i:62597573 original size:11 final size:11
Alignment explanation
Indices: 62597557--62597586 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
62597547 TTTTATTTTT
62597557 TATTTTTAAAA
1 TATTTTTAAAA
62597568 TATTTTTAAAA
1 TATTTTTAAAA
62597579 TACTTTTT
1 TA-TTTTT
62597587 TTTATTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.72
12 5 0.28
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (11 bp):
TATTTTTAAAA
Found at i:62607456 original size:3 final size:3
Alignment explanation
Indices: 62607448--62607496 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
62607438 CTTCATGTGC
62607448 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
62607496 A
1 A
62607497 ATGTAATATG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:62607751 original size:14 final size:15
Alignment explanation
Indices: 62607732--62607769 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
62607722 ATAATATAAT
62607732 ATTAAAATTAAT-TA
1 ATTAAAATTAATATA
*
62607746 ATTAAAATTGATATA
1 ATTAAAATTAATATA
62607761 ATTGAAAAT
1 ATT-AAAAT
62607770 ATTCTTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 11 0.52
15 5 0.24
16 5 0.24
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.39
Consensus pattern (15 bp):
ATTAAAATTAATATA
Found at i:62623443 original size:31 final size:29
Alignment explanation
Indices: 62623373--62623446 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 29
62623363 GGCTCAGGTT
* *
62623373 ACATTTTAGTCACTTATGTTTGAAATGTT
1 ACATTTTAGTCACTTATGTTTCAAATGTA
* **
62623402 ACGTTTTAGTCACTTATGTTATCACGTTGTA
1 ACATTTTAGTCACTTATGTT-TCA-AATGTA
62623433 ACATTTTAGTCACT
1 ACATTTTAGTCACT
62623447 GAGCCGTTAG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
29 19 0.51
30 2 0.05
31 16 0.43
ACGTcount: A:0.26, C:0.15, G:0.14, T:0.46
Consensus pattern (29 bp):
ACATTTTAGTCACTTATGTTTCAAATGTA
Found at i:62629079 original size:10 final size:11
Alignment explanation
Indices: 62629051--62629142 Score: 59
Period size: 11 Copynumber: 8.3 Consensus size: 11
62629041 TAAAAATTAA
62629051 AAAAAGTATTTT
1 AAAAA-TATTTT
62629063 AAAAATATTTT
1 AAAAATATTTT
*
62629074 AAAATAAAAATTTT
1 --AA-AAATATTTT
62629088 AAAAAGTATTTT
1 AAAAA-TATTTT
*
62629100 --AAA-A-TTA
1 AAAAATATTTT
* *
62629107 AAAAATA-ATA
1 AAAAATATTTT
62629117 AAAAAGTATTTT
1 AAAAA-TATTTT
62629129 AAAAATATTTT
1 AAAAATATTTT
62629140 AAA
1 AAA
62629143 TTAAAAAATT
Statistics
Matches: 65, Mismatches: 6, Indels: 19
0.72 0.07 0.21
Matches are distributed among these distances:
7 2 0.03
8 1 0.02
9 3 0.05
10 11 0.17
11 20 0.31
12 18 0.28
13 2 0.03
14 8 0.12
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:62629099 original size:26 final size:28
Alignment explanation
Indices: 62629058--62629132 Score: 102
Period size: 29 Copynumber: 2.8 Consensus size: 28
62629048 TAAAAAAAGT
62629058 ATTTTAAAAA-TATTTTAAAA-T-AAAA
1 ATTTTAAAAAGTATTTTAAAATTAAAAA
62629083 ATTTTAAAAAGTATTTTAAAATTAAAAA
1 ATTTTAAAAAGTATTTTAAAATTAAAAA
* *
62629111 ATAATAAAAAAGTATTTTAAAA
1 AT-TTTAAAAAGTATTTTAAAA
62629133 ATATTTTAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
25 10 0.23
26 10 0.23
27 1 0.02
28 6 0.14
29 17 0.39
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (28 bp):
ATTTTAAAAAGTATTTTAAAATTAAAAA
Found at i:62629156 original size:14 final size:16
Alignment explanation
Indices: 62629127--62629171 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 16
62629117 AAAAAGTATT
62629127 TTAAAAATATTTTAAA
1 TTAAAAATATTTTAAA
62629143 TTAAAAA-A-TTTAAA
1 TTAAAAATATTTTAAA
62629157 -TAATAAATATATTTA
1 TTAA-AAATAT-TTTA
62629172 TTATATCGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
13 3 0.12
14 9 0.36
15 2 0.08
16 7 0.28
17 4 0.16
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
TTAAAAATATTTTAAA
Found at i:62629597 original size:21 final size:22
Alignment explanation
Indices: 62629557--62629602 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
62629547 ACTTCTCAAC
*
62629557 ACAAAAATGAAATTTATAATTAA
1 ACAAAAAT-AAATTTATAATAAA
*
62629580 ACAAAAAT-AATTTCTAATAAA
1 ACAAAAATAAATTTATAATAAA
62629601 AC
1 AC
62629603 TTTAAATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 13 0.62
23 8 0.38
ACGTcount: A:0.61, C:0.09, G:0.02, T:0.28
Consensus pattern (22 bp):
ACAAAAATAAATTTATAATAAA
Found at i:62632092 original size:13 final size:12
Alignment explanation
Indices: 62632075--62632120 Score: 58
Period size: 12 Copynumber: 3.7 Consensus size: 12
62632065 TAGTATAGTA
62632075 AAAAGAAGAAAG
1 AAAAGAAGAAAG
62632087 AAAAAGGAAGAAAG
1 -AAAA-GAAGAAAG
62632101 AAAAGAA-AGAAG
1 AAAAGAAGA-AAG
62632113 AAAAGAAG
1 AAAAGAAG
62632121 GAGAACGCAC
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
11 1 0.03
12 13 0.43
13 8 0.27
14 8 0.27
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (12 bp):
AAAAGAAGAAAG
Found at i:62632713 original size:210 final size:210
Alignment explanation
Indices: 62632351--62632776 Score: 843
Period size: 210 Copynumber: 2.0 Consensus size: 210
62632341 TTGTAGAATA
62632351 AATTGTAAATTTTGAGTAATAGGGATTAAATCGTAAAAAAATTGAAATTTAGGGGTTTAAGTGAA
1 AATTGTAAATTTTGAGTAATAGGGATTAAATCGTAAAAAAATTGAAATTTAGGGGTTTAAGTGAA
62632416 AATAGAGAGTTAAATTTATTTTATAGTGAAATTTGTATGAAAATATAGAATTAAATGTAAAGAAT
66 AATAGAGAGTTAAATTTATTTTATAGTGAAATTTGTATGAAAATATAGAATTAAATGTAAAGAAT
62632481 AAAAATTAGTCTCAGTTTAGGGACTAAATTGAAATTTAGGAAAATATTGAGTAAAAATTGAAATA
131 AAAAATTAGTCTCAGTTTAGGGACTAAATTGAAATTTAGGAAAATATTGAGTAAAAATTGAAATA
62632546 TTCAAAATGAAATTG
196 TTCAAAATGAAATTG
*
62632561 AATTGTAAATTTTGAGTAATAGGGATTAAATCGTAAAAAATTTGAAATTTAGGGGTTTAAGTGAA
1 AATTGTAAATTTTGAGTAATAGGGATTAAATCGTAAAAAAATTGAAATTTAGGGGTTTAAGTGAA
62632626 AATAGAGAGTTAAATTTATTTTATAGTGAAATTTGTATGAAAATATAGAATTAAATGTAAAGAAT
66 AATAGAGAGTTAAATTTATTTTATAGTGAAATTTGTATGAAAATATAGAATTAAATGTAAAGAAT
62632691 AAAAATTAGTCTCAGTTTAGGGACTAAATTGAAATTTAGGAAAATATTGAGTAAAAATTGAAATA
131 AAAAATTAGTCTCAGTTTAGGGACTAAATTGAAATTTAGGAAAATATTGAGTAAAAATTGAAATA
62632756 TTCAAAATGAAATTG
196 TTCAAAATGAAATTG
62632771 AATTGT
1 AATTGT
62632777 GTTGTATTGA
Statistics
Matches: 215, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
210 215 1.00
ACGTcount: A:0.46, C:0.02, G:0.18, T:0.34
Consensus pattern (210 bp):
AATTGTAAATTTTGAGTAATAGGGATTAAATCGTAAAAAAATTGAAATTTAGGGGTTTAAGTGAA
AATAGAGAGTTAAATTTATTTTATAGTGAAATTTGTATGAAAATATAGAATTAAATGTAAAGAAT
AAAAATTAGTCTCAGTTTAGGGACTAAATTGAAATTTAGGAAAATATTGAGTAAAAATTGAAATA
TTCAAAATGAAATTG
Found at i:62635073 original size:19 final size:19
Alignment explanation
Indices: 62635031--62635073 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
62635021 CCAAACCTTA
*
62635031 ATTCAAAGATTATTTTTTT
1 ATTCAAAGATTATTTTTTC
*
62635050 TTTCAAA-ATTATTTTCTTC
1 ATTCAAAGATTATTTT-TTC
62635069 ATTCA
1 ATTCA
62635074 CAATACTCAA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.30, C:0.12, G:0.02, T:0.56
Consensus pattern (19 bp):
ATTCAAAGATTATTTTTTC
Found at i:62636410 original size:19 final size:20
Alignment explanation
Indices: 62636383--62636420 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
62636373 TTTTATCACA
62636383 CACAAAAAAAAATT-AATAT
1 CACAAAAAAAAATTCAATAT
*
62636402 CACATAAAAAAATTCAATA
1 CACAAAAAAAAATTCAATA
62636421 AAATACATAA
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:0.66, C:0.13, G:0.00, T:0.21
Consensus pattern (20 bp):
CACAAAAAAAAATTCAATAT
Found at i:62639686 original size:4 final size:4
Alignment explanation
Indices: 62639677--62639715 Score: 69
Period size: 4 Copynumber: 9.8 Consensus size: 4
62639667 GTTGATAGAT
*
62639677 GTAA GTAA GTAA GTAA GTAA GTAA GTAA GTAT GTAA GTA
1 GTAA GTAA GTAA GTAA GTAA GTAA GTAA GTAA GTAA GTA
62639716 TGTATGTATG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.46, C:0.00, G:0.26, T:0.28
Consensus pattern (4 bp):
GTAA
Found at i:62639716 original size:8 final size:8
Alignment explanation
Indices: 62639675--62639750 Score: 89
Period size: 8 Copynumber: 9.5 Consensus size: 8
62639665 GTGTTGATAG
62639675 ATGTAAGT
1 ATGTAAGT
*
62639683 AAGTAAGT
1 ATGTAAGT
*
62639691 AAGTAAGT
1 ATGTAAGT
*
62639699 AAGTAAGT
1 ATGTAAGT
62639707 ATGTAAGT
1 ATGTAAGT
*
62639715 ATGTATGT
1 ATGTAAGT
*
62639723 ATGTATGT
1 ATGTAAGT
*
62639731 ATGTATGT
1 ATGTAAGT
*
62639739 ATGTATGT
1 ATGTAAGT
62639747 ATGT
1 ATGT
62639751 GTCGTTTCTC
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 65 1.00
ACGTcount: A:0.36, C:0.00, G:0.25, T:0.39
Consensus pattern (8 bp):
ATGTAAGT
Found at i:62639720 original size:4 final size:4
Alignment explanation
Indices: 62639705--62639750 Score: 83
Period size: 4 Copynumber: 11.5 Consensus size: 4
62639695 AAGTAAGTAA
*
62639705 GTAT GTAA GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GT
62639751 GTCGTTTCTC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 40 1.00
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.48
Consensus pattern (4 bp):
GTAT
Found at i:62639720 original size:12 final size:12
Alignment explanation
Indices: 62639685--62639747 Score: 81
Period size: 12 Copynumber: 5.2 Consensus size: 12
62639675 ATGTAAGTAA
* *
62639685 GTAAGTAAGTAA
1 GTAAGTATGTAT
*
62639697 GTAAGTAAGTAT
1 GTAAGTATGTAT
62639709 GTAAGTATGTAT
1 GTAAGTATGTAT
*
62639721 GTATGTATGTAT
1 GTAAGTATGTAT
*
62639733 GTATGTATGTAT
1 GTAAGTATGTAT
62639745 GTA
1 GTA
62639748 TGTGTCGTTT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 48 1.00
ACGTcount: A:0.35, C:0.00, G:0.25, T:0.40
Consensus pattern (12 bp):
GTAAGTATGTAT
Found at i:62640292 original size:98 final size:98
Alignment explanation
Indices: 62640123--62640319 Score: 349
Period size: 98 Copynumber: 2.0 Consensus size: 98
62640113 ATAACAGTAT
* * * *
62640123 TAACAATTGGACTTGAAGTTTGAAATCTAAAAAGTAGAGGAACTAAATTCCTGGAAATAAAAGTA
1 TAACAATTAGACTTGAAGTTTGAAACCTAAAAAGCAGAGGAACTAAATTCCTGGAAATAAAAATA
*
62640188 CATTTTCAAATTTGTGAAGAGTATAGGGATCTA
66 CATTTTCAAATTTGTGAAGAGAATAGGGATCTA
62640221 TAACAATTAGACTTGAAGTTTGAAACCTAAAAAGCAGAGGAACTAAATTCCTGGAAATAAAAATA
1 TAACAATTAGACTTGAAGTTTGAAACCTAAAAAGCAGAGGAACTAAATTCCTGGAAATAAAAATA
62640286 CATTTTCAAATTTGTGAAGAGAATAGGGATCTA
66 CATTTTCAAATTTGTGAAGAGAATAGGGATCTA
62640319 T
1 T
62640320 GACATATTTT
Statistics
Matches: 94, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 94 1.00
ACGTcount: A:0.43, C:0.10, G:0.18, T:0.28
Consensus pattern (98 bp):
TAACAATTAGACTTGAAGTTTGAAACCTAAAAAGCAGAGGAACTAAATTCCTGGAAATAAAAATA
CATTTTCAAATTTGTGAAGAGAATAGGGATCTA
Found at i:62640377 original size:31 final size:31
Alignment explanation
Indices: 62640340--62640417 Score: 95
Period size: 31 Copynumber: 2.5 Consensus size: 31
62640330 AATCTATGCT
*
62640340 AATTGGTACTTCAA-TTTAGCTTCAATGTTCT
1 AATTGGTACTT-AAGTTTAGCTTCAATGTTCA
* * * *
62640371 ACTTGGTGCCTAAGTTTGGCTTCAATGTTCA
1 AATTGGTACTTAAGTTTAGCTTCAATGTTCA
62640402 AATTGGTACTTAAGTT
1 AATTGGTACTTAAGTT
62640418 ATTTTCCATT
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
30 2 0.05
31 36 0.95
ACGTcount: A:0.24, C:0.15, G:0.18, T:0.42
Consensus pattern (31 bp):
AATTGGTACTTAAGTTTAGCTTCAATGTTCA
Found at i:62640765 original size:6 final size:6
Alignment explanation
Indices: 62640756--62640789 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
62640746 AACCACAATC
* *
62640756 ACAAAG ACAAAT ACAAAT ACAAAT ACGAAT ACAA
1 ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT ACAA
62640790 TTATAAATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.65, C:0.18, G:0.06, T:0.12
Consensus pattern (6 bp):
ACAAAT
Found at i:62647525 original size:33 final size:33
Alignment explanation
Indices: 62647483--62647783 Score: 139
Period size: 33 Copynumber: 8.5 Consensus size: 33
62647473 ATCAGTGGAT
*
62647483 TCAGCACTTAGCAACCACCAGTGATTCGGGGAA
1 TCAGCACTTAGCAACCACCAATGATTCGGGGAA
* * *
62647516 TCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGTGGGA
1 TCAGCACTTAGCAACCAC---CA-A--T--GATTCGG-GGAA
* *
62647558 TCAACACTTAGCAACCACCAATGAGTCGGGGAA
1 TCAGCACTTAGCAACCACCAATGATTCGGGGAA
*
62647591 TCAGCACTTAGCAACC-CC-----TTGGGGGAA
1 TCAGCACTTAGCAACCACCAATGATTCGGGGAA
** * *
62647618 TCAAAATTTAGCAATCC-CTTTCACATTTAAGATACGGTGGAA
1 TCAGCACTTAGCAA-CCAC---CA-A--T--GATTCGG-GGAA
* * *
62647660 TCAACACTTAGCAACCACCAATGAATCGGAGAA
1 TCAGCACTTAGCAACCACCAATGATTCGGGGAA
* *
62647693 TCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGTGGAA
1 TCAGCACTTAGCAACCAC---CA-A--T--GATTCGG-GGAA
* *
62647735 TCAGCACTTAGCAACCACCAATGAATCGGAGAA
1 TCAGCACTTAGCAACCACCAATGATTCGGGGAA
62647768 TCAGCACTTAGCAACC
1 TCAGCACTTAGCAACC
62647784 CTTTTATATT
Statistics
Matches: 203, Mismatches: 31, Indels: 68
0.67 0.10 0.23
Matches are distributed among these distances:
27 18 0.09
28 3 0.01
31 1 0.00
32 2 0.01
33 73 0.36
34 15 0.07
36 7 0.03
37 1 0.00
38 3 0.01
39 8 0.04
41 16 0.08
42 56 0.28
ACGTcount: A:0.34, C:0.27, G:0.19, T:0.21
Consensus pattern (33 bp):
TCAGCACTTAGCAACCACCAATGATTCGGGGAA
Found at i:62647637 original size:102 final size:102
Alignment explanation
Indices: 62647523--62647712 Score: 344
Period size: 102 Copynumber: 1.9 Consensus size: 102
62647513 GAATCAGCAC
* * *
62647523 TTAGCAACCCCTTTCACATTTAAGATACGGTGGGATCAACACTTAGCAACCACCAATGAGTCGGG
1 TTAGCAACCCCTTTCACATTTAAGATACGGTGGAATCAACACTTAGCAACCACCAATGAATCGGA
62647588 GAATCAGCACTTAGCAACCCCTTGGGGGAATCAAAAT
66 GAATCAGCACTTAGCAACCCCTTGGGGGAATCAAAAT
*
62647625 TTAGCAATCCCTTTCACATTTAAGATACGGTGGAATCAACACTTAGCAACCACCAATGAATCGGA
1 TTAGCAACCCCTTTCACATTTAAGATACGGTGGAATCAACACTTAGCAACCACCAATGAATCGGA
62647690 GAATCAGCACTTAGCAACCCCTT
66 GAATCAGCACTTAGCAACCCCTT
62647713 TCACATTTAA
Statistics
Matches: 84, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
102 84 1.00
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (102 bp):
TTAGCAACCCCTTTCACATTTAAGATACGGTGGAATCAACACTTAGCAACCACCAATGAATCGGA
GAATCAGCACTTAGCAACCCCTTGGGGGAATCAAAAT
Found at i:62647673 original size:42 final size:41
Alignment explanation
Indices: 62647614--62647750 Score: 130
Period size: 42 Copynumber: 3.5 Consensus size: 41
62647604 ACCCCTTGGG
* *
62647614 GGAATCAAAATTTAGCAATCCCTTTCACATTTAAGATACGGT
1 GGAATCAACACTTAGCAA-CCCTTTCACATTTAAGATACGGT
*
62647656 GGAATCAACACTTAGCAACCAC---CA-A--TGA-AT-CGG-
1 GGAATCAACACTTAGCAACC-CTTTCACATTTAAGATACGGT
* *
62647689 AGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGT
1 GGAATCAACACTTAGCAA-CCCTTTCACATTTAAGATACGGT
*
62647731 GGAATCAGCACTTAGCAACC
1 GGAATCAACACTTAGCAACC
62647751 ACCAATGAAT
Statistics
Matches: 77, Mismatches: 7, Indels: 23
0.72 0.07 0.21
Matches are distributed among these distances:
33 17 0.22
34 5 0.06
35 2 0.03
36 4 0.05
37 1 0.01
38 1 0.01
39 4 0.05
40 2 0.03
41 7 0.09
42 34 0.44
ACGTcount: A:0.36, C:0.25, G:0.16, T:0.23
Consensus pattern (41 bp):
GGAATCAACACTTAGCAACCCTTTCACATTTAAGATACGGT
Found at i:62647713 original size:75 final size:75
Alignment explanation
Indices: 62647625--62647784 Score: 302
Period size: 75 Copynumber: 2.1 Consensus size: 75
62647615 GAATCAAAAT
*
62647625 TTAGCAATCCCTTTCACATTTAAGATACGGTGGAATCAACACTTAGCAACCACCAATGAATCGGA
1 TTAGCAACCCCTTTCACATTTAAGATACGGTGGAATCAACACTTAGCAACCACCAATGAATCGGA
62647690 GAATCAGCAC
66 GAATCAGCAC
*
62647700 TTAGCAACCCCTTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGA
1 TTAGCAACCCCTTTCACATTTAAGATACGGTGGAATCAACACTTAGCAACCACCAATGAATCGGA
62647765 GAATCAGCAC
66 GAATCAGCAC
62647775 TTAGCAACCC
1 TTAGCAACCC
62647785 TTTTATATTC
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
75 83 1.00
ACGTcount: A:0.35, C:0.27, G:0.16, T:0.22
Consensus pattern (75 bp):
TTAGCAACCCCTTTCACATTTAAGATACGGTGGAATCAACACTTAGCAACCACCAATGAATCGGA
GAATCAGCAC
Found at i:62651535 original size:121 final size:121
Alignment explanation
Indices: 62651321--62651561 Score: 482
Period size: 121 Copynumber: 2.0 Consensus size: 121
62651311 GCATATATGA
62651321 GGTAAATTATTGGACCAACTATTTCATAGTGATTGAAACAACAATAGTAACGCTCACCCACATGC
1 GGTAAATTATTGGACCAACTATTTCATAGTGATTGAAACAACAATAGTAACGCTCACCCACATGC
62651386 TGAGCATATCTTGAGAACAAATCATCAATTATGGTCTCTCCAAAATGACTAGCAAT
66 TGAGCATATCTTGAGAACAAATCATCAATTATGGTCTCTCCAAAATGACTAGCAAT
62651442 GGTAAATTATTGGACCAACTATTTCATAGTGATTGAAACAACAATAGTAACGCTCACCCACATGC
1 GGTAAATTATTGGACCAACTATTTCATAGTGATTGAAACAACAATAGTAACGCTCACCCACATGC
62651507 TGAGCATATCTTGAGAACAAATCATCAATTATGGTCTCTCCAAAATGACTAGCAA
66 TGAGCATATCTTGAGAACAAATCATCAATTATGGTCTCTCCAAAATGACTAGCAA
62651562 CCAAAGATTC
Statistics
Matches: 120, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
121 120 1.00
ACGTcount: A:0.37, C:0.21, G:0.15, T:0.27
Consensus pattern (121 bp):
GGTAAATTATTGGACCAACTATTTCATAGTGATTGAAACAACAATAGTAACGCTCACCCACATGC
TGAGCATATCTTGAGAACAAATCATCAATTATGGTCTCTCCAAAATGACTAGCAAT
Found at i:62659286 original size:18 final size:18
Alignment explanation
Indices: 62659263--62659299 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
62659253 CTTTTGATTT
*
62659263 TATAAAATTACATTAAAA
1 TATAAAAATACATTAAAA
62659281 TATAAAAATACATTAAAA
1 TATAAAAATACATTAAAA
62659299 T
1 T
62659300 CACATTACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.32
Consensus pattern (18 bp):
TATAAAAATACATTAAAA
Found at i:62662959 original size:30 final size:30
Alignment explanation
Indices: 62662923--62662996 Score: 112
Period size: 30 Copynumber: 2.5 Consensus size: 30
62662913 ATTTTAACTG
*
62662923 TATTTGCATTGTTGTTTGAGACAGTTTTTC
1 TATTTGCATTGTTGTTTGAGACAATTTTTC
* * *
62662953 TATTTGCATTGTTATTTGAGATAATTTTTG
1 TATTTGCATTGTTGTTTGAGACAATTTTTC
62662983 TATTTGCATTGTTG
1 TATTTGCATTGTTG
62662997 ACAATTTATT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.19, C:0.07, G:0.19, T:0.55
Consensus pattern (30 bp):
TATTTGCATTGTTGTTTGAGACAATTTTTC
Found at i:62669884 original size:41 final size:41
Alignment explanation
Indices: 62669839--62669931 Score: 109
Period size: 42 Copynumber: 2.2 Consensus size: 41
62669829 TTCTAATTAT
* * *
62669839 AAGCGTTTTTAACGGATTTG-CAAGAAAACAT-TTCCAGCTGA
1 AAGCGTTTTCAACGGA-TTGACAA-AAAAAATATTCCAACTGA
*
62669880 AAGCGTTTTCAATGGATTGACAAAAAAAATGATTCCAACTGA
1 AAGCGTTTTCAACGGATTGACAAAAAAAAT-ATTCCAACTGA
62669922 AAGCGTTTTC
1 AAGCGTTTTC
62669932 TGCCCCCAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
40 9 0.20
41 17 0.38
42 19 0.42
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.29
Consensus pattern (41 bp):
AAGCGTTTTCAACGGATTGACAAAAAAAATATTCCAACTGA
Found at i:62671994 original size:65 final size:65
Alignment explanation
Indices: 62671890--62672020 Score: 262
Period size: 65 Copynumber: 2.0 Consensus size: 65
62671880 AAACAAACCT
62671890 TTGGGCGATCCAAAGTGAGTGAACCAACACCAAATAAATTTAAGTTTAATTATGATTATAATCCA
1 TTGGGCGATCCAAAGTGAGTGAACCAACACCAAATAAATTTAAGTTTAATTATGATTATAATCCA
62671955 TTGGGCGATCCAAAGTGAGTGAACCAACACCAAATAAATTTAAGTTTAATTATGATTATAATCCA
1 TTGGGCGATCCAAAGTGAGTGAACCAACACCAAATAAATTTAAGTTTAATTATGATTATAATCCA
62672020 T
1 T
62672021 GTACTCTTTG
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 66 1.00
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (65 bp):
TTGGGCGATCCAAAGTGAGTGAACCAACACCAAATAAATTTAAGTTTAATTATGATTATAATCCA
Found at i:62673947 original size:27 final size:27
Alignment explanation
Indices: 62673916--62673968 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
62673906 ATACTCTTTA
*
62673916 AAAATTTGAAATTTAGTCCTTTTACTG
1 AAAATTTGAAATTTAATCCTTTTACTG
62673943 AAAATTTGAAATTTAATCCTTTTACT
1 AAAATTTGAAATTTAATCCTTTTACT
62673969 TTTCAAAATC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.36, C:0.11, G:0.08, T:0.45
Consensus pattern (27 bp):
AAAATTTGAAATTTAATCCTTTTACTG
Found at i:62676239 original size:20 final size:20
Alignment explanation
Indices: 62676216--62676253 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
62676206 CAAAATAATA
62676216 TATAAAAATTAAAAAAGTGT
1 TATAAAAATTAAAAAAGTGT
*
62676236 TATAAAAATTGAAAAAGT
1 TATAAAAATTAAAAAAGT
62676254 ATTTAAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.61, C:0.00, G:0.11, T:0.29
Consensus pattern (20 bp):
TATAAAAATTAAAAAAGTGT
Found at i:62676324 original size:15 final size:15
Alignment explanation
Indices: 62676304--62676334 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
62676294 CCTTTTTACA
62676304 ATTTTAGAATTATAT
1 ATTTTAGAATTATAT
*
62676319 ATTTTAGAATTTTAT
1 ATTTTAGAATTATAT
62676334 A
1 A
62676335 AAGAAAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (15 bp):
ATTTTAGAATTATAT
Found at i:62676380 original size:20 final size:20
Alignment explanation
Indices: 62676344--62676391 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
62676334 AAAGAAAATT
*
62676344 ATTTTTAAAACTTTTTTATA
1 ATTTTTAAAACTGTTTTATA
*
62676364 ATTTTTACAAA-TGTTTTACA
1 ATTTTTA-AAACTGTTTTATA
*
62676384 TTTTTTAA
1 ATTTTTAA
62676392 TAATATTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
19 1 0.04
20 20 0.83
21 3 0.12
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.58
Consensus pattern (20 bp):
ATTTTTAAAACTGTTTTATA
Found at i:62680116 original size:43 final size:42
Alignment explanation
Indices: 62680042--62680247 Score: 193
Period size: 43 Copynumber: 4.8 Consensus size: 42
62680032 ATGTCATATC
* * * *
62680042 CCAGATATGGTCTTACATGTAATCTCGTATCGATGCCAATAG-
1 CCAGACATGGTCTTACACGAAATCTCATATCGATGCCAAT-GT
* * *
62680084 CCTAGCCATGGTCTTACACGAAATCACATATCGATACCAATGT
1 CC-AGACATGGTCTTACACGAAATCTCATATCGATGCCAATGT
* * *
62680127 CCAAGACATGGTCTTACACG-AATCCTCATATCAATGTCATAT-C
1 CC-AGACATGGTCTTACACGAAAT-CTCATATCGATGCCA-ATGT
* ** *
62680170 CCAGATATGGTCTTACACGAAATCAAATATCGATGTCAATGT
1 CCAGACATGGTCTTACACGAAATCTCATATCGATGCCAATGT
* *
62680212 CGCAGGCATGGTCTTACACGAATTCTCATATCGATG
1 C-CAGACATGGTCTTACACGAAATCTCATATCGATG
62680248 ACATATCCCA
Statistics
Matches: 133, Mismatches: 24, Indels: 13
0.78 0.14 0.08
Matches are distributed among these distances:
41 2 0.02
42 35 0.26
43 94 0.71
44 2 0.02
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (42 bp):
CCAGACATGGTCTTACACGAAATCTCATATCGATGCCAATGT
Found at i:62680183 original size:85 final size:85
Alignment explanation
Indices: 62680091--62680272 Score: 276
Period size: 85 Copynumber: 2.1 Consensus size: 85
62680081 TAGCCTAGCC
*
62680091 ATGGTCTTACACGAAATCACATATCGATACCAATGTC-CAAGACATGGTCTTACACGAATCCTCA
1 ATGGTCTTACACGAAATCAAATATCGATACCAATGTCGC-AGACATGGTCTTACACGAATCCTCA
*
62680155 TATCAATGTCATATCCCAGAT
65 TATCAATGACATATCCCAGAT
** * *
62680176 ATGGTCTTACACGAAATCAAATATCGATGTCAATGTCGCAGGCATGGTCTTACACGAATTCTCAT
1 ATGGTCTTACACGAAATCAAATATCGATACCAATGTCGCAGACATGGTCTTACACGAATCCTCAT
*
62680241 ATCGATGACATATCCCAGAT
66 ATCAATGACATATCCCAGAT
*
62680261 ATGATCTTACAC
1 ATGGTCTTACAC
62680273 AGTAGCACAT
Statistics
Matches: 88, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
85 87 0.99
86 1 0.01
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.28
Consensus pattern (85 bp):
ATGGTCTTACACGAAATCAAATATCGATACCAATGTCGCAGACATGGTCTTACACGAATCCTCAT
ATCAATGACATATCCCAGAT
Found at i:62684697 original size:16 final size:16
Alignment explanation
Indices: 62684678--62684711 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
62684668 ATTCTAAATA
62684678 TTAT-TTTTTTAATAAT
1 TTATATTTTTT-ATAAT
62684694 TTATATTTTTTATAAT
1 TTATATTTTTTATAAT
62684710 TT
1 TT
62684712 TAAAAAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TTATATTTTTTATAAT
Found at i:62686743 original size:31 final size:31
Alignment explanation
Indices: 62686673--62686739 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 31
62686663 TAATTTGACC
*
62686673 AAATTTAG-TCTCTGTACTTTTTGAATTGGTT
1 AAATTTAGTTCTCTGTACTTTTCGAATT-GTT
62686704 AAATTTAGTTCT-TGTACTTTTCGAATT-TT
1 AAATTTAGTTCTCTGTACTTTTCGAATTGTT
62686733 GAAATTT
1 -AAATTT
62686740 TAGTCCTAGC
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
29 2 0.06
30 6 0.18
31 22 0.67
32 3 0.09
ACGTcount: A:0.25, C:0.09, G:0.13, T:0.52
Consensus pattern (31 bp):
AAATTTAGTTCTCTGTACTTTTCGAATTGTT
Found at i:62692757 original size:13 final size:13
Alignment explanation
Indices: 62692720--62692767 Score: 60
Period size: 13 Copynumber: 3.7 Consensus size: 13
62692710 TTCTTCATTA
62692720 CTTTTGAAAAGTG
1 CTTTTGAAAAGTG
* *
62692733 CTGTGGAAAAGTG
1 CTTTTGAAAAGTG
*
62692746 CTTTTGAGAAGTG
1 CTTTTGAAAAGTG
*
62692759 ATTTTGAAA
1 CTTTTGAAA
62692768 TTTTTGAGTG
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.31, C:0.06, G:0.27, T:0.35
Consensus pattern (13 bp):
CTTTTGAAAAGTG
Found at i:62695035 original size:9 final size:9
Alignment explanation
Indices: 62695017--62695048 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
62695007 CATCCATATA
62695017 ATTTTCAAT
1 ATTTTCAAT
*
62695026 ATTTTTAAT
1 ATTTTCAAT
62695035 ATTTTCAAT
1 ATTTTCAAT
62695044 ATTTT
1 ATTTT
62695049 TAAAGTCAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.62
Consensus pattern (9 bp):
ATTTTCAAT
Found at i:62695040 original size:18 final size:18
Alignment explanation
Indices: 62695017--62695051 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
62695007 CATCCATATA
62695017 ATTTTCAATATTTTTAAT
1 ATTTTCAATATTTTTAAT
62695035 ATTTTCAATATTTTTAA
1 ATTTTCAATATTTTTAA
62695052 AGTCAATGAA
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:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (18 bp):
ATTTTCAATATTTTTAAT
Found at i:62698837 original size:22 final size:22
Alignment explanation
Indices: 62698806--62698848 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
62698796 AACTTCAATG
62698806 TTTTAATTTTAAATATTATTAAA
1 TTTTAATTTTAAATATT-TTAAA
*
62698829 TTTT-ATTTTTAATATTTTAA
1 TTTTAATTTTAAATATTTTAA
62698849 TGAAAAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 4 0.21
22 11 0.58
23 4 0.21
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (22 bp):
TTTTAATTTTAAATATTTTAAA
Found at i:62698838 original size:23 final size:21
Alignment explanation
Indices: 62698806--62698848 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 21
62698796 AACTTCAATG
62698806 TTTTAATTTTAAATATTATTAAA
1 TTTTAATTTT-AATATT-TTAAA
*
62698829 TTTTATTTTTAATATTTTAA
1 TTTTAATTTTAATATTTTAA
62698849 TGAAAAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 4 0.21
22 6 0.32
23 9 0.47
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (21 bp):
TTTTAATTTTAATATTTTAAA
Done.