Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr7
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 47983841
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869652 characters in sequence are not A, C, G, or T
File 132 of 153
Found at i:41453279 original size:265 final size:264
Alignment explanation
Indices: 41452806--41453306 Score: 975
Period size: 265 Copynumber: 1.9 Consensus size: 264
41452796 ATTGAAATCG
41452806 CTCAAAACAGCAAAATTGGACCAAGATTCAGTTTCTTGATTTTCTTGAAAACAAGAAAGTGAATC
1 CTCAAAACAGCAAAATTGGACCAAGATTCAGTTTCTTGATTTTCTTGAAAACAAGAAAGTGAATC
41452871 TTGATTTTCTTTTTCCTTTGTGTACGCATCTAAGGCCTTGCTAATGAAGTCTTGAATGGTTCAAT
66 TTGATTTTCTTTTTCCTTTGTGTACGCATCTAAGGCCTTGCTAATGAAGTCTTGAATGGTTCAAT
41452936 TTAGTTTCATACGCATTTGCCTGACCTTTGACCTCGTTACTGGGCCTTGTGGTAATTTGAGCCCA
131 TTAGTTTCATACGCATTTGCCTGACCTTTGACCTCGTTACTGGGCCTTGTGGTAATTTGAGCCCA
*
41453001 TCACGTTCTTGAGCTTGAGTTGGGCCTTTGTGACTCGTATCAATTCTTGTTTCCTTTTTGCCTCT
196 TCACGTTCTTGAGCTTGAGTTGGGCC-TTATGACTCGTATCAATTCTTGTTTCCTTTTTGCCTCT
41453066 ATTTA
260 ATTTA
*
41453071 CTCAAAATAGCAAAATTGGACCAAGATTCAGTTTCTTGATTTTCTTGAAAACAAGAAAGTGAATC
1 CTCAAAACAGCAAAATTGGACCAAGATTCAGTTTCTTGATTTTCTTGAAAACAAGAAAGTGAATC
41453136 TTGATTTTCTTTTTCCTTTGTGTACGCATCTAAGGCCTTGCTAATGAAGTCTTGAATGGTTCAAT
66 TTGATTTTCTTTTTCCTTTGTGTACGCATCTAAGGCCTTGCTAATGAAGTCTTGAATGGTTCAAT
41453201 TTAGTTTCATACGCATTTGCCTGACCTTTGACCTCGTTACTGGGCCTTGTGGTAATTTGAGCCCA
131 TTAGTTTCATACGCATTTGCCTGACCTTTGACCTCGTTACTGGGCCTTGTGGTAATTTGAGCCCA
41453266 TCACGTTCTTGAGCTTGAGTTGGGCCTTATGACTCGTATCA
196 TCACGTTCTTGAGCTTGAGTTGGGCCTTATGACTCGTATCA
41453307 TTCCCCCTTC
Statistics
Matches: 234, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
264 14 0.06
265 220 0.94
ACGTcount: A:0.23, C:0.20, G:0.19, T:0.38
Consensus pattern (264 bp):
CTCAAAACAGCAAAATTGGACCAAGATTCAGTTTCTTGATTTTCTTGAAAACAAGAAAGTGAATC
TTGATTTTCTTTTTCCTTTGTGTACGCATCTAAGGCCTTGCTAATGAAGTCTTGAATGGTTCAAT
TTAGTTTCATACGCATTTGCCTGACCTTTGACCTCGTTACTGGGCCTTGTGGTAATTTGAGCCCA
TCACGTTCTTGAGCTTGAGTTGGGCCTTATGACTCGTATCAATTCTTGTTTCCTTTTTGCCTCTA
TTTA
Found at i:41453456 original size:33 final size:34
Alignment explanation
Indices: 41453405--41453479 Score: 116
Period size: 33 Copynumber: 2.2 Consensus size: 34
41453395 AGAGTTAAAC
*
41453405 AAATTAATTACTAACACTTATTTAAGTTGAACTA
1 AAATTAATTACTAACACTTATTTAAGCTGAACTA
*
41453439 AAATTAATT-CTAACACTTATTTGAGCTGAACTA
1 AAATTAATTACTAACACTTATTTAAGCTGAACTA
*
41453472 AATTTAAT
1 AAATTAAT
41453480 AAACCAACTC
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
33 29 0.76
34 9 0.24
ACGTcount: A:0.43, C:0.12, G:0.07, T:0.39
Consensus pattern (34 bp):
AAATTAATTACTAACACTTATTTAAGCTGAACTA
Found at i:41457405 original size:14 final size:13
Alignment explanation
Indices: 41457363--41457410 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 13
41457353 TACGAAAAAA
41457363 AAGAAAAAAATCG
1 AAGAAAAAAATCG
*
41457376 AA-AAAAAGAGTACG
1 AAGAAAAA-AAT-CG
41457390 AAGTAAAAAAATCG
1 AAG-AAAAAAATCG
41457404 AAGAAAA
1 AAGAAAA
41457411 GTGAAGTGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
12 5 0.17
13 8 0.28
14 9 0.31
15 2 0.07
16 5 0.17
ACGTcount: A:0.69, C:0.06, G:0.17, T:0.08
Consensus pattern (13 bp):
AAGAAAAAAATCG
Found at i:41458343 original size:12 final size:12
Alignment explanation
Indices: 41458314--41458388 Score: 64
Period size: 12 Copynumber: 6.2 Consensus size: 12
41458304 AAACAACATG
41458314 TGAAAAAGAAAA
1 TGAAAAAGAAAA
** *
41458326 ACAAAAAGAAAT
1 TGAAAAAGAAAA
41458338 TGAAAAAGAAAA
1 TGAAAAAGAAAA
* *
41458350 TG-AACATAAAA
1 TGAAAAAGAAAA
*
41458361 -GAAAACAAGAAAT
1 TG-AAA-AAGAAAA
41458374 TGAAAAAGAAAA
1 TGAAAAAGAAAA
41458386 TGA
1 TGA
41458389 GAGTGAGATT
Statistics
Matches: 47, Mismatches: 12, Indels: 8
0.70 0.18 0.12
Matches are distributed among these distances:
10 1 0.02
11 7 0.15
12 31 0.66
13 7 0.15
14 1 0.02
ACGTcount: A:0.71, C:0.04, G:0.15, T:0.11
Consensus pattern (12 bp):
TGAAAAAGAAAA
Found at i:41458422 original size:27 final size:26
Alignment explanation
Indices: 41458375--41458431 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 26
41458365 ACAAGAAATT
* *
41458375 GAAAAAGAAAATGAGAGTGAGATTGA
1 GAAAAAGAAAAAGAAAGTGAGATTGA
*
41458401 GAAAAAGAAAAAAGAAATTGAGATTGA
1 GAAAAAG-AAAAAGAAAGTGAGATTGA
41458428 -AAAA
1 GAAAA
41458432 GGATGTGAGA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 11 0.41
27 16 0.59
ACGTcount: A:0.61, C:0.00, G:0.25, T:0.14
Consensus pattern (26 bp):
GAAAAAGAAAAAGAAAGTGAGATTGA
Found at i:41458430 original size:45 final size:45
Alignment explanation
Indices: 41458357--41458467 Score: 118
Period size: 45 Copynumber: 2.4 Consensus size: 45
41458347 AAATGAACAT
* **
41458357 AAAAGAAAACAAGAAATTGAAAAAGAAAATGAGA-GTGAGATTGAGA
1 AAAAGAAAA-AAGAAATTGAAAAAGAAAAAG-GATGTGAGAAAGAGA
* **
41458403 AAAAGAAAAAAGAAATTGAGATTGAAAAAGGATGTGAGAAAGAGA
1 AAAAGAAAAAAGAAATTGAAAAAGAAAAAGGATGTGAGAAAGAGA
*
41458448 AAATTG-AAAAAGAAATTGAA
1 AAA-AGAAAAAAGAAATTGAA
41458468 GGAAGAAGAG
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
44 2 0.04
45 43 0.78
46 10 0.18
ACGTcount: A:0.61, C:0.01, G:0.23, T:0.14
Consensus pattern (45 bp):
AAAAGAAAAAAGAAATTGAAAAAGAAAAAGGATGTGAGAAAGAGA
Found at i:41458466 original size:39 final size:39
Alignment explanation
Indices: 41458370--41458467 Score: 90
Period size: 39 Copynumber: 2.5 Consensus size: 39
41458360 AGAAAACAAG
* * **
41458370 AAATTGAAAAAGAAAATGAGAGTGAGATTGAGAAAAAGA
1 AAATTGAAAAAGAAATTGAAAAAGAGATTGAGAAAAAGA
** ** * *
41458409 AAAAAGAAATTGAGATTGAAAAAG-GATGTGAGAAAGAGA
1 AAATTGAAAAAGAAATTGAAAAAGAGAT-TGAGAAAAAGA
41458448 AAATTGAAAAAGAAATTGAA
1 AAATTGAAAAAGAAATTGAA
41458468 GGAAGAAGAG
Statistics
Matches: 43, Mismatches: 15, Indels: 2
0.72 0.25 0.03
Matches are distributed among these distances:
38 3 0.07
39 40 0.93
ACGTcount: A:0.59, C:0.00, G:0.24, T:0.16
Consensus pattern (39 bp):
AAATTGAAAAAGAAATTGAAAAAGAGATTGAGAAAAAGA
Found at i:41464386 original size:50 final size:50
Alignment explanation
Indices: 41464311--41464413 Score: 197
Period size: 50 Copynumber: 2.1 Consensus size: 50
41464301 TCCGAACTTC
*
41464311 GGTAACATTTCTTGGAGGCTTCCAGTTAAGTATGGCTGAAATTTTGCTCG
1 GGTAACATTTCTCGGAGGCTTCCAGTTAAGTATGGCTGAAATTTTGCTCG
41464361 GGTAACATTTCTCGGAGGCTTCCAGTTAAGTATGGCTGAAATTTTGCTCG
1 GGTAACATTTCTCGGAGGCTTCCAGTTAAGTATGGCTGAAATTTTGCTCG
41464411 GGT
1 GGT
41464414 CAACTCGAAT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 52 1.00
ACGTcount: A:0.21, C:0.17, G:0.27, T:0.35
Consensus pattern (50 bp):
GGTAACATTTCTCGGAGGCTTCCAGTTAAGTATGGCTGAAATTTTGCTCG
Found at i:41464898 original size:50 final size:50
Alignment explanation
Indices: 41464823--41464926 Score: 199
Period size: 50 Copynumber: 2.1 Consensus size: 50
41464813 CTAAAAGATC
41464823 TGAACATGTTTTGCATGATAATGATTTTGAGCTGCATAGTGTTCTTTCTA
1 TGAACATGTTTTGCATGATAATGATTTTGAGCTGCATAGTGTTCTTTCTA
*
41464873 TGAACATGTTTTGCATGATAATGATTTTGAGCTGCTTAGTGTTCTTTCTA
1 TGAACATGTTTTGCATGATAATGATTTTGAGCTGCATAGTGTTCTTTCTA
41464923 TGAA
1 TGAA
41464927 GTCTGTCATG
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 53 1.00
ACGTcount: A:0.24, C:0.12, G:0.20, T:0.44
Consensus pattern (50 bp):
TGAACATGTTTTGCATGATAATGATTTTGAGCTGCATAGTGTTCTTTCTA
Found at i:41467191 original size:28 final size:28
Alignment explanation
Indices: 41467128--41467333 Score: 299
Period size: 28 Copynumber: 7.4 Consensus size: 28
41467118 ATATTAAGTC
* *
41467128 CGCACACTCAGAGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
41467155 TGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
41467183 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
41467211 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
41467239 CGCACACTT-GTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
41467266 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
41467294 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
41467323 CGCACACTTAG
1 CGCACACTTAG
41467334 CGCCAATTTC
Statistics
Matches: 166, Mismatches: 10, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
27 47 0.28
28 103 0.62
29 16 0.10
ACGTcount: A:0.34, C:0.28, G:0.12, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:41467199 original size:55 final size:56
Alignment explanation
Indices: 41467128--41467333 Score: 308
Period size: 55 Copynumber: 3.7 Consensus size: 56
41467118 ATATTAAGTC
* * * *
41467128 CGCACACTCAGAGCTATATAATC-AACTTGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTACATAATCAAACT
41467183 CGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTACATAATCAAACT
*
41467239 CGCACACTT-GTGCTACATAATCAAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTACATAATCAAACT
* * * *
41467294 CGCACACTTAGTGCTGTACAATTTAAACCCGCACACTTAG
1 CGCACACTTAGTGCTATATAA-TCAAACTCGCACACTTAG
41467334 CGCCAATTTC
Statistics
Matches: 138, Mismatches: 10, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
55 75 0.54
56 47 0.34
57 16 0.12
ACGTcount: A:0.34, C:0.28, G:0.12, T:0.26
Consensus pattern (56 bp):
CGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:41467232 original size:83 final size:83
Alignment explanation
Indices: 41467128--41467308 Score: 292
Period size: 83 Copynumber: 2.2 Consensus size: 83
41467118 ATATTAAGTC
* * * * *
41467128 CGCACACTCAGAGCTATATAATC-AACTTGCACACTTAGTGCTATATAATCAAACTCGCACACTT
1 CGCACACTTAGTGCTACATAATCAAACTCGCACACTT-GTGCTACATAATCAAACTCGCACACTT
*
41467192 AGTGCTATATAATCAAACT
65 AGTGCTACATAATCAAACT
41467211 CGCACACTTAGTGCTACATAATCAAACTCGCACACTTGTGCTACATAATCAAACTCGCACACTTA
1 CGCACACTTAGTGCTACATAATCAAACTCGCACACTTGTGCTACATAATCAAACTCGCACACTTA
41467276 GTGCTACATAATCAAACT
66 GTGCTACATAATCAAACT
41467294 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
41467309 GTACAATTTA
Statistics
Matches: 91, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
83 79 0.87
84 12 0.13
ACGTcount: A:0.34, C:0.28, G:0.12, T:0.27
Consensus pattern (83 bp):
CGCACACTTAGTGCTACATAATCAAACTCGCACACTTGTGCTACATAATCAAACTCGCACACTTA
GTGCTACATAATCAAACT
Found at i:41469040 original size:46 final size:46
Alignment explanation
Indices: 41468973--41469062 Score: 171
Period size: 46 Copynumber: 2.0 Consensus size: 46
41468963 TCTTGCAATT
41468973 TCTTCCAAAATCGCGAGGTGAATCTCGGATCTCTATCCGACACGTC
1 TCTTCCAAAATCGCGAGGTGAATCTCGGATCTCTATCCGACACGTC
*
41469019 TCTTCCAAAATCGTGAGGTGAATCTCGGATCTCTATCCGACACG
1 TCTTCCAAAATCGCGAGGTGAATCTCGGATCTCTATCCGACACG
41469063 ATAGAAATAG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (46 bp):
TCTTCCAAAATCGCGAGGTGAATCTCGGATCTCTATCCGACACGTC
Found at i:41469271 original size:25 final size:25
Alignment explanation
Indices: 41469232--41469283 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
41469222 NNNNNNNNNN
* * *
41469232 TACATAAGTTTCATAATACACAACT
1 TACATAACTTACATAAGACACAACT
*
41469257 TACATAACTTACATAAGACATAACT
1 TACATAACTTACATAAGACACAACT
41469282 TA
1 TA
41469284 TTCCTAAATC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.46, C:0.19, G:0.04, T:0.31
Consensus pattern (25 bp):
TACATAACTTACATAAGACACAACT
Found at i:41474765 original size:21 final size:21
Alignment explanation
Indices: 41474739--41474778 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
41474729 CAACAACTTA
*
41474739 AAGCAGAGGCGGCAGCGAGGG
1 AAGCAGAGGCGACAGCGAGGG
*
41474760 AAGCAGAGGCTACAGCGAG
1 AAGCAGAGGCGACAGCGAG
41474779 ACAAGGAGAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.33, C:0.20, G:0.45, T:0.03
Consensus pattern (21 bp):
AAGCAGAGGCGACAGCGAGGG
Found at i:41475353 original size:85 final size:84
Alignment explanation
Indices: 41475259--41475549 Score: 369
Period size: 85 Copynumber: 3.4 Consensus size: 84
41475249 GTTTGTGAAA
* * * *
41475259 TAAGTGCCGCTAAAGAACACT-ACTTTTAGCGGCATTTT-TGACCAAGCGCCGCTATAGAACATT
1 TAAGCGCCGCTAAAGAACA-TGA-TTTTAGCGGCATTTTCT-TCCAAGCGCCGCTAAAGAACATG
41475322 ACTTTTAGCGGCGTTTTCTTCC
63 ACTTTTAGCGGCGTTTTCTTCC
* * *
41475344 TAAGCGCCGCTAAAGAAGATGATTTTTAGCGGCGTTTTCTTCCTAAGCGCCGCTAAATAACATGA
1 TAAGCGCCGCTAAAGAACATGA-TTTTAGCGGCATTTTCTTCC-AAGCGCCGCTAAAGAACATGA
41475409 -TCTTTAGCGGCGTTTTCTT-C
64 CT-TTTAGCGGCGTTTTCTTCC
*
41475429 AAAGCGCCGCTAAAGAACATGATCTTTAGCGGCATTTTCTTCCAAGCGCCGCTAAAGAACATGAC
1 TAAGCGCCGCTAAAGAACATGAT-TTTAGCGGCATTTTCTTCCAAGCGCCGCTAAAGAACATGAC
*
41475494 CTTTAGCGGCG-TTT-TTCC
65 TTTTAGCGGCGTTTTCTTCC
* *
41475512 CAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTT
1 TAAGCGCCGCTAAAGAACATGAT-TTTAGCGGCATTTT
41475550 TTTCAGTTAG
Statistics
Matches: 184, Mismatches: 15, Indels: 16
0.86 0.07 0.07
Matches are distributed among these distances:
82 2 0.01
83 40 0.22
84 32 0.17
85 74 0.40
86 36 0.20
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (84 bp):
TAAGCGCCGCTAAAGAACATGATTTTAGCGGCATTTTCTTCCAAGCGCCGCTAAAGAACATGACT
TTTAGCGGCGTTTTCTTCC
Found at i:41475371 original size:43 final size:43
Alignment explanation
Indices: 41475259--41475549 Score: 375
Period size: 42 Copynumber: 6.9 Consensus size: 43
41475249 GTTTGTGAAA
* * *
41475259 TAAGTGCCGCTAAAGAACACT-A-CTTTTAGCGGCATTTT-TGACC
1 TAAGCGCCGCTAAAGAACA-TGATC-TTTAGCGGCGTTTTCT-TCC
* *
41475302 -AAGCGCCGCTATAGAACATTA-CTTTTAGCGGCGTTTTCTTCC
1 TAAGCGCCGCTAAAGAACATGATC-TTTAGCGGCGTTTTCTTCC
* *
41475344 TAAGCGCCGCTAAAGAAGATGATTTTTAGCGGCGTTTTCTTCC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTCTTCC
*
41475387 TAAGCGCCGCTAAATAACATGATCTTTAGCGGCGTTTTCTT-C
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTCTTCC
* *
41475429 AAAGCGCCGCTAAAGAACATGATCTTTAGCGGCATTTTCTTCC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTCTTCC
*
41475472 -AAGCGCCGCTAAAGAACATGACCTTTAGCGGCG-TTT-TTCC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTCTTCC
*
41475512 CAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTT
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTT
41475550 TTTCAGTTAG
Statistics
Matches: 224, Mismatches: 17, Indels: 15
0.88 0.07 0.06
Matches are distributed among these distances:
40 4 0.02
41 36 0.16
42 107 0.48
43 77 0.34
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (43 bp):
TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTCTTCC
Found at i:41475436 original size:128 final size:125
Alignment explanation
Indices: 41475264--41475554 Score: 383
Period size: 128 Copynumber: 2.3 Consensus size: 125
41475254 TGAAATAAGT
* * * * *
41475264 GCCGCTAAAGAACACT-A-CTTTTAGCGGCATTTT-TGACCAAGCGCCGCTATAGAACATTA-CT
1 GCCGCTAAAGAACA-TGATC-TTTAGCGGCGTTTTCT-TCAAAGCGCCGCTAAAGAACATGATC-
* * ** *
41475325 TTTAGCGGCGTTTTCTTCCTAAGCGCCGCTAAAGAAGATGATTTTTAGCGGCGTTTTCTTCCTAA
62 TTTAGCGGCATTTTCTTCC-AAGCGCCGCTAAAGAACATGACCTTTAGCGGCG-TTT-TTCCCAA
41475390 GC
124 GC
*
41475392 GCCGCTAAATAACATGATCTTTAGCGGCGTTTTCTTCAAAGCGCCGCTAAAGAACATGATCTTTA
1 GCCGCTAAAGAACATGATCTTTAGCGGCGTTTTCTTCAAAGCGCCGCTAAAGAACATGATCTTTA
41475457 GCGGCATTTTCTTCCAAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTTTCCCAAGC
66 GCGGCATTTTCTTCCAAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTTTCCCAAGC
*
41475517 GCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCA
1 GCCGCTAAAGAACATGATCTTTAGCGGCGTTTTCTTCA
41475555 GTTAGCGACG
Statistics
Matches: 146, Mismatches: 13, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
125 44 0.30
126 3 0.02
127 31 0.21
128 65 0.45
129 3 0.02
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (125 bp):
GCCGCTAAAGAACATGATCTTTAGCGGCGTTTTCTTCAAAGCGCCGCTAAAGAACATGATCTTTA
GCGGCATTTTCTTCCAAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTTTCCCAAGC
Found at i:41475734 original size:21 final size:21
Alignment explanation
Indices: 41475710--41475750 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
41475700 TAAATCTTAA
41475710 AGATACTAATAATATAATAAT
1 AGATACTAATAATATAATAAT
* *
41475731 AGATACTAATACTATCATAA
1 AGATACTAATAATATAATAA
41475751 CAATAAAAAA
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:0.54, C:0.10, G:0.05, T:0.32
Consensus pattern (21 bp):
AGATACTAATAATATAATAAT
Found at i:41485798 original size:26 final size:26
Alignment explanation
Indices: 41485767--41485823 Score: 114
Period size: 26 Copynumber: 2.2 Consensus size: 26
41485757 ACTTCTAAAG
41485767 AAAACCCAAGAGAGAATTCTTGGAGA
1 AAAACCCAAGAGAGAATTCTTGGAGA
41485793 AAAACCCAAGAGAGAATTCTTGGAGA
1 AAAACCCAAGAGAGAATTCTTGGAGA
41485819 AAAAC
1 AAAAC
41485824 TAAACAAGAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.49, C:0.16, G:0.21, T:0.14
Consensus pattern (26 bp):
AAAACCCAAGAGAGAATTCTTGGAGA
Found at i:41485833 original size:27 final size:26
Alignment explanation
Indices: 41485767--41485839 Score: 92
Period size: 26 Copynumber: 2.8 Consensus size: 26
41485757 ACTTCTAAAG
* *
41485767 AAAACCCAAGAGAGAATTCTTGGAGA
1 AAAACCAAAAAGAGAATTCTTGGAGA
* *
41485793 AAAACCCAAGAGAGAATTCTTGGAGA
1 AAAACCAAAAAGAGAATTCTTGGAGA
*
41485819 AAAACTAAACAAGAGAATTCT
1 AAAACCAAA-AAGAGAATTCT
41485840 GCACTTAAAC
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
26 33 0.77
27 10 0.23
ACGTcount: A:0.49, C:0.15, G:0.19, T:0.16
Consensus pattern (26 bp):
AAAACCAAAAAGAGAATTCTTGGAGA
Found at i:41485848 original size:95 final size:93
Alignment explanation
Indices: 41485637--41485812 Score: 300
Period size: 95 Copynumber: 1.9 Consensus size: 93
41485627 AAGATGGCTC
41485637 CCACAATCAAAAGATTGTTAAAACAACTTCTAAAGAAAACCCAAGAGAGAATTCTTGGAGAAAAA
1 CCACAATCAAAAGATTGTTAAAACAACTTCTAAAGAAAACCCAAGAGAGAATTCTTGGAGAAAAA
*
41485702 CTAAACACGAGAATTCTGCACTTAAACAAA
66 CCAAACACGAGAATTCTGCA--TAAACAAA
41485732 CCACAATCAAAAGATTGTTAAAACAACTTCTAAAGAAAACCCAAGAGAGAATTCTTGGAGAAAAA
1 CCACAATCAAAAGATTGTTAAAACAACTTCTAAAGAAAACCCAAGAGAGAATTCTTGGAGAAAAA
* *
41485797 CCCAAGA-GAGAATTCT
66 CCAAACACGAGAATTCT
41485813 TGGAGAAAAA
Statistics
Matches: 78, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
94 9 0.12
95 69 0.88
ACGTcount: A:0.49, C:0.19, G:0.14, T:0.19
Consensus pattern (93 bp):
CCACAATCAAAAGATTGTTAAAACAACTTCTAAAGAAAACCCAAGAGAGAATTCTTGGAGAAAAA
CCAAACACGAGAATTCTGCATAAACAAA
Found at i:41489957 original size:13 final size:14
Alignment explanation
Indices: 41489933--41489962 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
41489923 TAAAGTTAAT
41489933 AATAATAATAAAAA
1 AATAATAATAAAAA
41489947 AATAA-AATAAAAA
1 AATAATAATAAAAA
41489960 AAT
1 AAT
41489963 TAAACTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.69
14 5 0.31
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (14 bp):
AATAATAATAAAAA
Found at i:41490739 original size:25 final size:25
Alignment explanation
Indices: 41490691--41490739 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
41490681 CATAACTGAA
* * *
41490691 ATGAAATGGATTGATTTTGTATATT
1 ATGAAATAGATTGATTATGAATATT
*
41490716 ATGAAATATATTGATTATGAATAT
1 ATGAAATAGATTGATTATGAATAT
41490740 ATGTGTATTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.16, T:0.45
Consensus pattern (25 bp):
ATGAAATAGATTGATTATGAATATT
Found at i:41495286 original size:14 final size:15
Alignment explanation
Indices: 41495269--41495327 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 15
41495259 AATAAGTTTA
41495269 ATTAT-TTTAATAAT
1 ATTATATTTAATAAT
*
41495283 ATTATAATTAAAATCAAAT
1 ATTAT-ATT-TAAT--AAT
41495302 AATTAT-TTTAATAAT
1 -ATTATATTTAATAAT
41495317 ATTATATTTAA
1 ATTATATTTAA
41495328 AATCAAATAT
Statistics
Matches: 36, Mismatches: 2, Indels: 13
0.71 0.04 0.25
Matches are distributed among these distances:
14 10 0.28
15 8 0.22
16 2 0.06
17 6 0.17
18 2 0.06
19 3 0.08
20 5 0.14
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (15 bp):
ATTATATTTAATAAT
Found at i:41495310 original size:34 final size:34
Alignment explanation
Indices: 41495267--41495341 Score: 132
Period size: 34 Copynumber: 2.2 Consensus size: 34
41495257 ATAATAAGTT
41495267 TAATTATTTTAATAATATTATAATTAAAATCAAA
1 TAATTATTTTAATAATATTATAATTAAAATCAAA
*
41495301 TAATTATTTTAATAATATTATATTTAAAATCAAA
1 TAATTATTTTAATAATATTATAATTAAAATCAAA
41495335 TATATTA
1 TA-ATTA
41495342 AAAGCAACAG
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
34 35 0.90
35 4 0.10
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.47
Consensus pattern (34 bp):
TAATTATTTTAATAATATTATAATTAAAATCAAA
Found at i:41496697 original size:19 final size:17
Alignment explanation
Indices: 41496673--41496710 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 17
41496663 TTTAATTATT
41496673 TTATTAATATTATTTGATA
1 TTATTAATATT-TTTG-TA
41496692 TTATTAATATTTTTGTA
1 TTATTAATATTTTTGTA
41496709 TT
1 TT
41496711 GTGAAGTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.21
18 4 0.21
19 11 0.58
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (17 bp):
TTATTAATATTTTTGTA
Found at i:41497149 original size:15 final size:16
Alignment explanation
Indices: 41497129--41497163 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
41497119 AATTCACAAT
41497129 TAAATTTT-TATCATA
1 TAAATTTTATATCATA
*
41497144 TAAATTTTATATCTTA
1 TAAATTTTATATCATA
41497160 TAAA
1 TAAA
41497164 AATATTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (16 bp):
TAAATTTTATATCATA
Found at i:41497619 original size:19 final size:19
Alignment explanation
Indices: 41497595--41497632 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
41497585 TTTTTAAAAT
41497595 AATTAAG-TTTACTTTTTAA
1 AATTAAGATTTA-TTTTTAA
41497614 AATTAAGATTTATTTTTAA
1 AATTAAGATTTATTTTTAA
41497633 TTTAATGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.39, C:0.03, G:0.05, T:0.53
Consensus pattern (19 bp):
AATTAAGATTTATTTTTAA
Found at i:41498066 original size:15 final size:16
Alignment explanation
Indices: 41498048--41498078 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
41498038 TTAAAAAAGC
41498048 TTCA-TGAATAAAAAA
1 TTCATTGAATAAAAAA
41498063 TTCATTGAATAAAAAA
1 TTCATTGAATAAAAAA
41498079 ATATATCTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.29
Consensus pattern (16 bp):
TTCATTGAATAAAAAA
Found at i:41500618 original size:6 final size:6
Alignment explanation
Indices: 41500607--41500639 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
41500597 ATTCTAGACC
41500607 TTCCTA TTCCTA TTCCTA TTCCTA TTCCTA TTC
1 TTCCTA TTCCTA TTCCTA TTCCTA TTCCTA TTC
41500640 TTCATCATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.15, C:0.33, G:0.00, T:0.52
Consensus pattern (6 bp):
TTCCTA
Found at i:41500975 original size:5 final size:5
Alignment explanation
Indices: 41500965--41501011 Score: 51
Period size: 5 Copynumber: 9.2 Consensus size: 5
41500955 TGAAGTTTTC
* *
41500965 TCGAA TCGAA TCGAG T-GAGA TGGAA TTCGAA TCGAA TCGAA TCGAA T
1 TCGAA TCGAA TCGAA TCGA-A TCGAA -TCGAA TCGAA TCGAA TCGAA T
41501012 ATATTTGTTC
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
4 2 0.06
5 28 0.78
6 6 0.17
ACGTcount: A:0.36, C:0.15, G:0.26, T:0.23
Consensus pattern (5 bp):
TCGAA
Found at i:41509227 original size:9 final size:9
Alignment explanation
Indices: 41509213--41509267 Score: 83
Period size: 9 Copynumber: 6.1 Consensus size: 9
41509203 TATAGTTTGA
41509213 TATTCGAAT
1 TATTCGAAT
41509222 TATTCGAAT
1 TATTCGAAT
* *
41509231 TATTTGAGT
1 TATTCGAAT
41509240 TATTCGAAT
1 TATTCGAAT
*
41509249 TATTCGAGT
1 TATTCGAAT
41509258 TATTCGAAT
1 TATTCGAAT
41509267 T
1 T
41509268 CGAAAACTCA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 40 1.00
ACGTcount: A:0.29, C:0.09, G:0.15, T:0.47
Consensus pattern (9 bp):
TATTCGAAT
Found at i:41509242 original size:18 final size:18
Alignment explanation
Indices: 41509213--41509267 Score: 92
Period size: 18 Copynumber: 3.1 Consensus size: 18
41509203 TATAGTTTGA
*
41509213 TATTCGAATTATTCGAAT
1 TATTCGAGTTATTCGAAT
*
41509231 TATTTGAGTTATTCGAAT
1 TATTCGAGTTATTCGAAT
41509249 TATTCGAGTTATTCGAAT
1 TATTCGAGTTATTCGAAT
41509267 T
1 T
41509268 CGAAAACTCA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.29, C:0.09, G:0.15, T:0.47
Consensus pattern (18 bp):
TATTCGAGTTATTCGAAT
Found at i:41509338 original size:9 final size:9
Alignment explanation
Indices: 41509321--41509351 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
41509311 TCGAGTTGAT
41509321 TCGAATAAC
1 TCGAATAAC
*
41509330 TCGATTAAC
1 TCGAATAAC
41509339 TCGAATAAC
1 TCGAATAAC
41509348 TCGA
1 TCGA
41509352 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:41512158 original size:18 final size:18
Alignment explanation
Indices: 41512125--41512160 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
41512115 TGCTTATTCT
*
41512125 CTCTTTTTTTCGGTTTTA
1 CTCTTTTTTTCAGTTTTA
*
41512143 CTCTTTTTTTTAGTTTTA
1 CTCTTTTTTTCAGTTTTA
41512161 ATTTTTAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.08, C:0.14, G:0.08, T:0.69
Consensus pattern (18 bp):
CTCTTTTTTTCAGTTTTA
Found at i:41513592 original size:36 final size:37
Alignment explanation
Indices: 41513545--41513614 Score: 106
Period size: 36 Copynumber: 1.9 Consensus size: 37
41513535 ATTGCTTTTA
* *
41513545 TTTTCTGCCGATTTGGT-CCCAGTTTATTTTCTTGCC
1 TTTTCTGCCGATTTGCTCCCCAGATTATTTTCTTGCC
*
41513581 TTTTCTGCCGATTTGCTCCCCCGATTATTTTCTT
1 TTTTCTGCCGATTTGCTCCCCAGATTATTTTCTT
41513615 TTCTATTTCG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
36 16 0.53
37 14 0.47
ACGTcount: A:0.09, C:0.27, G:0.14, T:0.50
Consensus pattern (37 bp):
TTTTCTGCCGATTTGCTCCCCAGATTATTTTCTTGCC
Found at i:41518789 original size:29 final size:28
Alignment explanation
Indices: 41518757--41518843 Score: 74
Period size: 28 Copynumber: 3.1 Consensus size: 28
41518747 TCATAAGAAC
41518757 ATTTTATGAAATTATATTTAATAATAATT
1 ATTTTAT-AAATTATATTTAATAATAATT
* * *
41518786 A-TTT-TAAATTGTATTAAATCAT-A-T
1 ATTTTATAAATTATATTTAATAATAATT
* *
41518810 ATTTTAATTAAAATATATTTAATATTAATT
1 ATTTT-A-TAAATTATATTTAATAATAATT
41518840 ATTT
1 ATTT
41518844 CAAATTTTCA
Statistics
Matches: 44, Mismatches: 8, Indels: 11
0.70 0.13 0.17
Matches are distributed among these distances:
24 2 0.05
25 4 0.09
26 14 0.32
27 1 0.02
28 16 0.36
29 2 0.05
30 5 0.11
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.53
Consensus pattern (28 bp):
ATTTTATAAATTATATTTAATAATAATT
Found at i:41518905 original size:66 final size:63
Alignment explanation
Indices: 41518830--41519040 Score: 176
Period size: 66 Copynumber: 3.4 Consensus size: 63
41518820 AAATATATTT
*
41518830 AATATTAATTATTTCAAATTTTCATTTATTGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTATTT-AAATTTT-ATTTAATGTATCATATATTATGATTTGAGTAAATT-ATATAA
41518895 G
63 G
* * * **
41518896 AATATTAATTATTAAGAATTTTATTAAAT-TAT-ATAT-TT-T-AATT-A--AAA-TATAT-TT
1 AATATTAATTATTTA-AATTTTATTTAATGTATCATATATTATGATTTGAGTAAATTATATAAG
*
41518950 AATAATAATTATGTT-AATTTATATTTTACA-GTATCATATATTATGATTTGAGTAAATTAATAT
1 AATATTAATTAT-TTAAATTT-TA-TTTA-ATGTATCATATATTATGATTTGAGTAAATT-ATAT
41519013 AAG
61 AAG
*
41519016 AATATTAATTATTAATAATTTTATT
1 AATATTAATTATTTA-AATTTTATT
41519041 AAATCAAATA
Statistics
Matches: 113, Mismatches: 14, Indels: 37
0.69 0.09 0.23
Matches are distributed among these distances:
53 5 0.04
54 13 0.12
55 8 0.07
56 5 0.04
57 7 0.06
58 2 0.02
59 2 0.02
60 6 0.05
61 2 0.02
62 2 0.02
63 7 0.06
64 4 0.04
65 13 0.12
66 32 0.28
67 5 0.04
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.49
Consensus pattern (63 bp):
AATATTAATTATTTAAATTTTATTTAATGTATCATATATTATGATTTGAGTAAATTATATAAG
Found at i:41518921 original size:120 final size:120
Alignment explanation
Indices: 41518792--41519084 Score: 457
Period size: 120 Copynumber: 2.4 Consensus size: 120
41518782 AATTATTTTA
* *
41518792 AATTGTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTT-TCA-
1 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATGTT--AATTTAT-AT
** *
41518854 TTTATTGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
63 TTTACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAG
*
41518912 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
*
41518977 ACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAT
66 ACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAG
* *
41519032 AATTTTATTAAATCAAATATTTTAATTAAAATATATTTAATAAAAATTATGTT
1 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATGTT
41519085 TAAATATGAT
Statistics
Matches: 160, Mismatches: 10, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
119 6 0.04
120 152 0.95
121 2 0.01
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (120 bp):
AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAG
Found at i:41518941 original size:18 final size:17
Alignment explanation
Indices: 41518913--41518947 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
41518903 ATTATTAAGA
*
41518913 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
41518930 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
41518948 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:41519063 original size:14 final size:15
Alignment explanation
Indices: 41519046--41519078 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
41519036 TTATTAAATC
*
41519046 AAATAT-TTTAATTA
1 AAATATATTTAATAA
41519060 AAATATATTTAATAA
1 AAATATATTTAATAA
41519075 AAAT
1 AAAT
41519079 TATGTTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
AAATATATTTAATAA
Found at i:41519816 original size:11 final size:11
Alignment explanation
Indices: 41519800--41519880 Score: 54
Period size: 11 Copynumber: 7.4 Consensus size: 11
41519790 TCAAATAAGC
41519800 TATTTTGTTGT
1 TATTTTGTTGT
41519811 TATTTTGTTGT
1 TATTTTGTTGT
* **
41519822 TGTTTCATTGT
1 TATTTTGTTGT
* *
41519833 TGTTTTGTTAT
1 TATTTTGTTGT
* ** *
41519844 CATTTTACTAT
1 TATTTTGTTGT
* * *
41519855 TATATTGCTAT
1 TATTTTGTTGT
41519866 TATTTTGTTGT
1 TATTTTGTTGT
41519877 TATT
1 TATT
41519881 ATTTGAATAT
Statistics
Matches: 54, Mismatches: 16, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
11 54 1.00
ACGTcount: A:0.15, C:0.05, G:0.14, T:0.67
Consensus pattern (11 bp):
TATTTTGTTGT
Found at i:41519980 original size:25 final size:26
Alignment explanation
Indices: 41519952--41520003 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
41519942 TTTGTTAAGT
*
41519952 TATAATTA-TTTTAATAT-TATTTAAA
1 TATAAATATTTTTAATATAT-TTTAAA
41519977 TATAAATATTTTTAATATATTTTAAA
1 TATAAATATTTTTAATATATTTTAAA
41520003 T
1 T
41520004 TTGTTAGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
25 7 0.29
26 16 0.67
27 1 0.04
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (26 bp):
TATAAATATTTTTAATATATTTTAAA
Found at i:41519996 original size:17 final size:17
Alignment explanation
Indices: 41519964--41519995 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
41519954 TAATTATTTT
41519964 AATATTATTTAAATATA
1 AATATTATTTAAATATA
41519981 AATATT-TTT-AATATA
1 AATATTATTTAAATATA
41519996 TTTTAAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 3 0.20
17 6 0.40
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
AATATTATTTAAATATA
Found at i:41522097 original size:28 final size:28
Alignment explanation
Indices: 41522063--41522120 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 28
41522053 ATTATTTTCC
41522063 TATTTAAGAGTTGGAGAAAAGCTTTCAA
1 TATTTAAGAGTTGGAGAAAAGCTTTCAA
* *
41522091 TATTTAAGAGTTTGAGAAAAGCTTTTAA
1 TATTTAAGAGTTGGAGAAAAGCTTTCAA
41522119 TA
1 TA
41522121 GTTCTAAGCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.40, C:0.05, G:0.19, T:0.36
Consensus pattern (28 bp):
TATTTAAGAGTTGGAGAAAAGCTTTCAA
Found at i:41525554 original size:151 final size:150
Alignment explanation
Indices: 41525282--41525737 Score: 761
Period size: 151 Copynumber: 3.0 Consensus size: 150
41525272 TATGCCCAAC
41525282 GGTAAATCTCGTAAAGGTCTTTTTGTCTGCCATGAAGAGGGGG-AAAGGATATATATCAAAAAGA
1 GGTAAATCTCGTAAAGGTCTTTTTGTCTGCCATGAAGAGGGGGAAAAGGATATATATCAAAAAGA
* * ** *
41525346 GATCACAATAAGGTGGCTTGCCAGTCATGCGAATCGACTCAACATAAAAGGACATATTAGTACTT
66 GATCATAATAAGGTGGCTTGTCAGTCATGCGAATCGACTCAATGTAAAAGGACATATTAGTATTT
*
41525411 AGGGTGCTCATTTTATCTAT
131 AGGGTGCTTATTTTATCTAT
* *
41525431 GGTAAATCTCGTAAAGGTCTTTTTGTCTTCCATGATGAGGGGGGAAAAGGATATATATCAAAAAG
1 GGTAAATCTCGTAAAGGTCTTTTTGTCTGCCATGAAGA-GGGGGAAAAGGATATATATCAAAAAG
*
41525496 AGATCATAATAAGGTGGCTTGTCAGTCATGCGAATCAACTCAATGTAAAAGGACATATTAGTATT
65 AGATCATAATAAGGTGGCTTGTCAGTCATGCGAATCGACTCAATGTAAAAGGACATATTAGTATT
41525561 TAGGGTGCTTATTTTATCTAT
130 TAGGGTGCTTATTTTATCTAT
* *
41525582 GGTAAATCTCGTAAAGGTCTTTTTGTCTGCCATGAAGAGGGGAAAAAGGATATATATCAAAAATA
1 GGTAAATCTCGTAAAGGTCTTTTTGTCTGCCATGAAGAGGGGGAAAAGGATATATATCAAAAAGA
* *
41525647 GATCATAATAAGGTGCCTTGTCAGTCATGCGAATCGGCTCAATGTAAAAGGACATATTAGTATTT
66 GATCATAATAAGGTGGCTTGTCAGTCATGCGAATCGACTCAATGTAAAAGGACATATTAGTATTT
**
41525712 AGCATGCTTATTTTATCTAT
131 AGGGTGCTTATTTTATCTAT
41525732 GGTAAA
1 GGTAAA
41525738 GATAGATAAT
Statistics
Matches: 287, Mismatches: 18, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
149 36 0.13
150 116 0.40
151 135 0.47
ACGTcount: A:0.34, C:0.13, G:0.22, T:0.31
Consensus pattern (150 bp):
GGTAAATCTCGTAAAGGTCTTTTTGTCTGCCATGAAGAGGGGGAAAAGGATATATATCAAAAAGA
GATCATAATAAGGTGGCTTGTCAGTCATGCGAATCGACTCAATGTAAAAGGACATATTAGTATTT
AGGGTGCTTATTTTATCTAT
Found at i:41528066 original size:15 final size:14
Alignment explanation
Indices: 41528046--41528083 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
41528036 ATTATGTAAT
*
41528046 ACATATATTTATAAA
1 ACATATATATA-AAA
41528061 ACATATATATAAAA
1 ACATATATATAAAA
41528075 ACA-ATATAT
1 ACATATATAT
41528084 CAAACTTGAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 6 0.27
14 6 0.27
15 10 0.45
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.34
Consensus pattern (14 bp):
ACATATATATAAAA
Found at i:41560092 original size:12 final size:11
Alignment explanation
Indices: 41560068--41560115 Score: 51
Period size: 11 Copynumber: 4.0 Consensus size: 11
41560058 ATTATAAATC
41560068 ATTTTATTTAT
1 ATTTTATTTAT
41560079 ATTTTATTTCAT
1 ATTTTATTT-AT
41560091 ATGTGTTTATTTAT
1 A--T-TTTATTTAT
*
41560105 ATTTAATTTAT
1 ATTTTATTTAT
41560116 TTTGTTCGCT
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
11 17 0.53
12 4 0.12
14 4 0.12
15 7 0.22
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (11 bp):
ATTTTATTTAT
Found at i:41560522 original size:88 final size:82
Alignment explanation
Indices: 41560403--41560794 Score: 352
Period size: 79 Copynumber: 4.7 Consensus size: 82
41560393 CCAAAATTAA
* * * *
41560403 AAGTAAATAAAATCTATTTTGGGATTCATTCCCGCTGTTCAACGGATTTTATTCCATTATTTTAT
1 AAGTAAATAAAATCTGTTTTGGGATTGATTCCCGCCGTTCAACGGATTTTATTCCATTATTTTGT
41560468 TTTATTTCCAAACGAAAATTTG
66 TTTATTTCC-AA--AAAA--TG
* * *
41560490 AAGGTAAATAAAATCTGTTTTGGGATTTATTCCCGCCGTTCAACGGATTGTATTCTATTATTTTG
1 AA-GTAAATAAAATCTGTTTTGGGATTGATTCCCGCCGTTCAACGGATTTTATTCCATTATTTTG
*
41560555 TTTCTATTTCCAAACGGGAAATTA
65 TTT-TATTTCCAAA----AAA-TG
* ** * * * *
41560579 AAGGTAAATAAAAACCATTTTGGGATTGATTCCCGCCGTTTAAC-AATTTTGTTCCA-AATTTTG
1 AA-GTAAATAAAATCTGTTTTGGGATTGATTCCCGCCGTTCAACGGATTTTATTCCATTATTTTG
*
41560642 TTTTATTT-CAAAAAACG
65 TTTTATTTCCAAAAAATG
* * * * *
41560659 -AGTAAAATAGAATCTGTTTCGAGATTGATTCCCGCCGTTCAAC-AATTTTATTCCA-AATTTTG
1 AAGT-AAATAAAATCTGTTTTGGGATTGATTCCCGCCGTTCAACGGATTTTATTCCATTATTTTG
*
41560721 TTTTATTTCC-AAAAA-C
65 TTTTATTTCCAAAAAATG
* * * *
41560737 AAGTAAAATAAAATCTGTTTCGGGATTGATTCTCGCTGTTCAACGGA-TTTATTACATT
1 AAGT-AAATAAAATCTGTTTTGGGATTGATTCCCGCCGTTCAACGGATTTTATTCCATT
41560795 TTGATTTTTT
Statistics
Matches: 259, Mismatches: 35, Indels: 29
0.80 0.11 0.09
Matches are distributed among these distances:
78 2 0.01
79 111 0.43
80 2 0.01
81 3 0.01
85 4 0.02
86 6 0.02
87 11 0.04
88 69 0.27
89 48 0.19
90 3 0.01
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.40
Consensus pattern (82 bp):
AAGTAAATAAAATCTGTTTTGGGATTGATTCCCGCCGTTCAACGGATTTTATTCCATTATTTTGT
TTTATTTCCAAAAAATG
Found at i:41560604 original size:89 final size:87
Alignment explanation
Indices: 41560395--41560618 Score: 313
Period size: 88 Copynumber: 2.5 Consensus size: 87
41560385 TTTTGTTTCC
* * *
41560395 AAAATTAAAAGTAAATAAAATCTATTTTGGGATTCATTCCCGCTGTTCAACGGATTTTATTCCAT
1 AAAATTAAAGGTAAATAAAATCTATTTTGGGATTCATTCCCGCCGTTCAACGGATTGTATTCCAT
41560460 TATTTTATTTTATTTCCAAACG
66 TATTTTATTTTATTTCCAAACG
* * * *
41560482 AAAATTTGAAGGTAAATAAAATCTGTTTTGGGATTTATTCCCGCCGTTCAACGGATTGTATTCTA
1 AAAA-TTAAAGGTAAATAAAATCTATTTTGGGATTCATTCCCGCCGTTCAACGGATTGTATTCCA
*
41560547 TTATTTTGTTTCTATTTCCAAACGG
65 TTATTTTATTT-TATTTCCAAAC-G
* * * *
41560572 GAAATTAAAGGTAAATAAAAACCATTTTGGGATTGATTCCCGCCGTT
1 AAAATTAAAGGTAAATAAAATCTATTTTGGGATTCATTCCCGCCGTT
41560619 TAACAATTTT
Statistics
Matches: 120, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
87 4 0.03
88 63 0.52
89 49 0.41
90 4 0.03
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.39
Consensus pattern (87 bp):
AAAATTAAAGGTAAATAAAATCTATTTTGGGATTCATTCCCGCCGTTCAACGGATTGTATTCCAT
TATTTTATTTTATTTCCAAACG
Found at i:41560922 original size:84 final size:83
Alignment explanation
Indices: 41560824--41561230 Score: 431
Period size: 84 Copynumber: 4.9 Consensus size: 83
41560814 CGAGAAATTA
* * *
41560824 AATTAAATAAAATTTGTTTC-AGGATTTATTCTCGTCGTTTAATAAGATTTTATTTGGTTTGATT
1 AATTAAATAAAATTTGTTTCGA-GATTTATTCTCGCCGTTTAACAAGATTTTATTTGATTTG-TT
41560888 TTGTTTCCAAATTAGAATAT
64 TTGTTTCCAAATTAGAATAT
* * *
41560908 AATTAAATAAAATTTGTTTCGAGATTTATTCTCGCCATTTAACAAGATTTTACTTGAGTTGATTT
1 AATTAAATAAAATTTGTTTCGAGATTTATTCTCGCCGTTTAACAAGATTTTATTTGATTTG-TTT
*
41560973 TGTTTCCAAATCAGAATAT
65 TGTTTCCAAATTAGAATAT
* * * *
41560992 AATTAAGTAAAATCTGTTTCGGGATTTATTCCCGCCGTTTAACAAGATTTTATTTGATTT-TTTT
1 AATTAAATAAAATTTGTTTCGAGATTTATTCTCGCCGTTTAACAAGATTTTATTTGATTTGTTTT
41561056 -TTTCCAAATTCA-AAT-T
66 GTTTCCAAATT-AGAATAT
* * *
41561072 GAATTAAATAAAATTTGTTTCGAGATTTATT-TCCGCAGTTTAACAAGAATTTATTCGATATTGT
1 -AATTAAATAAAATTTGTTTCGAGATTTATTCT-CGCCGTTTAACAAGATTTTATTTGAT-TTGT
* * *
41561136 TTTGTTTCCAAA-GA-AAGACGC
63 TTTGTTTCCAAATTAGAATA--T
* * * * *
41561157 AATCAAAT--AATTCTGTTTCGGGATTTATTC-CTGCCATTTAACAAGATTTTATTCGATATTAT
1 AATTAAATAAAATT-TGTTTCGAGATTTATTCTC-GCCGTTTAACAAGATTTTATTTGAT-TTGT
41561219 TTTGTTTCCAAA
63 TTTGTTTCCAAA
41561231 CAAATATGTA
Statistics
Matches: 279, Mismatches: 31, Indels: 27
0.83 0.09 0.08
Matches are distributed among these distances:
80 1 0.00
81 62 0.22
82 15 0.05
83 57 0.20
84 143 0.51
85 1 0.00
ACGTcount: A:0.31, C:0.12, G:0.13, T:0.44
Consensus pattern (83 bp):
AATTAAATAAAATTTGTTTCGAGATTTATTCTCGCCGTTTAACAAGATTTTATTTGATTTGTTTT
GTTTCCAAATTAGAATAT
Found at i:41560981 original size:249 final size:246
Alignment explanation
Indices: 41560721--41561230 Score: 519
Period size: 249 Copynumber: 2.1 Consensus size: 246
41560711 CCAAATTTTG
* * * *
41560721 TTTTATTTCCAAA-AACAA-GTAA-AA-TAAAATCTGTTTCGGGATTGATTCTCGCTGTTCAAC-
1 TTTTGTTTCCAAATAACAATATAATAAGTAAAATCTGTTTCGGGATTGATTCCCGCCGTTCAACA
*
41560781 GGA-TTTATTACATTTTGATTTTTTTGCCAAAAACGAGAAATTAAATTAAATAAAATTTGTTTC-
66 AGATTTTATTACA-TTT--TTTTTTT-CCAAAAAC---AAATTAAATTAAATAAAATTTGTTTCG
* * * * * *
41560844 AGGATTTA-TTCTCGTC-GTTTAATAAGATTTTATTTGGT-TTGATTTTGTTTCCAAATTAGAAT
124 A-GATTTATTTC-CG-CAGTTTAACAAGAATTTATTCGATATTG-TTTTGTTTCCAAA-GA-AAG
* *
41560906 A-TAATTAAATAAAATT-TGTTTCGAGATTTATT-CTCGCCATTTAACAAGATTTTACTT-GAGT
183 ACCAATCAAAT--AATTCTGTTTCGAGATTTATTCCT-GCCATTTAACAAGATTTTA-TTCGA-T
41560967 -TGA
243 ATGA
* * * *
41560970 TTTTGTTTCCAAATCAGAATATAATTAAGTAAAATCTGTTTCGGGATTTATTCCCGCCGTTTAAC
1 TTTTGTTTCCAAATAACAATATAA-TAAGTAAAATCTGTTTCGGGATTGATTCCCGCCGTTCAAC
** ** *
41561035 AAGATTTTATTTGATTTTTTTTTTCCAAATTCAAATTGAATTAAATAAAATTTGTTTCGAGATTT
65 AAGATTTTATTACATTTTTTTTTTCCAAAAACAAATTAAATTAAATAAAATTTGTTTCGAGATTT
41561100 ATTTCCGCAGTTTAACAAGAATTTATTCGATATTGTTTTGTTTCCAAAGAAAGACGCAATCAAAT
130 ATTTCCGCAGTTTAACAAGAATTTATTCGATATTGTTTTGTTTCCAAAGAAAGAC-CAATCAAAT
* *
41561165 AATTCTGTTTCGGGATTTATTCCTGCCATTTAACAAGATTTTATTCGATATTA
194 AATTCTGTTTCGAGATTTATTCCTGCCATTTAACAAGATTTTATTCGATATGA
41561218 TTTTGTTTCCAAA
1 TTTTGTTTCCAAA
41561231 CAAATATGTA
Statistics
Matches: 220, Mismatches: 24, Indels: 35
0.79 0.09 0.13
Matches are distributed among these distances:
247 10 0.05
248 53 0.24
249 85 0.39
250 10 0.05
251 3 0.01
252 6 0.03
253 9 0.04
254 32 0.15
255 5 0.02
256 7 0.03
ACGTcount: A:0.32, C:0.12, G:0.13, T:0.43
Consensus pattern (246 bp):
TTTTGTTTCCAAATAACAATATAATAAGTAAAATCTGTTTCGGGATTGATTCCCGCCGTTCAACA
AGATTTTATTACATTTTTTTTTTCCAAAAACAAATTAAATTAAATAAAATTTGTTTCGAGATTTA
TTTCCGCAGTTTAACAAGAATTTATTCGATATTGTTTTGTTTCCAAAGAAAGACCAATCAAATAA
TTCTGTTTCGAGATTTATTCCTGCCATTTAACAAGATTTTATTCGATATGA
Found at i:41561092 original size:165 final size:166
Alignment explanation
Indices: 41560824--41561230 Score: 492
Period size: 165 Copynumber: 2.4 Consensus size: 166
41560814 CGAGAAATTA
* * * * * *
41560824 AATTAAATAAAATTTGTTTCAGGATTTATTCTCGTCGTTTAATAAGATTTTATTTGGTTTGATTT
1 AATTAAATAAAATCTGTTTCGGGATTTATTCCCGCCGTTTAACAAGATTTTATTTGATTT-ATTT
41560889 TGTTTCCAAATTAGAATATAATTAAATAAAATTTGTTTCGAGATTTA-TTCTCGCCA-TTTAACA
65 TGTTTCCAAATTAGAATATAATTAAATAAAATTTGTTTCGAGATTTATTTC-CG-CAGTTTAACA
* * * *
41560952 AGATTTTACTT-GA-GTTGATTTTGTTTCCAAATCAGAATA-T
128 AGAATTTA-TTCGATATTG-TTTTGTTTCCAAA-CA-AAGACC
*
41560992 AATTAAGTAAAATCTGTTTCGGGATTTATTCCCGCCGTTTAACAAGATTTTATTTGATTT-TTTT
1 AATTAAATAAAATCTGTTTCGGGATTTATTCCCGCCGTTTAACAAGATTTTATTTGATTTATTTT
41561056 -TTTCCAAATTCA-AAT-TGAATTAAATAAAATTTGTTTCGAGATTTATTTCCGCAGTTTAACAA
66 GTTTCCAAATT-AGAATAT-AATTAAATAAAATTTGTTTCGAGATTTATTTCCGCAGTTTAACAA
*
41561118 GAATTTATTCGATATTGTTTTGTTTCCAAAGAAAGACGC
129 GAATTTATTCGATATTGTTTTGTTTCCAAACAAAGAC-C
* * * * *
41561157 AATCAAAT-AATTCTGTTTCGGGATTTATTCCTGCCATTTAACAAGATTTTATTCGATATTATTT
1 AATTAAATAAAATCTGTTTCGGGATTTATTCCCGCCGTTTAACAAGATTTTATTTGAT-TTATTT
41561221 TGTTTCCAAA
65 TGTTTCCAAA
41561231 CAAATATGTA
Statistics
Matches: 210, Mismatches: 18, Indels: 23
0.84 0.07 0.09
Matches are distributed among these distances:
163 3 0.01
164 51 0.24
165 80 0.38
166 15 0.07
167 8 0.04
168 53 0.25
ACGTcount: A:0.31, C:0.12, G:0.13, T:0.44
Consensus pattern (166 bp):
AATTAAATAAAATCTGTTTCGGGATTTATTCCCGCCGTTTAACAAGATTTTATTTGATTTATTTT
GTTTCCAAATTAGAATATAATTAAATAAAATTTGTTTCGAGATTTATTTCCGCAGTTTAACAAGA
ATTTATTCGATATTGTTTTGTTTCCAAACAAAGACC
Found at i:41561197 original size:83 final size:79
Alignment explanation
Indices: 41560834--41561291 Score: 319
Period size: 84 Copynumber: 5.6 Consensus size: 79
41560824 AATTAAATAA
* * * * * *
41560834 AATT-TGTTTCAGGATTTATTCTCGTCGTTTAATAAGATTTTATTTGGT-TTGATTTTGTTTCCA
1 AATTCTGTTTCGGGATTTATTC-CGCCATTTAACAAGATTTTATTCGATATT--TTTTGTTTCCA
* *
41560897 AATTAGAATAT-AATTAAAT
63 AA-CA-AA-ATGAATCAAAT
* *
41560916 AAAATT-TGTTTCGAGATTTATTCTCGCCATTTAACAAGATTTTACTT-GAGT-TGATTTTGTTT
1 --AATTCTGTTTCGGGATTTATTC-CGCCATTTAACAAGATTTTA-TTCGA-TAT-TTTTTGTTT
* *
41560978 CCAAATCAGAATAT-AATTAAGT
60 CCAAA-CA-AA-ATGAATCAAAT
* * *
41561000 AAAATCTGTTTCGGGATTTATTCCCGCCGTTTAACAAGATTTTATTTGAT-TTTTTT-TTTCCAA
1 -AATTCTGTTTCGGGATTTATT-CCGCCATTTAACAAGATTTTATTCGATATTTTTTGTTTCCAA
* *
41561063 ATTCAAATTGAATTAAAT
64 A--CAAAATGAATCAAAT
* *
41561081 AAAATT-TGTTTCGAGATTTATTTCCG-CAGTTTAACAAGAATTTATTCGATATTGTTTTGTTTC
1 --AATTCTGTTTCGGGATTTA-TTCCGCCA-TTTAACAAGATTTTATTCGATATT-TTTTGTTTC
* *
41561144 CAAAGAAAGACGCAATCAAAT
61 CAAACAAA-ATG-AATCAAAT
41561165 AATTCTGTTTCGGGATTTATTCCTGCCATTTAACAAGATTTTATTCGATATTATTTTGTTTCCAA
1 AATTCTGTTTCGGGATTTATTCC-GCCATTTAACAAGATTTTATTCGATATT-TTTTGTTTCCAA
*
41561230 ACAAATATGTAACCAAAT
64 ACAAA-ATG-AATCAAAT
** **
41561248 AATTCTGTTTTTGGATTTATTCCCGCTGTTTAAC-AGATTTTATT
1 AATTCTGTTTCGGGATTTATT-CCGCCATTTAACAAGATTTTATT
41561292 TTGATTTAAT
Statistics
Matches: 318, Mismatches: 36, Indels: 42
0.80 0.09 0.11
Matches are distributed among these distances:
80 2 0.01
81 52 0.16
82 36 0.11
83 102 0.32
84 121 0.38
85 5 0.02
ACGTcount: A:0.30, C:0.12, G:0.13, T:0.45
Consensus pattern (79 bp):
AATTCTGTTTCGGGATTTATTCCGCCATTTAACAAGATTTTATTCGATATTTTTTGTTTCCAAAC
AAAATGAATCAAAT
Found at i:41561316 original size:59 final size:60
Alignment explanation
Indices: 41561246--41561358 Score: 147
Period size: 59 Copynumber: 1.9 Consensus size: 60
41561236 ATGTAACCAA
** * * *
41561246 ATAATTCTGTTTTTGGATTTATTCCCGCTGTTTAACAGATTT-TATTTTGATTTAATGAT
1 ATAATTCTGTTTCGGGATTTAATCCCGCTGTTTAAAAAATTTGTATTTTGATTTAATGAT
* * *
41561305 ATAATTTTGTTTCGGGATTTAATCCTGCTGTTTAAAAAATTTGTTTTTTGATTT
1 ATAATTCTGTTTCGGGATTTAATCCCGCTGTTTAAAAAATTTGTATTTTGATTT
41561359 CGTTTTAGAA
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
59 35 0.78
60 10 0.22
ACGTcount: A:0.24, C:0.09, G:0.14, T:0.53
Consensus pattern (60 bp):
ATAATTCTGTTTCGGGATTTAATCCCGCTGTTTAAAAAATTTGTATTTTGATTTAATGAT
Found at i:41561757 original size:16 final size:16
Alignment explanation
Indices: 41561732--41561802 Score: 71
Period size: 16 Copynumber: 4.7 Consensus size: 16
41561722 CCGAATATAA
*
41561732 TAAATATTTTTATTTT
1 TAAATATTTTTAATTT
*
41561748 TAAATTTTTTTAATTT
1 TAAATATTTTTAATTT
41561764 TAAA-A----TAATTT
1 TAAATATTTTTAATTT
*
41561775 TAAATTTTTTTAATTT
1 TAAATATTTTTAATTT
41561791 TAAAATATTTTT
1 T-AAATATTTTT
41561803 TTAAAATTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 11
0.73 0.08 0.18
Matches are distributed among these distances:
11 10 0.23
16 25 0.57
17 9 0.20
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
TAAATATTTTTAATTT
Found at i:41561775 original size:27 final size:27
Alignment explanation
Indices: 41561745--41561802 Score: 107
Period size: 27 Copynumber: 2.1 Consensus size: 27
41561735 ATATTTTTAT
41561745 TTTTAAATTTTTTTAATTTTAAAATAA
1 TTTTAAATTTTTTTAATTTTAAAATAA
*
41561772 TTTTAAATTTTTTTAATTTTAAAATAT
1 TTTTAAATTTTTTTAATTTTAAAATAA
41561799 TTTT
1 TTTT
41561803 TTAAAATTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (27 bp):
TTTTAAATTTTTTTAATTTTAAAATAA
Found at i:41561806 original size:13 final size:14
Alignment explanation
Indices: 41561788--41561820 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
41561778 ATTTTTTTAA
41561788 TTTTAAAATATTT-
1 TTTTAAAATATTTG
*
41561801 TTTTAAAATTTTTG
1 TTTTAAAATATTTG
41561815 TTTTAA
1 TTTTAA
41561821 TTTTTAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (14 bp):
TTTTAAAATATTTG
Found at i:41570758 original size:2 final size:2
Alignment explanation
Indices: 41570751--41570782 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
41570741 CCTCTTCCAC
41570751 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
41570783 GTTTTCAAGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:41574850 original size:26 final size:26
Alignment explanation
Indices: 41574814--41575053 Score: 257
Period size: 26 Copynumber: 9.2 Consensus size: 26
41574804 GTACATAGTA
* * * *
41574814 CCTGATAAATATACATCGGCTTAAGG
1 CCTGCTAAATAAACACCGGCTCAAGG
* **
41574840 CCTGTTAAATAAACACCAACTCAAGG
1 CCTGCTAAATAAACACCGGCTCAAGG
* *
41574866 CTTGCTAAATAAACATCGGCTCAAGG
1 CCTGCTAAATAAACACCGGCTCAAGG
* *
41574892 CCTACTAAATAACCACCGGCTCAAGG
1 CCTGCTAAATAAACACCGGCTCAAGG
* * *
41574918 CATGTTAAATAAACATCGGCTCAAGG
1 CCTGCTAAATAAACACCGGCTCAAGG
* * *
41574944 CCTGTTAAATAACCACCGGCTAAAGG
1 CCTGCTAAATAAACACCGGCTCAAGG
* * * *
41574970 CCTACTAAATAGACACTGGCTCAATG
1 CCTGCTAAATAAACACCGGCTCAAGG
*
41574996 CCTGCTAAATAAACACCGGCTCAATG
1 CCTGCTAAATAAACACCGGCTCAAGG
*
41575022 CCTGCTAAAT-AACTACCGACTCAAGG
1 CCTGCTAAATAAAC-ACCGGCTCAAGG
41575048 CCTGCT
1 CCTGCT
41575054 TTTCCAGTAT
Statistics
Matches: 177, Mismatches: 36, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
25 3 0.02
26 174 0.98
ACGTcount: A:0.35, C:0.27, G:0.17, T:0.21
Consensus pattern (26 bp):
CCTGCTAAATAAACACCGGCTCAAGG
Found at i:41577299 original size:42 final size:42
Alignment explanation
Indices: 41577235--41577411 Score: 192
Period size: 42 Copynumber: 4.4 Consensus size: 42
41577225 ATTCATTGGT
* *
41577235 GGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTGAAGGG
1 GGTTGCTAAGTGCTGATCCCACCGTATTTTAAATGTGAAAGG
*
41577277 GGTTGCTAAGTGTTGATCCCACCGTATTTTAAATGTGAAAGG
1 GGTTGCTAAGTGCTGATCCCACCGTATTTTAAATGTGAAAGG
* * * *
41577319 GGTTGCTAAGTTCTGATTCC-CCG-A--TT-CAT-TG---GT
1 GGTTGCTAAGTGCTGATCCCACCGTATTTTAAATGTGAAAGG
* * *
41577352 GGTTGCTAAGTGCTGATTCCACCGTATTTTTGAATGTGAAAAG
1 GGTTGCTAAGTGCTGATCCCACCGTA-TTTTAAATGTGAAAGG
41577395 GGTTGCTAAGTGCTGAT
1 GGTTGCTAAGTGCTGAT
41577412 TCCCCGAATC
Statistics
Matches: 113, Mismatches: 12, Indels: 19
0.78 0.08 0.13
Matches are distributed among these distances:
33 20 0.18
34 3 0.03
35 1 0.01
36 2 0.02
37 2 0.02
38 4 0.04
39 2 0.02
40 3 0.03
41 3 0.03
42 56 0.50
43 17 0.15
ACGTcount: A:0.23, C:0.15, G:0.27, T:0.35
Consensus pattern (42 bp):
GGTTGCTAAGTGCTGATCCCACCGTATTTTAAATGTGAAAGG
Found at i:41577411 original size:76 final size:75
Alignment explanation
Indices: 41577277--41577451 Score: 260
Period size: 76 Copynumber: 2.3 Consensus size: 75
41577267 ATGTGAAGGG
* * * *
41577277 GGTTGCTAAGTGTTGATCCCACCGTATTTTAAATGTGAAAGGGGTTGCTAAGTTCTGATTCCCCG
1 GGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTGAAAAGGGTTGCTAAGTGCTGATTCCCCG
* * *
41577342 ATTCATTGGT
66 AATCACTAGT
*
41577352 GGTTGCTAAGTGCTGATTCCACCGTATTTTTGAATGTGAAAAGGGTTGCTAAGTGCTGATTCCCC
1 GGTTGCTAAGTGCTGATTCCACCGTA-TTTTAAATGTGAAAAGGGTTGCTAAGTGCTGATTCCCC
41577417 GAATCACTAGT
65 GAATCACTAGT
*
41577428 GGTTGCTAAGTGCTGAATCCACCG
1 GGTTGCTAAGTGCTGATTCCACCG
41577452 ATAACGGATA
Statistics
Matches: 90, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
75 24 0.27
76 66 0.73
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.33
Consensus pattern (75 bp):
GGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTGAAAAGGGTTGCTAAGTGCTGATTCCCCG
AATCACTAGT
Found at i:41579756 original size:22 final size:22
Alignment explanation
Indices: 41579731--41579781 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
41579721 AAGTATTTTT
* *
41579731 TTTAACAAAATCTCATAAATAA
1 TTTAACAAAAACTAATAAATAA
** *
41579753 TTTAGTAAAAAGTAATAAATAA
1 TTTAACAAAAACTAATAAATAA
41579775 TTTAACA
1 TTTAACA
41579782 TATTATAGCT
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.55, C:0.08, G:0.04, T:0.33
Consensus pattern (22 bp):
TTTAACAAAAACTAATAAATAA
Found at i:41580162 original size:10 final size:10
Alignment explanation
Indices: 41580147--41580172 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
41580137 AAAAAAATGT
41580147 TATAAATTAA
1 TATAAATTAA
41580157 TATAAATTAA
1 TATAAATTAA
41580167 TATAAA
1 TATAAA
41580173 CTCATATCGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
TATAAATTAA
Found at i:41586950 original size:14 final size:14
Alignment explanation
Indices: 41586931--41586958 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
41586921 TCAATTTTTT
41586931 AATGAATTATTAAA
1 AATGAATTATTAAA
41586945 AATGAATTATTAAA
1 AATGAATTATTAAA
41586959 TATAACTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (14 bp):
AATGAATTATTAAA
Found at i:41590422 original size:110 final size:107
Alignment explanation
Indices: 41590224--41590637 Score: 627
Period size: 106 Copynumber: 3.9 Consensus size: 107
41590214 TGGATTTAGA
* * * *
41590224 TTTAAAAGGATATTTTGTTATTTGGTCAAACGAAAAAATCGAAACCCAACACATTAGGGCACGTT
1 TTTAAAAGGATATTTGGCTATTTGGTCGAACGAAAAAATCGAAACCCAGCACATTAGGGCACGTT
41590289 TTCTCGAATTTCCAAACAG-AAAATATTGCCTTACTTTGAAAT
66 TTCTCGAATTTCCAAAC-GCAAAATATTGCCTTACTTTGAAAT
* *
41590331 TTTAAAAAGGATATTTGACTATTTGGTCGAACGAAAAAAAATCGAAACCCAGCACATTAGGACAC
1 TTT-AAAAGGATATTTGGCTATTTGGTCGAACG--AAAAAATCGAAACCCAGCACATTAGGGCAC
*
41590396 GTTTTCTCGAATTTCCAAATGCAAAATATTGCCTTACTTTGAAAT
63 GTTTTCTCGAATTTCCAAACGCAAAATATTGCCTTACTTTGAAAT
* ** * *
41590441 TTTAAAAGGATATTTGGCTAATTGGTCGAACG-TGAAATCGAAACCCAGCACGTTAGGGCACATT
1 TTTAAAAGGATATTTGGCTATTTGGTCGAACGAAAAAATCGAAACCCAGCACATTAGGGCACGTT
* * *
41590505 TTCTCGAATTTCTAAACACAAAATATTACCTTACTTTGAAAT
66 TTCTCGAATTTCCAAACGCAAAATATTGCCTTACTTTGAAAT
*
41590547 TTTAAAAGGATATTTGGCTATTTGGTCGAACAAAAAAATCGAAACCCAGCACATTA-GGCACGTT
1 TTTAAAAGGATATTTGGCTATTTGGTCGAACGAAAAAATCGAAACCCAGCACATTAGGGCACGTT
41590611 TTCTCGAATTTCCAAACGCAAAATATT
66 TTCTCGAATTTCCAAACGCAAAATATT
41590638 AATTTATTTA
Statistics
Matches: 276, Mismatches: 26, Indels: 11
0.88 0.08 0.04
Matches are distributed among these distances:
106 127 0.46
107 23 0.08
108 25 0.09
109 28 0.10
110 73 0.26
ACGTcount: A:0.37, C:0.18, G:0.15, T:0.30
Consensus pattern (107 bp):
TTTAAAAGGATATTTGGCTATTTGGTCGAACGAAAAAATCGAAACCCAGCACATTAGGGCACGTT
TTCTCGAATTTCCAAACGCAAAATATTGCCTTACTTTGAAAT
Found at i:41590702 original size:21 final size:21
Alignment explanation
Indices: 41590678--41590717 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
41590668 GTATGGTGTT
41590678 AATATGTATAATG-GAATAACA
1 AATATG-ATAATGTGAATAACA
41590699 AATATGATAATGTGAATAA
1 AATATGATAATGTGAATAA
41590718 AATTAATATG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.53, C:0.03, G:0.15, T:0.30
Consensus pattern (21 bp):
AATATGATAATGTGAATAACA
Found at i:41590774 original size:16 final size:15
Alignment explanation
Indices: 41590731--41590774 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
41590721 TAATATGAGC
* *
41590731 AAAAACGAAAAACAA
1 AAAAAAGAAAAATAA
*
41590746 AAAAAATAAAAATAA
1 AAAAAAGAAAAATAA
41590761 AAAAAAGAACAAAT
1 AAAAAAGAA-AAAT
41590775 CAATCATGTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
15 20 0.83
16 4 0.17
ACGTcount: A:0.82, C:0.07, G:0.05, T:0.07
Consensus pattern (15 bp):
AAAAAAGAAAAATAA
Found at i:41591044 original size:3 final size:3
Alignment explanation
Indices: 41591036--41591079 Score: 70
Period size: 3 Copynumber: 14.3 Consensus size: 3
41591026 AAATAGAAGT
*
41591036 ATA ATA ATA ATA ATA ATA ATA ATG ATA ATA ATA ATA ATCA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA A
41591080 GATAACAAGA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
3 35 0.92
4 3 0.08
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:41591748 original size:12 final size:12
Alignment explanation
Indices: 41591731--41591756 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
41591721 GTAAAAAAAC
41591731 TTTTTTTTGCTA
1 TTTTTTTTGCTA
41591743 TTTTTTTTGCTA
1 TTTTTTTTGCTA
41591755 TT
1 TT
41591757 ACGAAATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.08, G:0.08, T:0.77
Consensus pattern (12 bp):
TTTTTTTTGCTA
Found at i:41605869 original size:28 final size:28
Alignment explanation
Indices: 41605827--41605913 Score: 120
Period size: 28 Copynumber: 3.1 Consensus size: 28
41605817 ATCACCAGAA
* *
41605827 AAGAGGGAAGCCCACCAAAGACTCTCTT
1 AAGAGGGAAGACCACCAAGGACTCTCTT
* *
41605855 AAGAGGGGAGTCCACCAAGGACTCTCTT
1 AAGAGGGAAGACCACCAAGGACTCTCTT
* *
41605883 AAGAGAGAAGACCACCAAGGACTATCTT
1 AAGAGGGAAGACCACCAAGGACTCTCTT
41605911 AAG
1 AAG
41605914 TGGATTGTCC
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 52 1.00
ACGTcount: A:0.37, C:0.24, G:0.24, T:0.15
Consensus pattern (28 bp):
AAGAGGGAAGACCACCAAGGACTCTCTT
Found at i:41617166 original size:16 final size:17
Alignment explanation
Indices: 41617142--41617174 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
41617132 TTCAATTAGT
*
41617142 TTAATTAATTTT-TCAA
1 TTAAATAATTTTCTCAA
41617158 TTAAATAATTTTCTCAA
1 TTAAATAATTTTCTCAA
41617175 CCCAATTCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.39, C:0.09, G:0.00, T:0.52
Consensus pattern (17 bp):
TTAAATAATTTTCTCAA
Found at i:41618487 original size:24 final size:25
Alignment explanation
Indices: 41618434--41618496 Score: 69
Period size: 24 Copynumber: 2.6 Consensus size: 25
41618424 TACATAGATA
* *
41618434 TTTTCCTAGTTAAA--TTGAGTTTC
1 TTTTCCTAGTTAAACTTTGACTATC
*
41618457 TTCTCCTAGTTAAACTTTG-CTATC
1 TTTTCCTAGTTAAACTTTGACTATC
*
41618481 TTTTCCTAGTTGAACT
1 TTTTCCTAGTTAAACT
41618497 CTGATTATAC
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
23 13 0.39
24 17 0.52
25 3 0.09
ACGTcount: A:0.21, C:0.19, G:0.11, T:0.49
Consensus pattern (25 bp):
TTTTCCTAGTTAAACTTTGACTATC
Found at i:41631678 original size:135 final size:138
Alignment explanation
Indices: 41631520--41631783 Score: 329
Period size: 143 Copynumber: 1.9 Consensus size: 138
41631510 ATAAAACTAA
* * * *
41631520 AAATTACAAATGTATTTAGAAGAGGAGAAATTGAACTTGGGATTCAATGAT-AA-A-ATCA-TAA
1 AAATTACAAATATATTTAGAAGAGGAGAAATTGAAATTGGGACTCAAGGATAAACATATCATTAA
* * **
41631581 TTATTTAACTAAGGGAGCTAATATGTTAAAAATGTTAATTAAAAATAATAAAAAAGCTTAAAACA
66 TTATTTAACCAAAGGAGCTAATATGTTAAAAAAATTAATTAAAAATAAT-AAAAAGCTTAAAACA
41631646 ATATGAAAT
130 ATATGAAAT
* * * *
41631655 AAATTATAAATATGTTTAGAAGAGGAGGAATTGAAATTGGGACTCGAGGATAAAATCATTATCAT
1 AAATTACAAATATATTTAGAAGAGGAGAAATTGAAATTGGGACTCAAGGAT-AAA-CA-TATCA-
* *
41631720 TTAATTATTTAACCAAATGAGCTAATATGTTAAAAAAATTAATTAAAATTAATAAAAAGCTTAA
62 TTAATTATTTAACCAAAGGAGCTAATATGTTAAAAAAATTAATTAAAAATAATAAAAAGCTTAA
41631784 CATGAAATAA
Statistics
Matches: 107, Mismatches: 14, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
135 43 0.40
137 2 0.02
139 1 0.01
141 4 0.04
142 11 0.10
143 46 0.43
ACGTcount: A:0.49, C:0.06, G:0.14, T:0.31
Consensus pattern (138 bp):
AAATTACAAATATATTTAGAAGAGGAGAAATTGAAATTGGGACTCAAGGATAAACATATCATTAA
TTATTTAACCAAAGGAGCTAATATGTTAAAAAAATTAATTAAAAATAATAAAAAGCTTAAAACAA
TATGAAAT
Found at i:41632059 original size:14 final size:14
Alignment explanation
Indices: 41632040--41632075 Score: 72
Period size: 14 Copynumber: 2.6 Consensus size: 14
41632030 ACGCAAACAA
41632040 AAATAAAATAAGAT
1 AAATAAAATAAGAT
41632054 AAATAAAATAAGAT
1 AAATAAAATAAGAT
41632068 AAATAAAA
1 AAATAAAA
41632076 ACCATCCCGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.19
Consensus pattern (14 bp):
AAATAAAATAAGAT
Found at i:41637977 original size:17 final size:17
Alignment explanation
Indices: 41637955--41637992 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
41637945 TAAAAAACTT
41637955 AATAAA-TAATATAGATA
1 AATAAATTAATATA-ATA
*
41637972 AATAAATTTATATAATA
1 AATAAATTAATATAATA
41637989 AATA
1 AATA
41637993 TACTAATGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (17 bp):
AATAAATTAATATAATA
Found at i:41640042 original size:34 final size:32
Alignment explanation
Indices: 41639974--41640043 Score: 79
Period size: 34 Copynumber: 2.1 Consensus size: 32
41639964 TTATATAAAT
*
41639974 TTTTATGTTTTGTAATTTTGTAAAATTTCTTC
1 TTTTATGTTTTGTAATTTTGTAAAAATTCTTC
* *
41640006 TTTTATAGTTTTTTAATCTTTTTAACAAATT-TTC
1 TTTTAT-GTTTTGTAAT-TTTGTAA-AAATTCTTC
41640040 TTTT
1 TTTT
41640044 TTTAAAATCA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
32 6 0.19
33 9 0.28
34 13 0.41
35 4 0.12
ACGTcount: A:0.23, C:0.07, G:0.06, T:0.64
Consensus pattern (32 bp):
TTTTATGTTTTGTAATTTTGTAAAAATTCTTC
Found at i:41649809 original size:46 final size:46
Alignment explanation
Indices: 41649743--41649858 Score: 175
Period size: 46 Copynumber: 2.6 Consensus size: 46
41649733 TTTGAGTACT
* * *
41649743 TCTGATC-AGTGGCAAAGTGATAAGTGTTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
41649788 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
*
41649834 TCTGAT-AAGGGAC-AAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
41649859 ATCATACGTA
Statistics
Matches: 66, Mismatches: 4, Indels: 3
0.90 0.05 0.04
Matches are distributed among these distances:
44 12 0.18
45 13 0.20
46 41 0.62
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (46 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
Found at i:41658199 original size:29 final size:28
Alignment explanation
Indices: 41658162--41658219 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 28
41658152 ATATACATAT
* * *
41658162 TTTGTGGATGTAATTAGAATATTTTGAAG
1 TTTGAGGATGTAACTAGAAT-TTTTAAAG
41658191 TTTGAGGATGTAACTAGAATTTTTAAAG
1 TTTGAGGATGTAACTAGAATTTTTAAAG
41658219 T
1 T
41658220 CTGAAAATCA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 8 0.31
29 18 0.69
ACGTcount: A:0.33, C:0.02, G:0.22, T:0.43
Consensus pattern (28 bp):
TTTGAGGATGTAACTAGAATTTTTAAAG
Found at i:41661804 original size:15 final size:16
Alignment explanation
Indices: 41661784--41661815 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
41661774 GGTTCTAGAA
41661784 AAAAAAAAGAA-AAAG
1 AAAAAAAAGAATAAAG
41661799 AAAAAAAAGAATAAAG
1 AAAAAAAAGAATAAAG
41661815 A
1 A
41661816 CTCAAAATGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.84, C:0.00, G:0.12, T:0.03
Consensus pattern (16 bp):
AAAAAAAAGAATAAAG
Found at i:41664710 original size:18 final size:17
Alignment explanation
Indices: 41664687--41664721 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
41664677 GAAAAAAGTA
41664687 CAAAAAAAAAAGCAAAAG
1 CAAAAAAAAAAG-AAAAG
*
41664705 CAAAAAGAAAAGAAAAG
1 CAAAAAAAAAAGAAAAG
41664722 AAGAATTGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.77, C:0.09, G:0.14, T:0.00
Consensus pattern (17 bp):
CAAAAAAAAAAGAAAAG
Found at i:41664754 original size:7 final size:7
Alignment explanation
Indices: 41664744--41664785 Score: 84
Period size: 7 Copynumber: 6.0 Consensus size: 7
41664734 AGAAGATAGA
41664744 TGAAGAG
1 TGAAGAG
41664751 TGAAGAG
1 TGAAGAG
41664758 TGAAGAG
1 TGAAGAG
41664765 TGAAGAG
1 TGAAGAG
41664772 TGAAGAG
1 TGAAGAG
41664779 TGAAGAG
1 TGAAGAG
41664786 GCTTTATTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 35 1.00
ACGTcount: A:0.43, C:0.00, G:0.43, T:0.14
Consensus pattern (7 bp):
TGAAGAG
Found at i:41678021 original size:234 final size:234
Alignment explanation
Indices: 41677612--41678077 Score: 801
Period size: 234 Copynumber: 2.0 Consensus size: 234
41677602 TGTACCAAAA
41677612 GGGGGCTTTGATAGTGTGGGCGACTTCGACTTCAAAATCCCGAGTCCGATAGCTGAAGAACCAAA
1 GGGGGCTTTGATAGTGTGGGCGACTTCGACTTCAAAATCCCGAGTCCGATAGCTGAAGAACCAAA
41677677 ATCTATAAAACAGAGAATCAAAGAAACGGAGTAAGCATTAAATGCTTAGTAAGTTTTGAGCAAAG
66 ATCTATAAAACAGAGAATCAAAGAAACGGAGTAAGCATTAAATGCTTAGTAAGTTTTGAGCAAAG
* *
41677742 AATTTAGACACAACCAAAGTATAGCATTCATGTAGCTAAACGGATAATTTCATATGCACAAATTT
131 AATTCAGACACAACAAAAGTATAGCATTCATGTAGCTAAACGGATAATTTCATATGCACAAATTT
*
41677807 TCAATATCATACTTACTTCACATTACCAACCCTTTTAGG
196 TCAATATAATACTTACTTCACATTACCAACCCTTTTAGG
*
41677846 GGGGGCTTTGATAGTGTGGGCGACTTCGACTTCAAAATCCCGAGTCCGATAGCTGGAGAACCAAA
1 GGGGGCTTTGATAGTGTGGGCGACTTCGACTTCAAAATCCCGAGTCCGATAGCTGAAGAACCAAA
* * * *
41677911 ATCTATAAAACAGAGAATCAAGGAGACGGAGTAAGCAATT-TATGCTTAGTAAGTTTTGAGCAAG
66 ATCTATAAAACAGAGAATCAAAGAAACGGAGTAAGC-ATTAAATGCTTAGTAAGTTTTGAGCAAA
* *
41677975 GGATTCCAG-CACAACAAAAGTATAGCATTCATGTAGCTAAACGGATAATTTCATATGCACAATT
130 GAATT-CAGACACAACAAAAGTATAGCATTCATGTAGCTAAACGGATAATTTCATATGCACAAAT
*
41678039 TTTTAATATAATACTTACTTCACATTACCAACCCTTTTA
194 TTTCAATATAATACTTACTTCACATTACCAACCCTTTTA
41678078 TTCATACACA
Statistics
Matches: 219, Mismatches: 11, Indels: 4
0.94 0.05 0.02
Matches are distributed among these distances:
234 214 0.98
235 5 0.02
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (234 bp):
GGGGGCTTTGATAGTGTGGGCGACTTCGACTTCAAAATCCCGAGTCCGATAGCTGAAGAACCAAA
ATCTATAAAACAGAGAATCAAAGAAACGGAGTAAGCATTAAATGCTTAGTAAGTTTTGAGCAAAG
AATTCAGACACAACAAAAGTATAGCATTCATGTAGCTAAACGGATAATTTCATATGCACAAATTT
TCAATATAATACTTACTTCACATTACCAACCCTTTTAGG
Found at i:41678394 original size:40 final size:40
Alignment explanation
Indices: 41678289--41678394 Score: 133
Period size: 40 Copynumber: 2.6 Consensus size: 40
41678279 GCTACTCGTT
* * *
41678289 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
* * * *
41678329 CAAATGCCTTCGGGACTTGGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAAC-TAGCA
41678370 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
41678395 CATCATTCAA
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
40 48 0.86
41 8 0.14
ACGTcount: A:0.25, C:0.27, G:0.25, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
Found at i:41687119 original size:10 final size:10
Alignment explanation
Indices: 41687106--41687169 Score: 56
Period size: 10 Copynumber: 5.7 Consensus size: 10
41687096 TCATTTCCTT
41687106 TTTCTTTTTC
1 TTTCTTTTTC
41687116 TTTCTTTCTTC
1 TTTCTTT-TTC
*
41687127 TTTTTTGTTTC
1 TTTCTT-TTTC
41687138 GTTTCTATCTTTC
1 -TTTCT-T-TTTC
41687151 TATTTCTTTTTC
1 --TTTCTTTTTC
41687163 TTTCTTT
1 TTTCTTT
41687170 ATTTTGTTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
10 14 0.31
11 11 0.24
12 9 0.20
13 6 0.13
14 5 0.11
ACGTcount: A:0.03, C:0.19, G:0.03, T:0.75
Consensus pattern (10 bp):
TTTCTTTTTC
Found at i:41687119 original size:17 final size:18
Alignment explanation
Indices: 41687094--41687165 Score: 62
Period size: 17 Copynumber: 4.1 Consensus size: 18
41687084 TCCTTCCTTC
41687094 TTTCATTTCCTTT-TTCTT
1 TTTCATTT-CTTTCTTCTT
41687112 TTTC-TTTCTTTCTTCTT
1 TTTCATTTCTTTCTTCTT
**
41687129 TTTTGTTTCGTTTCTATCTT
1 TTTCATTTC-TTTCT-TCTT
*
41687149 TCT-ATTTCTTT-TTCTT
1 TTTCATTTCTTTCTTCTT
41687165 T
1 T
41687166 CTTTATTTTG
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
16 9 0.19
17 12 0.26
18 11 0.23
19 9 0.19
20 6 0.13
ACGTcount: A:0.04, C:0.19, G:0.03, T:0.74
Consensus pattern (18 bp):
TTTCATTTCTTTCTTCTT
Found at i:41690757 original size:76 final size:76
Alignment explanation
Indices: 41690630--41690776 Score: 240
Period size: 76 Copynumber: 1.9 Consensus size: 76
41690620 CATCCTGTGT
* *
41690630 TTCGTAAGCCAATCCATGCCCAAAATCACATCAAAATCACCAAACGGCATTATCAACAAATCAAC
1 TTCGTAAGCCAATCCATACCCAAAATCACATCAAAATCACCAAACGACATTATCAACAAATCAAC
41690695 AGGGAACATGC
66 AGGGAACATGC
* * * *
41690706 TTCGTAAGTCAATCCATACCTAAAATCATATCAAAATCACCAAACGACATTATCAACAAATCAAT
1 TTCGTAAGCCAATCCATACCCAAAATCACATCAAAATCACCAAACGACATTATCAACAAATCAAC
41690771 AGGGAA
66 AGGGAA
41690777 TGCCATATTC
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
76 65 1.00
ACGTcount: A:0.44, C:0.26, G:0.10, T:0.20
Consensus pattern (76 bp):
TTCGTAAGCCAATCCATACCCAAAATCACATCAAAATCACCAAACGACATTATCAACAAATCAAC
AGGGAACATGC
Found at i:41701314 original size:5 final size:6
Alignment explanation
Indices: 41701297--41701322 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
41701287 TTGATGATTC
41701297 TATTTT TATTTT TATTTT TATTTT TA
1 TATTTT TATTTT TATTTT TATTTT TA
41701323 AAAAATTGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
TATTTT
Found at i:41702504 original size:33 final size:35
Alignment explanation
Indices: 41702438--41702516 Score: 90
Period size: 33 Copynumber: 2.3 Consensus size: 35
41702428 ATATATTTTC
* *
41702438 TATTTTTATTATATTATTAGATTAACATTATAAAAA
1 TATTTTTAATATATTATTA-ATTAACATAATAAAAA
* *
41702474 TATTTTTAATATATTATT-A-TAAGATAATAAAAT
1 TATTTTTAATATATTATTAATTAACATAATAAAAA
*
41702507 TATTATTAAT
1 TATTTTTAAT
41702517 TATAATAGGG
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
33 20 0.53
34 1 0.03
36 17 0.45
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.51
Consensus pattern (35 bp):
TATTTTTAATATATTATTAATTAACATAATAAAAA
Found at i:41722864 original size:39 final size:40
Alignment explanation
Indices: 41722660--41722882 Score: 245
Period size: 40 Copynumber: 5.6 Consensus size: 40
41722650 TTGAATGCTG
* * * * * *
41722660 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
* * * *
41722700 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
41722740 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
41722780 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
41722820 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
41722859 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
41722883 TGAACGAGGA
Statistics
Matches: 161, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 35 0.22
40 118 0.73
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:41722902 original size:79 final size:80
Alignment explanation
Indices: 41722735--41722917 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 80
41722725 GTGCGAGATA
* * *
41722735 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
41722800 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
41722815 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
41722879 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
41722894 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
41722918 TACGTGATTT
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.53
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:41724988 original size:30 final size:29
Alignment explanation
Indices: 41724918--41725002 Score: 82
Period size: 30 Copynumber: 2.9 Consensus size: 29
41724908 ATGGTTGGCA
*
41724918 TATCCCTTTTCGACATTCGATAGTCGAAGC
1 TATCCCTTTTCTA-ATTCGATAGTCGAAGC
* ** *
41724948 TCTCGTTTTTCTTAATTCGATAGTTGAAGC
1 TATCCCTTTTC-TAATTCGATAGTCGAAGC
*
41724978 TATCCCTTTTCATAA-TCGATGGTCG
1 TATCCCTTTTC-TAATTCGATAGTCG
41725003 TCACCATCCT
Statistics
Matches: 43, Mismatches: 11, Indels: 3
0.75 0.19 0.05
Matches are distributed among these distances:
29 8 0.19
30 34 0.79
31 1 0.02
ACGTcount: A:0.21, C:0.22, G:0.16, T:0.40
Consensus pattern (29 bp):
TATCCCTTTTCTAATTCGATAGTCGAAGC
Found at i:41725011 original size:29 final size:29
Alignment explanation
Indices: 41724979--41725079 Score: 148
Period size: 29 Copynumber: 3.5 Consensus size: 29
41724969 AGTTGAAGCT
41724979 ATCCCTTTTCATAATCGATGGTCGTCACC
1 ATCCCTTTTCATAATCGATGGTCGTCACC
*
41725008 ATCCTTTTTCATAATCGATGGTCGTCACC
1 ATCCCTTTTCATAATCGATGGTCGTCACC
* * * * *
41725037 ATTCTTTTTAATATTCGATGGTCGTCACT
1 ATCCCTTTTCATAATCGATGGTCGTCACC
41725066 ATCCCTTTTCATAA
1 ATCCCTTTTCATAA
41725080 GTGATAGTCG
Statistics
Matches: 63, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 63 1.00
ACGTcount: A:0.22, C:0.26, G:0.12, T:0.41
Consensus pattern (29 bp):
ATCCCTTTTCATAATCGATGGTCGTCACC
Found at i:41725089 original size:29 final size:29
Alignment explanation
Indices: 41724977--41725104 Score: 143
Period size: 29 Copynumber: 4.4 Consensus size: 29
41724967 ATAGTTGAAG
41724977 CTATCCCTTTTCATAATCGATGGTCGTCA
1 CTATCCCTTTTCATAATCGATGGTCGTCA
* *
41725006 CCATCCTTTTTCATAATCGATGGTCGTCA
1 CTATCCCTTTTCATAATCGATGGTCGTCA
* * * * *
41725035 CCATTCTTTTTAATATTCGATGGTCGTCA
1 CTATCCCTTTTCATAATCGATGGTCGTCA
* *
41725064 CTATCCCTTTTCATAAGT-GATAGTCG-GA
1 CTATCCCTTTTCATAA-TCGATGGTCGTCA
41725092 GCTATCCCTTTTC
1 -CTATCCCTTTTC
41725105 GTTTTCAATA
Statistics
Matches: 85, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
28 1 0.01
29 83 0.98
30 1 0.01
ACGTcount: A:0.20, C:0.26, G:0.14, T:0.40
Consensus pattern (29 bp):
CTATCCCTTTTCATAATCGATGGTCGTCA
Found at i:41726778 original size:15 final size:15
Alignment explanation
Indices: 41726758--41726787 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
41726748 CTATACATGT
41726758 AAAATATAAAAGACA
1 AAAATATAAAAGACA
41726773 AAAATATAAAAGACA
1 AAAATATAAAAGACA
41726788 TAATAGTGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.73, C:0.07, G:0.07, T:0.13
Consensus pattern (15 bp):
AAAATATAAAAGACA
Found at i:41731746 original size:11 final size:11
Alignment explanation
Indices: 41731725--41731756 Score: 55
Period size: 11 Copynumber: 2.8 Consensus size: 11
41731715 ATAATGGAAC
41731725 AATAAAGATTTA
1 AATAAA-ATTTA
41731737 AATAAAATTTA
1 AATAAAATTTA
41731748 AATAAAATT
1 AATAAAATT
41731757 AAGCACATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.70
12 6 0.30
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (11 bp):
AATAAAATTTA
Found at i:41733487 original size:223 final size:222
Alignment explanation
Indices: 41733223--41733752 Score: 670
Period size: 223 Copynumber: 2.4 Consensus size: 222
41733213 GATCTGCTAC
* * * *
41733223 CTTCAGTCTGCCCCACTGCAACTTTAGGGAGATAGGATTATTGGCTGTGATCTGCTCCACTACAA
1 CTTCAGTCTGCCCCACTGCAACTTCAGGGAGATAAGATTATT-GCT-TAATCTGCTCCACTGCAA
** *
41733288 CTTCAGGGAGATAAGATTTGCCATGATCTGCTCTACTGCAACTTCAGAGTGATAAGATCTGTGAT
64 CTTCAGGGAGATAAGATTTGCCATGATCAACTCTACTGCAACTTCAGAGAGATAAGATCTGTGAT
* * * * *
41733353 TTATAGCTTTAATCTGTTCTACCGCAGCTTCAGGGAAATAAGATTCGCTATCATT-AGTCTGCTC
129 TTATAGCTTTAATCTGTTCCACCGCAACTTCAGGGAAATAAGACT-GATATC-TTCAATCTGCTC
*
41733417 CACTGCAACTTCAAGGATATAAGACTT-CA-
192 CACTGCAACTTCAAGGAGATAAGACTTCCAT
* * * *
41733446 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATTTGTTTTAATCTACTCCACTGCAA
1 CTTCAGTCTGCCCCACTGCAACTTCAGGGAGATAAGATTA-TTG-CTTAATCTGCTCCACTGCAA
* *
41733511 CTTCGGGGAGATAAGTTTTGCCATGATCAACTCTACTGCAACTTCAGAGAGATAAGATCTGTGAT
64 CTTCAGGGAGATAAGATTTGCCATGATCAACTCTACTGCAACTTCAGAGAGATAAGATCTGTGAT
* * *
41733576 TTATAGCTTTAATCTGTTCCACTGCAACTTCAGGGAGATAAGACTGATGTCTTCAATCTGCTCCA
129 TTATAGCTTTAATCTGTTCCACCGCAACTTCAGGGAAATAAGACTGATATCTTCAATCTGCTCCA
* *
41733641 CTGCAACTTCAGGGAGATAAGATTTGCCAT
194 CTGCAACTTCAAGGAGATAAGACTT-CCAT
* * * * * * *
41733671 CTTCAGTCAGCCCCACTGCAGCTTCAGGGGGATAAGACTTGCTTTCTTCAGTCTGCTCCACTGTA
1 CTTCAGTCTGCCCCACTGCAACTTCAGGGAGATAAGA-TT-ATTGCTT-AATCTGCTCCACTGCA
41733736 ACTTCAGGGAGATAAGA
63 ACTTCAGGGAGATAAGA
41733753 GCTGTAACTT
Statistics
Matches: 261, Mismatches: 37, Indels: 15
0.83 0.12 0.05
Matches are distributed among these distances:
221 2 0.01
222 36 0.14
223 152 0.58
224 5 0.02
225 34 0.13
226 32 0.12
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.31
Consensus pattern (222 bp):
CTTCAGTCTGCCCCACTGCAACTTCAGGGAGATAAGATTATTGCTTAATCTGCTCCACTGCAACT
TCAGGGAGATAAGATTTGCCATGATCAACTCTACTGCAACTTCAGAGAGATAAGATCTGTGATTT
ATAGCTTTAATCTGTTCCACCGCAACTTCAGGGAAATAAGACTGATATCTTCAATCTGCTCCACT
GCAACTTCAAGGAGATAAGACTTCCAT
Found at i:41733689 original size:45 final size:44
Alignment explanation
Indices: 41733177--41733798 Score: 295
Period size: 45 Copynumber: 13.9 Consensus size: 44
41733167 CTATAGCCCG
* * ** *
41733177 TCTTCAATCTGCTCCACTACAGTTTCAGGGA-AGTGAGATCTGCTA
1 TCTTCAGTCTGCTCCACTGCAACTTCAGGGAGA-TAAGAT-TGCTA
* * * * ** *
41733222 CCTTCAGTCTGCCCCACTGCAACTTTAGGGAGATAGGATTATTG
1 TCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTGCTA
* * *
41733266 GCTGTGA-TCTGCTCCACTACAACTTCAGGGAGATAAGATTTGC--
1 TCT-TCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTGCTA
* * * * * *
41733309 -CATGA-TCTGCTCTACTGCAACTTCAGAGTGATAAGATCTGTGATTTA
1 TCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA--T-TG--CTA
* * * * * * *
41733356 TAGCTTTAATCTGTTCTACCGCAGCTTCAGGGAAATAAGATTCGCTA
1 T--CTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGATT-GCTA
* *
41733403 TCATT-AGTCTGCTCCACTGCAACTTCAAGGATATAAGACTT-C-A
1 TC-TTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTGCTA
* * *
41733446 -CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-ATT
1 TCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTGCTA
* * * * * * *
41733488 TGTTTTAATCTACTCCACTGCAACTTCGGGGAGATAAGTTTTGCCA
1 T-CTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAG-ATTGCTA
** * * *
41733534 TGATCA-ACT-CT--ACTGCAACTTCAGAGAGATAAGATCTGTGATTTA
1 TCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA--T-TG--CTA
* * * * * *
41733579 TAGCTTTAATCTGTTCCACTGCAACTTCAGGGAGATAAGACTGATG
1 T--CTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTGCTA
* *
41733625 TCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCA
1 TCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTGCTA
* * * * *
41733670 TCTTCAGTCAGCCCCACTGCAGCTTCAGGGGGATAAGACTTGCTT
1 TCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTGCTA
* *
41733715 TCTTCAGTCTGCTCCACTGTAACTTCAGGGAGATAAGAGCTG-TA
1 TCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTGCTA
* * * * * * *
41733759 ACTTTAATCCGTTCCACTGCAACTTCATGGAGATAGGATT
1 TCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGATT
41733799 TGTGGTTTCA
Statistics
Matches: 438, Mismatches: 105, Indels: 70
0.71 0.17 0.11
Matches are distributed among these distances:
41 54 0.12
42 34 0.08
43 8 0.02
44 132 0.30
45 139 0.32
46 8 0.02
47 5 0.01
48 5 0.01
49 3 0.01
50 3 0.01
51 47 0.11
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.31
Consensus pattern (44 bp):
TCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTGCTA
Found at i:41734099 original size:24 final size:24
Alignment explanation
Indices: 41734072--41734127 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
41734062 CTTATTGCCC
41734072 CCACTGTAATATTCAAGGTTCAAT
1 CCACTGTAATATTCAAGGTTCAAT
*
41734096 CCACTGTAATCTTCAAGGTTCAAT
1 CCACTGTAATATTCAAGGTTCAAT
41734120 CCACTGTA
1 CCACTGTA
41734128 CTTTTGGGAC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.32
Consensus pattern (24 bp):
CCACTGTAATATTCAAGGTTCAAT
Found at i:41736113 original size:19 final size:18
Alignment explanation
Indices: 41736057--41736114 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 18
41736047 TGGCCTCTCC
*
41736057 TTTTTCTTTTCCTTTTC-T
1 TTTTTCTTCT-CTTTTCAT
*
41736075 TTTTTCTTCTCTTTTTAT
1 TTTTTCTTCTCTTTTCAT
41736093 TTTTT-TTCATCATTTTCAT
1 TTTTTCTTC-TC-TTTTCAT
41736112 TTT
1 TTT
41736115 ATTATTATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
17 8 0.24
18 17 0.50
19 9 0.26
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTTTCTTCTCTTTTCAT
Found at i:41737995 original size:4 final size:4
Alignment explanation
Indices: 41737986--41738022 Score: 65
Period size: 4 Copynumber: 9.2 Consensus size: 4
41737976 CAATATATTT
*
41737986 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGCA TGTA T
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA T
41738023 AGTGAAAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.24, C:0.03, G:0.24, T:0.49
Consensus pattern (4 bp):
TGTA
Found at i:41738318 original size:24 final size:23
Alignment explanation
Indices: 41738274--41738323 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
41738264 AACTTAGAAA
*
41738274 AATAATATATATAAAGCTTAAAAC
1 AATAATATAAATAAAGCTT-AAAC
*
41738298 AATAATATACAATAAA-TTTAAAC
1 AATAATATA-AATAAAGCTTAAAC
41738321 AAT
1 AAT
41738324 GTTAATAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 7 0.30
24 11 0.48
25 5 0.22
ACGTcount: A:0.60, C:0.08, G:0.02, T:0.30
Consensus pattern (23 bp):
AATAATATAAATAAAGCTTAAAC
Found at i:41738386 original size:23 final size:24
Alignment explanation
Indices: 41738340--41738388 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 24
41738330 AATAAATTTT
**
41738340 AAATAATATTGAACTTGATCATTA
1 AAATAATATTGAACTTGAAAATTA
*
41738364 AAATAATATT-AACTTTAAAATTA
1 AAATAATATTGAACTTGAAAATTA
41738387 AA
1 AA
41738389 TACATTAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 12 0.55
24 10 0.45
ACGTcount: A:0.53, C:0.06, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATAATATTGAACTTGAAAATTA
Found at i:41751220 original size:48 final size:48
Alignment explanation
Indices: 41751161--41751288 Score: 154
Period size: 46 Copynumber: 2.7 Consensus size: 48
41751151 TATGTGTGCT
* **
41751161 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCTAGATATTTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCTAGAGA-CGAGAGCC
* * * * *
41751209 AGTGTAAGACATGTCTGGGACATGCA-CCG-GTGTTGAGACGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCTAGAGACGAGAGCC
41751255 AGTGTAAGACATGTCTGGGACATGCATCAGCCTC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTC
41751289 GCGATGGACA
Statistics
Matches: 66, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
45 1 0.02
46 34 0.52
47 4 0.06
48 27 0.41
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCTCTAGAGACGAGAGCC
Found at i:41759887 original size:27 final size:27
Alignment explanation
Indices: 41759848--41760016 Score: 196
Period size: 27 Copynumber: 6.2 Consensus size: 27
41759838 NNNNNNNNNC
* * *
41759848 AGTGCTATATAATCAACTCGCACACTT
1 AGTGCTACATAGTCAAATCGCACACTT
* *
41759875 AGTGCTACGTAATCAAATCGCACACTT
1 AGTGCTACATAGTCAAATCGCACACTT
41759902 AGTGCTACATAGTCAAACTCGCACACTT
1 AGTGCTACATAGTCAAA-TCGCACACTT
** * *
41759930 AGTGCCGCATGGTCAATTCGCACACTT
1 AGTGCTACATAGTCAAATCGCACACTT
* **
41759957 AGTGC-ATCATATTCATTTCGCACACTT
1 AGTGCTA-CATAGTCAAATCGCACACTT
*
41759984 AGTGCAACATAGTCAAATCGCACACTT
1 AGTGCTACATAGTCAAATCGCACACTT
41760011 AGTGCT
1 AGTGCT
41760017 GTACAATTTA
Statistics
Matches: 122, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 98 0.80
28 24 0.20
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (27 bp):
AGTGCTACATAGTCAAATCGCACACTT
Found at i:41759985 original size:82 final size:81
Alignment explanation
Indices: 41759860--41760015 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
41759850 TGCTATATAA
* *
41759860 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
41759925 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
41759942 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
41760006 CACTTAGTGC
65 CACTTAGTGC
41760016 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:41763217 original size:10 final size:10
Alignment explanation
Indices: 41763199--41763233 Score: 61
Period size: 10 Copynumber: 3.5 Consensus size: 10
41763189 ATGCATTAAC
41763199 CACATATAAT
1 CACATATAAT
*
41763209 CACAAATAAT
1 CACATATAAT
41763219 CACATATAAT
1 CACATATAAT
41763229 CACAT
1 CACAT
41763234 TTACTTATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (10 bp):
CACATATAAT
Found at i:41765170 original size:23 final size:24
Alignment explanation
Indices: 41765094--41765187 Score: 91
Period size: 25 Copynumber: 3.9 Consensus size: 24
41765084 GTAGCTTTGA
* *
41765094 AGAGCCATTAACGGGAAGCTCTGG
1 AGAGCCATTATCGAGAAGCTCTGG
* * **
41765118 ATAGCCATATATCGAGAAGTTCAAG
1 AGAGCCAT-TATCGAGAAGCTCTGG
*
41765143 TGAGCCA-TATCGAGAAGCTCTGG
1 AGAGCCATTATCGAGAAGCTCTGG
*
41765166 AGAGCCATTAATCAAGAAGCTC
1 AGAGCCATT-ATCGAGAAGCTC
41765188 ACAAAGAGCC
Statistics
Matches: 54, Mismatches: 13, Indels: 5
0.75 0.18 0.07
Matches are distributed among these distances:
23 19 0.35
24 8 0.15
25 27 0.50
ACGTcount: A:0.34, C:0.20, G:0.26, T:0.20
Consensus pattern (24 bp):
AGAGCCATTATCGAGAAGCTCTGG
Found at i:41765186 original size:25 final size:24
Alignment explanation
Indices: 41765077--41765187 Score: 84
Period size: 25 Copynumber: 4.6 Consensus size: 24
41765067 ATGTGAGCTT
* * *
41765077 ATAA-CGAGTAGCTTTGAAGAGCC
1 ATAATCGAGAAGCTCTGGAGAGCC
* *
41765100 ATTAA-CGGGAAGCTCTGGATAGCC
1 A-TAATCGAGAAGCTCTGGAGAGCC
* ** *
41765124 ATATATCGAGAAGTTCAAGTGAGCC
1 ATA-ATCGAGAAGCTCTGGAGAGCC
41765149 AT-ATCGAGAAGCTCTGGAGAGCC
1 ATAATCGAGAAGCTCTGGAGAGCC
*
41765172 ATTAATCAAGAAGCTC
1 A-TAATCGAGAAGCTC
41765188 ACAAAGAGCC
Statistics
Matches: 67, Mismatches: 16, Indels: 8
0.74 0.18 0.09
Matches are distributed among these distances:
23 21 0.31
24 20 0.30
25 26 0.39
ACGTcount: A:0.34, C:0.19, G:0.25, T:0.22
Consensus pattern (24 bp):
ATAATCGAGAAGCTCTGGAGAGCC
Found at i:41765202 original size:26 final size:26
Alignment explanation
Indices: 41765166--41765230 Score: 69
Period size: 26 Copynumber: 2.5 Consensus size: 26
41765156 GAAGCTCTGG
41765166 AGAGCCATTAATCAAG-AAGCTCACAA
1 AGAGCCATTAAT-AAGAAAGCTCACAA
* * *
41765192 AGAGCCTTTAATTAGAAAGCTCACGA
1 AGAGCCATTAATAAGAAAGCTCACAA
*
41765218 AGAACCATATAAT
1 AGAGCCAT-TAAT
41765231 GGGACGCTCA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
25 2 0.06
26 26 0.81
27 4 0.12
ACGTcount: A:0.45, C:0.20, G:0.15, T:0.20
Consensus pattern (26 bp):
AGAGCCATTAATAAGAAAGCTCACAA
Found at i:41773384 original size:33 final size:33
Alignment explanation
Indices: 41773336--41773402 Score: 102
Period size: 33 Copynumber: 2.0 Consensus size: 33
41773326 TGAATAGATT
41773336 GCTCCCCCTTAAT-AAAAGTCATTTTCAATTTAA
1 GCTCCCCCTTAATAAAAAG-CATTTTCAATTTAA
41773369 GCTCCCCC-TATATAAAAAGCATTTTCAATTTAA
1 GCTCCCCCTTA-ATAAAAAGCATTTTCAATTTAA
41773402 G
1 G
41773403 GCACAAATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
32 2 0.06
33 25 0.78
34 5 0.16
ACGTcount: A:0.34, C:0.24, G:0.07, T:0.34
Consensus pattern (33 bp):
GCTCCCCCTTAATAAAAAGCATTTTCAATTTAA
Found at i:41777014 original size:21 final size:21
Alignment explanation
Indices: 41776988--41777029 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
41776978 GATTAAAGAA
*
41776988 TGATTTTTATGAATAGCAATC
1 TGATTTCTATGAATAGCAATC
*
41777009 TGATTTCTATGAATAGTAATC
1 TGATTTCTATGAATAGCAATC
41777030 CCTTTATTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (21 bp):
TGATTTCTATGAATAGCAATC
Found at i:41780183 original size:16 final size:16
Alignment explanation
Indices: 41780162--41780249 Score: 60
Period size: 16 Copynumber: 5.7 Consensus size: 16
41780152 TTAATCACTT
41780162 TAATATTAAATTAATA
1 TAATATTAAATTAATA
*
41780178 TAATATT-TATCT--T-
1 TAATATTAAAT-TAATA
41780191 TAATATTAAATTAATA
1 TAATATTAAATTAATA
* * *
41780207 TAATATT-TATCAAGA
1 TAATATTAAATTAATA
* * *
41780222 TAAATATTATACTAATT
1 T-AATATTAAATTAATA
41780239 TAATATTAAAT
1 TAATATTAAAT
41780250 CATATTAAAA
Statistics
Matches: 54, Mismatches: 11, Indels: 14
0.68 0.14 0.18
Matches are distributed among these distances:
13 8 0.15
14 3 0.06
15 9 0.17
16 29 0.54
17 5 0.09
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (16 bp):
TAATATTAAATTAATA
Found at i:41780192 original size:29 final size:29
Alignment explanation
Indices: 41780159--41780217 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
41780149 AACTTAATCA
41780159 CTTTAATATTAAATTAATATAATATTTAT
1 CTTTAATATTAAATTAATATAATATTTAT
41780188 CTTTAATATTAAATTAATATAATATTTAT
1 CTTTAATATTAAATTAATATAATATTTAT
41780217 C
1 C
41780218 AAGATAAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (29 bp):
CTTTAATATTAAATTAATATAATATTTAT
Found at i:41783531 original size:16 final size:17
Alignment explanation
Indices: 41783510--41783541 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
41783500 TATAAGTCCG
41783510 ACAAATAA-AATAAAAC
1 ACAAATAACAATAAAAC
41783526 ACAAATAACAATAAAA
1 ACAAATAACAATAAAA
41783542 AATAAAAGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.75, C:0.12, G:0.00, T:0.12
Consensus pattern (17 bp):
ACAAATAACAATAAAAC
Found at i:41791860 original size:16 final size:16
Alignment explanation
Indices: 41791839--41791890 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
41791829 TATCATGATC
41791839 TTTACTTTCTTCTTTA
1 TTTACTTTCTTCTTTA
* * *
41791855 TTTACTCTCTTATTTG
1 TTTACTTTCTTCTTTA
*
41791871 TTTACTTACTTGC-TTA
1 TTTACTTTCTT-CTTTA
41791887 TTTA
1 TTTA
41791891 AATAACTCAT
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.15, C:0.17, G:0.04, T:0.63
Consensus pattern (16 bp):
TTTACTTTCTTCTTTA
Found at i:41793977 original size:15 final size:16
Alignment explanation
Indices: 41793948--41793977 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
41793938 AAACATGCTT
41793948 TTAACACATTATCAAA
1 TTAACACATTATCAAA
41793964 TTAACACA-TATCAA
1 TTAACACATTATCAA
41793978 CAAGGCACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:41800187 original size:15 final size:16
Alignment explanation
Indices: 41800158--41800187 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
41800148 AAACATGCTT
41800158 TTAACACATTATCAAA
1 TTAACACATTATCAAA
41800174 TTAACACA-TATCAA
1 TTAACACATTATCAA
41800188 CAAGGCACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:41807164 original size:42 final size:42
Alignment explanation
Indices: 41806937--41807189 Score: 135
Period size: 44 Copynumber: 5.9 Consensus size: 42
41806927 TATCTCGTAA
* *
41806937 TTTAATTCGCTCCACTACAACTTCAGGGAGATAGGATTAT-C
1 TTTAATCCGCTCCACTACAACTTCAGGGAGATAAGATTATGC
* *
41806978 AAATTCAATCTGCTCCACTGTA-AAC-TCAGGGAGATAAGATT-TGC
1 ---TTTAATCCGCTCCAC--TACAACTTCAGGGAGATAAGATTATGC
* * * * * * *
41807022 TTCTTCAGTCTGC-CCTACTGCAACCTCAAGAAGATAAGACCTGATGC
1 -T-TT-AATCCGCTCC-ACTACAACTTCAGGGAGATAAGA--TTATGC
* * * * * * * *
41807069 ---GATCCACTCTACTGCAACTTCAGAGAAATCAGATCTATTAC
1 TTTAATCCGCTCCACTACAACTTCAGGGAGATAAGAT-TA-TGC
*
41807110 TTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTATGC
1 TTTAATCCGCTCCACTACAACTTCAGGGAGATAAGATTATGC
* *
41807152 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
1 TTTAATCCGCTCCACTACAACTTCAGGGAGATAAGATT
41807190 TGCCATCTTC
Statistics
Matches: 156, Mismatches: 36, Indels: 36
0.68 0.16 0.16
Matches are distributed among these distances:
39 1 0.01
40 1 0.01
41 22 0.14
42 40 0.26
43 9 0.06
44 74 0.47
45 3 0.02
46 3 0.02
47 3 0.02
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.28
Consensus pattern (42 bp):
TTTAATCCGCTCCACTACAACTTCAGGGAGATAAGATTATGC
Done.