Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 349 of 356
Found at i:111665287 original size:22 final size:21
Alignment explanation
Indices: 111665237--111665287 Score: 50
Period size: 22 Copynumber: 2.3 Consensus size: 21
111665227 TAATAAAGAT
111665237 AAAAATATATACATAAAATAG
1 AAAAATATATACATAAAATAG
* *
111665258 TAATAATATATATATAACTAATA-
1 -AAAAATATATACATAA--AATAG
111665281 AAAAATA
1 AAAAATA
111665288 AAAATAAAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
22 20 0.83
24 4 0.17
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (21 bp):
AAAAATATATACATAAAATAG
Found at i:111665546 original size:33 final size:32
Alignment explanation
Indices: 111665484--111665546 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 32
111665474 TGACTAACAG
111665484 TATTAAAACATATACATAATAATACACATAAAA
1 TATTAAAACATATACATAATAATA-ACATAAAA
*
111665517 TATTAAAAGCATATATATATATAAT-ACATA
1 TATTAAAA-CATATACATA-ATAATAACATA
111665547 TGAAAGAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
33 13 0.48
34 9 0.33
35 5 0.19
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.32
Consensus pattern (32 bp):
TATTAAAACATATACATAATAATAACATAAAA
Found at i:111670106 original size:22 final size:22
Alignment explanation
Indices: 111670065--111670106 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
111670055 CCTTATAGTC
*
111670065 AATTTAATTTTCATTTTTTTTT
1 AATTTAATTTTCATTCTTTTTT
111670087 AATTTAATTTTC-TATCTTTT
1 AATTTAATTTTCAT-TCTTTT
111670107 GGAAGAGTCG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 1 0.06
22 17 0.94
ACGTcount: A:0.24, C:0.07, G:0.00, T:0.69
Consensus pattern (22 bp):
AATTTAATTTTCATTCTTTTTT
Found at i:111671176 original size:17 final size:16
Alignment explanation
Indices: 111671154--111671197 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 16
111671144 TAGTAAAAAT
111671154 ATAATTTTAATATTTTA
1 ATAATTTTAA-ATTTTA
*
111671171 ATAA-TTTAAATTTTT
1 ATAATTTTAAATTTTA
111671186 ATAAATTTTAAA
1 AT-AATTTTAAA
111671198 ATATTAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 7 0.29
16 7 0.29
17 10 0.42
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
ATAATTTTAAATTTTA
Found at i:111671192 original size:16 final size:17
Alignment explanation
Indices: 111671153--111671193 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
111671143 ATAGTAAAAA
*
111671153 TATAATTTTAATATTTT
1 TATAAATTTAATATTTT
*
111671170 AAT-AATTTAA-ATTTT
1 TATAAATTTAATATTTT
111671185 TATAAATTT
1 TATAAATTT
111671194 TAAAATATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 3
0.77 0.12 0.12
Matches are distributed among these distances:
15 7 0.35
16 11 0.55
17 2 0.10
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TATAAATTTAATATTTT
Found at i:111672838 original size:17 final size:18
Alignment explanation
Indices: 111672818--111672851 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
111672808 AAGTGAATTG
111672818 AAATTGCG-AAATTAAAT
1 AAATTGCGAAAATTAAAT
*
111672835 AAATTGTGAAAATTAAA
1 AAATTGCGAAAATTAAA
111672852 ATGAAGAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.56, C:0.03, G:0.12, T:0.29
Consensus pattern (18 bp):
AAATTGCGAAAATTAAAT
Found at i:111673588 original size:10 final size:10
Alignment explanation
Indices: 111673569--111673618 Score: 75
Period size: 10 Copynumber: 5.0 Consensus size: 10
111673559 CTAATGTCTA
111673569 AAAGATAAAT
1 AAAGATAAAT
111673579 ACAA-ATAAAT
1 A-AAGATAAAT
*
111673589 AAAGATAATT
1 AAAGATAAAT
111673599 AAAGATAAAT
1 AAAGATAAAT
111673609 AAAGATAAAT
1 AAAGATAAAT
111673619 GAAACTAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
9 2 0.06
10 32 0.89
11 2 0.06
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:111673627 original size:20 final size:19
Alignment explanation
Indices: 111673569--111673628 Score: 75
Period size: 20 Copynumber: 3.0 Consensus size: 19
111673559 CTAATGTCTA
111673569 AAAGATAAATACAAATAAAT
1 AAAGATAAATA-AAATAAAT
*
111673589 AAAGATAATTAAAGATAAAT
1 AAAGATAAATAAA-ATAAAT
*
111673609 AAAGATAAATGAAACTAAAT
1 AAAGATAAAT-AAAATAAAT
111673629 CCTAAAATTA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.06
20 30 0.86
21 3 0.09
ACGTcount: A:0.67, C:0.03, G:0.08, T:0.22
Consensus pattern (19 bp):
AAAGATAAATAAAATAAAT
Found at i:111677317 original size:33 final size:33
Alignment explanation
Indices: 111677253--111677317 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 33
111677243 ACCATGAACA
**
111677253 ACAAGCAGGGCACCTTATTAACCCATTTTCATT
1 ACAAGCAGGGCACCTTATTAACCCACCTTCATT
* * *
111677286 ACAATCAGGGCACCTTCTTAACCTACCTTCAT
1 ACAAGCAGGGCACCTTATTAACCCACCTTCAT
111677318 CTTCTTCGAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.29, C:0.31, G:0.11, T:0.29
Consensus pattern (33 bp):
ACAAGCAGGGCACCTTATTAACCCACCTTCATT
Found at i:111686860 original size:33 final size:33
Alignment explanation
Indices: 111686792--111686856 Score: 80
Period size: 32 Copynumber: 2.0 Consensus size: 33
111686782 TTCAAATTAT
* *
111686792 TTTTAAGTTTAAGATTATTTCAAGTTTGAATAA
1 TTTTAAGTTTAAGATTATTTCAAGTGTAAATAA
*
111686825 TTTTAAGGTTTAA-ATTA-TTCGAGTGTAAATAA
1 TTTTAA-GTTTAAGATTATTTCAAGTGTAAATAA
111686857 ATTTGATTCA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
32 12 0.43
33 10 0.36
34 6 0.21
ACGTcount: A:0.37, C:0.03, G:0.14, T:0.46
Consensus pattern (33 bp):
TTTTAAGTTTAAGATTATTTCAAGTGTAAATAA
Found at i:111690109 original size:3 final size:3
Alignment explanation
Indices: 111690101--111690143 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
111690091 CAGCAAGGTT
111690101 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
111690144 AAAAACCCTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:111693289 original size:16 final size:17
Alignment explanation
Indices: 111693263--111693303 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
111693253 TTAAAGTTAA
*
111693263 TAATATTTTATATTATG
1 TAATTTTTTATATTATG
*
111693280 TTATTTTTATATATTATG
1 TAATTTTT-TATATTATG
111693298 TAATTT
1 TAATTT
111693304 ATATATTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (17 bp):
TAATTTTTTATATTATG
Found at i:111693294 original size:18 final size:18
Alignment explanation
Indices: 111693271--111693309 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
111693261 AATAATATTT
* *
111693271 TATATTATGTTATTTTTA
1 TATATTATGTAATTTATA
111693289 TATATTATGTAATTTATA
1 TATATTATGTAATTTATA
111693307 TAT
1 TAT
111693310 TAAAATATGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (18 bp):
TATATTATGTAATTTATA
Found at i:111693304 original size:16 final size:18
Alignment explanation
Indices: 111693265--111693311 Score: 64
Period size: 16 Copynumber: 2.8 Consensus size: 18
111693255 AAAGTTAATA
111693265 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
*
111693282 ATTTTTATATATTATG-T
1 ATATTTATATATTATGTT
111693299 A-ATTTATATATTA
1 ATATTTATATATTA
111693312 AAATATGTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
16 11 0.41
17 7 0.26
18 9 0.33
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Found at i:111694368 original size:13 final size:13
Alignment explanation
Indices: 111694350--111694388 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
111694340 CTTTGTCATT
*
111694350 AAGGAAAAGGAAA
1 AAGGAAAAAGAAA
111694363 AAGGAAAAAGAAA
1 AAGGAAAAAGAAA
*
111694376 AAAGAAAAAGAAA
1 AAGGAAAAAGAAA
111694389 CTTTCTATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (13 bp):
AAGGAAAAAGAAA
Found at i:111711339 original size:27 final size:28
Alignment explanation
Indices: 111711268--111711332 Score: 123
Period size: 27 Copynumber: 2.4 Consensus size: 28
111711258 TCTCCAAAGA
111711268 AATTTTTTCACATAAAATATTTATATTT
1 AATTTTTTCACATAAAATATTTATATTT
111711296 -ATTTTTTCACATAAAATATTTATATTT
1 AATTTTTTCACATAAAATATTTATATTT
111711323 AATTTTTTCA
1 AATTTTTTCA
111711333 ATTAAATTTC
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
27 27 0.75
28 9 0.25
ACGTcount: A:0.37, C:0.08, G:0.00, T:0.55
Consensus pattern (28 bp):
AATTTTTTCACATAAAATATTTATATTT
Found at i:111721613 original size:28 final size:28
Alignment explanation
Indices: 111721573--111721627 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
111721563 TATTTTAATG
111721573 TATGGATAACTTTGTTGGTTTGGGTCAA
1 TATGGATAACTTTGTTGGTTTGGGTCAA
111721601 TATGGATAACTTTGTTGGTTTGGGTCA
1 TATGGATAACTTTGTTGGTTTGGGTCA
111721628 TTAGTTTTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.20, C:0.07, G:0.29, T:0.44
Consensus pattern (28 bp):
TATGGATAACTTTGTTGGTTTGGGTCAA
Found at i:111725349 original size:16 final size:16
Alignment explanation
Indices: 111725328--111725362 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
111725318 AATCCACTAG
111725328 CATACATAAACTCTAT
1 CATACATAAACTCTAT
111725344 CATACATAAACTCTAT
1 CATACATAAACTCTAT
111725360 CAT
1 CAT
111725363 GAATCCATCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.43, C:0.26, G:0.00, T:0.31
Consensus pattern (16 bp):
CATACATAAACTCTAT
Found at i:111732652 original size:55 final size:59
Alignment explanation
Indices: 111732552--111732661 Score: 156
Period size: 55 Copynumber: 1.9 Consensus size: 59
111732542 TTTAGCAACC
* *
111732552 TAAAAATGAAAAAAATATTTTAATCTTTCTAAAAATGATAAAATTACAAATTAATCCATT
1 TAAAAATGAAAAAAATA-TTTAATCTCTCTAAAAATAATAAAATTACAAATTAATCCATT
*
111732612 TAAAAATG-AAAAAA-A-TTAATCTCT-TAAAAATAATAAAATTATAAATTAAT
1 TAAAAATGAAAAAAATATTTAATCTCTCTAAAAATAATAAAATTACAAATTAAT
111732662 ATATAATAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 5
0.85 0.05 0.09
Matches are distributed among these distances:
55 24 0.51
56 8 0.17
58 1 0.02
59 6 0.13
60 8 0.17
ACGTcount: A:0.57, C:0.06, G:0.03, T:0.34
Consensus pattern (59 bp):
TAAAAATGAAAAAAATATTTAATCTCTCTAAAAATAATAAAATTACAAATTAATCCATT
Found at i:111739260 original size:25 final size:25
Alignment explanation
Indices: 111739213--111739260 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
111739203 TATATGTACA
*
111739213 AATATATATAAAAATATTTAAATGG
1 AATATATATAAAAATATTAAAATGG
*
111739238 AATAT-TATACAAAATGTTAAAAT
1 AATATATATA-AAAATATTAAAAT
111739261 AATGTGAAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.56, C:0.02, G:0.06, T:0.35
Consensus pattern (25 bp):
AATATATATAAAAATATTAAAATGG
Found at i:111740937 original size:39 final size:39
Alignment explanation
Indices: 111740823--111741045 Score: 304
Period size: 39 Copynumber: 5.6 Consensus size: 39
111740813 TTCGTGATCT
** * *
111740823 GAAGCCCGAAGTTTAGCTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
111740862 GAAGCCC-AGAGGCTAACTTAACTGAAGCACACAAGTGCTAAACG
1 GAAGCCCGA-AGG----C-TAACTGAAGCACACAAGTGCTAAACG
* *
111740906 GAAGCCCAAAGGCTAACTGAAGCACAAAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
* *
111740945 GAAGCCCGAAGGCTGACTGAAGCACAGAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
*
111740984 GAAGCCCGAAGGCTAACTCAAGCACACAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
111741023 GAAGCCCGAAGGCTAACTGAAGC
1 GAAGCCCGAAGGCTAACTGAAGC
111741046 TCATCAGAGC
Statistics
Matches: 165, Mismatches: 12, Indels: 14
0.86 0.06 0.07
Matches are distributed among these distances:
38 1 0.01
39 128 0.78
40 1 0.01
44 34 0.21
45 1 0.01
ACGTcount: A:0.38, C:0.24, G:0.26, T:0.12
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
Found at i:111744139 original size:23 final size:23
Alignment explanation
Indices: 111744113--111744157 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
111744103 TTTATTTCTC
111744113 TTTGATTTTATTA-TTTTATTATT
1 TTTGATTTTATTAGTTTT-TTATT
* *
111744136 TTTGGTTTTTTTAGTTTTTTAT
1 TTTGATTTTATTAGTTTTTTAT
111744158 AGACTCGGGC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.16, C:0.00, G:0.09, T:0.76
Consensus pattern (23 bp):
TTTGATTTTATTAGTTTTTTATT
Found at i:111744585 original size:68 final size:68
Alignment explanation
Indices: 111744476--111744614 Score: 269
Period size: 68 Copynumber: 2.0 Consensus size: 68
111744466 AGAATATAAT
*
111744476 AATGTCAACTTTGTTTATCTCTTTATTTATTTGTAATTCTGTTGGGTTTTTGAAGGAGTAAAGGA
1 AATGTCAACTTTGTTTATCTCTTTATTTATTTGTAATTCTGTTGGGTATTTGAAGGAGTAAAGGA
111744541 AGA
66 AGA
111744544 AATGTCAACTTTGTTTATCTCTTTATTTATTTGTAATTCTGTTGGGTATTTGAAGGAGTAAAGGA
1 AATGTCAACTTTGTTTATCTCTTTATTTATTTGTAATTCTGTTGGGTATTTGAAGGAGTAAAGGA
111744609 AGA
66 AGA
111744612 AAT
1 AAT
111744615 ACAGGACACA
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
68 70 1.00
ACGTcount: A:0.28, C:0.07, G:0.20, T:0.45
Consensus pattern (68 bp):
AATGTCAACTTTGTTTATCTCTTTATTTATTTGTAATTCTGTTGGGTATTTGAAGGAGTAAAGGA
AGA
Found at i:111749232 original size:3 final size:3
Alignment explanation
Indices: 111749156--111749223 Score: 93
Period size: 3 Copynumber: 22.7 Consensus size: 3
111749146 TTTGTTAACT
*
111749156 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TCA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
111749204 TCT- TTA CTA TTA TTA GTA TT
1 T-TA TTA TTA TTA TTA TTA TT
111749224 GGTATTATTG
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
2 1 0.02
3 56 0.98
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:111749437 original size:36 final size:36
Alignment explanation
Indices: 111749358--111749437 Score: 92
Period size: 36 Copynumber: 2.2 Consensus size: 36
111749348 AATTTGTTTA
* *
111749358 ATATATATACGTATACTCATATTTCTTTTTATATAT
1 ATATATATACATATACTCATATTTATTTTTATATAT
* *
111749394 ATCTATATACATATACAT-ATTTTTATTTTTATA-AGT
1 ATATATATACATATAC-TCATATTTATTTTTATATA-T
111749430 ATATATAT
1 ATATATAT
111749438 TTATATGTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
35 1 0.03
36 35 0.95
37 1 0.03
ACGTcount: A:0.36, C:0.09, G:0.03, T:0.53
Consensus pattern (36 bp):
ATATATATACATATACTCATATTTATTTTTATATAT
Found at i:111754262 original size:16 final size:17
Alignment explanation
Indices: 111754243--111754276 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
111754233 CAAAAGGCTT
*
111754243 AAGAATAAAAAA-CAAA
1 AAGAAGAAAAAATCAAA
111754259 AAGAAGAAAAAATCAAA
1 AAGAAGAAAAAATCAAA
111754276 A
1 A
111754277 TCAAGATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.79, C:0.06, G:0.09, T:0.06
Consensus pattern (17 bp):
AAGAAGAAAAAATCAAA
Found at i:111756547 original size:44 final size:44
Alignment explanation
Indices: 111756498--111756636 Score: 120
Period size: 44 Copynumber: 3.2 Consensus size: 44
111756488 AGTTACAGAT
* *
111756498 CTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAGACACAAAC
1 CTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAAC
* * * ** ** * * * * *
111756542 CTTGCC-TCTTTCGGTTGTGATAG-AGCTGGTTGAAGACAAAAGAT
1 CTTGCCTTCCTAC-ATTGACAGCGAAGCAGATCGAAGACACAA-AC
111756586 CTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAAC
1 CTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAAC
111756630 CTTGCCT
1 CTTGCCT
111756637 CTTTCGGTTG
Statistics
Matches: 66, Mismatches: 25, Indels: 8
0.67 0.25 0.08
Matches are distributed among these distances:
43 18 0.27
44 30 0.45
45 18 0.27
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (44 bp):
CTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAAC
Found at i:111756579 original size:43 final size:43
Alignment explanation
Indices: 111756530--111756667 Score: 134
Period size: 43 Copynumber: 3.2 Consensus size: 43
111756520 GAAGCAGATC
111756530 GAAGACACAAACCTTGCCTCTTTCGGTTGTGATAGAGCTGGTT
1 GAAGACACAAACCTTGCCTCTTTCGGTTGTGATAGAGCTGGTT
* * * * * ** ** * * *
111756573 GAAGACAAAAGATCTTGCCTTCCTAC-ATTGACAGCGAAGCAGATC
1 GAAGACACAA-ACCTTGCC-TCTTTCGGTTGTGATAG-AGCTGGTT
111756618 GAAGACACAAACCTTGCCTCTTTCGGTTGTGATAGAGCTGGTT
1 GAAGACACAAACCTTGCCTCTTTCGGTTGTGATAGAGCTGGTT
111756661 GAAGACA
1 GAAGACA
111756668 AAAGATCTTG
Statistics
Matches: 67, Mismatches: 24, Indels: 8
0.68 0.24 0.08
Matches are distributed among these distances:
43 25 0.37
44 24 0.36
45 18 0.27
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (43 bp):
GAAGACACAAACCTTGCCTCTTTCGGTTGTGATAGAGCTGGTT
Found at i:111756643 original size:88 final size:88
Alignment explanation
Indices: 111756494--111756790 Score: 413
Period size: 88 Copynumber: 3.4 Consensus size: 88
111756484 ATGAAGTTAC
*
111756494 AGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGTTG
1 AGATCTTGCCTTCCTACATTAACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGTTG
111756559 TGATAGAGCTGGTTGAAGACAAA
66 TGATAGAGCTGGTTGAAGACAAA
*
111756582 AGATCTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGTTG
1 AGATCTTGCCTTCCTACATTAACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGTTG
111756647 TGATAGAGCTGGTTGAAGACAAA
66 TGATAGAGCTGGTTGAAGACAAA
* * ** *
111756670 AGATCTTGCCTTCCTACATTAACAGCGAAGCAGATTGAA-A-ACAAAGCCTTGCGTCCATCGATT
1 AGATCTTGCCTTCCTACATTAACAGCGAAGCAGATCGAAGACACAAA-CCTTGCCTCTTTCGGTT
* * * * **
111756733 G-CAGTGGAGCTAGTTAAAGA-AGC
65 GTGA-TAGAGCTGGTTGAAGACAAA
* *
111756756 AGATCTTGCCTTCCTGCATTAACAGCAAAGCAGAT
1 AGATCTTGCCTTCCTACATTAACAGCGAAGCAGAT
111756791 AAAAAAAAAC
Statistics
Matches: 191, Mismatches: 16, Indels: 6
0.90 0.08 0.03
Matches are distributed among these distances:
86 40 0.21
87 28 0.15
88 123 0.64
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.25
Consensus pattern (88 bp):
AGATCTTGCCTTCCTACATTAACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGTTG
TGATAGAGCTGGTTGAAGACAAA
Found at i:111756678 original size:44 final size:44
Alignment explanation
Indices: 111756542--111756680 Score: 138
Period size: 44 Copynumber: 3.2 Consensus size: 44
111756532 AGACACAAAC
111756542 CTTGCCTCTTTCGGTTGTGATAGAGCTGGTTGAAGACAAAAGAT
1 CTTGCCTCTTTCGGTTGTGATAGAGCTGGTTGAAGACAAAAGAT
* * * ** ** * * * * *
111756586 CTTGCCTTCCTAC-ATTGACAGCGAAGCAGATCGAAGACACAA-AC
1 CTTGCC-TCTTTCGGTTGTGATAG-AGCTGGTTGAAGACAAAAGAT
111756630 CTTGCCTCTTTCGGTTGTGATAGAGCTGGTTGAAGACAAAAGAT
1 CTTGCCTCTTTCGGTTGTGATAGAGCTGGTTGAAGACAAAAGAT
111756674 CTTGCCT
1 CTTGCCT
111756681 TCCTACATTA
Statistics
Matches: 67, Mismatches: 24, Indels: 8
0.68 0.24 0.08
Matches are distributed among these distances:
43 18 0.27
44 31 0.46
45 18 0.27
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.28
Consensus pattern (44 bp):
CTTGCCTCTTTCGGTTGTGATAGAGCTGGTTGAAGACAAAAGAT
Found at i:111756834 original size:176 final size:176
Alignment explanation
Indices: 111756494--111756836 Score: 399
Period size: 176 Copynumber: 1.9 Consensus size: 176
111756484 ATGAAGTTAC
* ** *
111756494 AGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGTTG
1 AGATCTTGCCTTCCTACATTAACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCCATCGATTG
* * * * * ** * *
111756559 TGATAGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGAC
66 AGATAGAGCTAGTTAAAGACAAAAGATCTTGCCTTCCTACATTAACAGCAAAGCAGATAAAAAAA
** *
111756624 ACAAACCTTGCCTCTTTCGGTTGTGATAGAGCTGGTTGAAGACAAA
131 ACAAACCTTGCCTCCATCGGTTGTCATAGAGCTGGTTGAAGACAAA
* *
111756670 AGATCTTGCCTTCCTACATTAACAGCGAAGCAGATTGAA-A-ACAAAGCCTTGCGTCCATCGATT
1 AGATCTTGCCTTCCTACATTAACAGCGAAGCAGATCGAAGACACAAA-CCTTGCCTCCATCGATT
* ** *
111756733 GCAG-TGGAGCTAGTTAAAGA-AGCAGATCTTGCCTTCCTGCATTAACAGCAAAGCAGATAAAAA
65 G-AGATAGAGCTAGTTAAAGACAAAAGATCTTGCCTTCCTACATTAACAGCAAAGCAGAT-AAAA
*
111756796 AAAACAAAGCCTTGCCTCCATCGGTTG-CATTGGAGCTGGTT
128 AAAACAAA-CCTTGCCTCCATCGGTTGTCA-TAGAGCTGGTT
111756837 AAAGGTTACA
Statistics
Matches: 139, Mismatches: 23, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
174 38 0.27
175 37 0.27
176 64 0.46
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.24
Consensus pattern (176 bp):
AGATCTTGCCTTCCTACATTAACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCCATCGATTG
AGATAGAGCTAGTTAAAGACAAAAGATCTTGCCTTCCTACATTAACAGCAAAGCAGATAAAAAAA
ACAAACCTTGCCTCCATCGGTTGTCATAGAGCTGGTTGAAGACAAA
Found at i:111757072 original size:44 final size:44
Alignment explanation
Indices: 111757024--111757173 Score: 135
Period size: 44 Copynumber: 3.4 Consensus size: 44
111757014 CCAGAAATCC
*
111757024 TATCTCCCTGAAGTTACAGTGAAGCGGATTAAAATGAAGGATCT
1 TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATGAAGGATCT
* * * ** ** *
111757068 TATCTTCCTG-AGATTACAGCGGAGCAGA-TCGAA-GACACTATCC
1 TATCTCCCTGAAG-TTACAGTGGAGCGGATTAAAATGA-AGGATCT
* * *
111757111 TATCTCCCTGAAGTTACAGTGGAGTGGGTTAAAATAAAGGATCT
1 TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATGAAGGATCT
* *
111757155 TATCTCTCTGAGGTTACAG
1 TATCTCCCTGAAGTTACAG
111757174 CAGAGTAGGT
Statistics
Matches: 79, Mismatches: 22, Indels: 10
0.71 0.20 0.09
Matches are distributed among these distances:
42 2 0.03
43 29 0.37
44 47 0.59
45 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.28
Consensus pattern (44 bp):
TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATGAAGGATCT
Found at i:111758651 original size:3 final size:3
Alignment explanation
Indices: 111758581--111758642 Score: 81
Period size: 3 Copynumber: 20.7 Consensus size: 3
111758571 TTTGTTAACT
*
111758581 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TCA TCT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
* *
111758626 TTA CTA TTA TTA GTA TT
1 TTA TTA TTA TTA TTA TT
111758643 GGTATTATTG
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
2 1 0.02
3 50 0.98
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:111758856 original size:36 final size:36
Alignment explanation
Indices: 111758777--111758856 Score: 92
Period size: 36 Copynumber: 2.2 Consensus size: 36
111758767 AATTTGTTTA
* *
111758777 ATATATATACGTATACTCATATTTCTTTTTATATAT
1 ATATATATACATATACTCATATTTATTTTTATATAT
* *
111758813 ATCTATATACATATACAT-ATTTTTATTTTTATA-AGT
1 ATATATATACATATAC-TCATATTTATTTTTATATA-T
111758849 ATATATAT
1 ATATATAT
111758857 TTATATGTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
35 1 0.03
36 35 0.95
37 1 0.03
ACGTcount: A:0.36, C:0.09, G:0.03, T:0.53
Consensus pattern (36 bp):
ATATATATACATATACTCATATTTATTTTTATATAT
Found at i:111761947 original size:6 final size:6
Alignment explanation
Indices: 111761938--111761991 Score: 99
Period size: 6 Copynumber: 9.0 Consensus size: 6
111761928 TATTCACGAA
*
111761938 CCCAAA CCCAAT CCCAAT CCCAAT CCCAAT CCCAAT CCCAAT CCCAAT
1 CCCAAT CCCAAT CCCAAT CCCAAT CCCAAT CCCAAT CCCAAT CCCAAT
111761986 CCCAAT
1 CCCAAT
111761992 GCGATGCTTC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 47 1.00
ACGTcount: A:0.35, C:0.50, G:0.00, T:0.15
Consensus pattern (6 bp):
CCCAAT
Found at i:111765294 original size:3 final size:3
Alignment explanation
Indices: 111765286--111765353 Score: 136
Period size: 3 Copynumber: 22.7 Consensus size: 3
111765276 TAATAACAAC
111765286 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
111765334 GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GA
111765354 GGAGGAGGAG
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:111765358 original size:3 final size:3
Alignment explanation
Indices: 111765352--111765378 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
111765342 AGAAGAAGAA
111765352 GAG GAG GAG GAG GAG GAG GAG GAG GAG
1 GAG GAG GAG GAG GAG GAG GAG GAG GAG
111765379 AGACTGTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.67, T:0.00
Consensus pattern (3 bp):
GAG
Found at i:111765851 original size:18 final size:21
Alignment explanation
Indices: 111765828--111765873 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 21
111765818 CAGAGGAAAC
111765828 AAACAAGAT-GA-AA-AAGAA
1 AAACAAGATAGAGAATAAGAA
*
111765846 AAACAACATAGAGAATAAGAA
1 AAACAAGATAGAGAATAAGAA
111765867 AAA-AAGA
1 AAACAAGA
111765874 GCATATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 8 0.35
19 2 0.09
20 5 0.22
21 8 0.35
ACGTcount: A:0.72, C:0.07, G:0.15, T:0.07
Consensus pattern (21 bp):
AAACAAGATAGAGAATAAGAA
Found at i:111765865 original size:21 final size:22
Alignment explanation
Indices: 111765824--111765869 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
111765814 TAGACAGAGG
111765824 AAACAAACAAGATGAAAAAGAA
1 AAACAAACAAGATGAAAAAGAA
*
111765846 AAAC-AACATAGA-GAATAAGAA
1 AAACAAACA-AGATGAAAAAGAA
111765867 AAA
1 AAA
111765870 AAGAGCATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 15 0.68
22 7 0.32
ACGTcount: A:0.72, C:0.09, G:0.13, T:0.07
Consensus pattern (22 bp):
AAACAAACAAGATGAAAAAGAA
Found at i:111769315 original size:19 final size:19
Alignment explanation
Indices: 111769280--111769330 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
111769270 ATAATATAAA
111769280 CAAAATAATTT-TAAAAAATT
1 CAAAAT-ATTTAT-AAAAATT
111769300 CAAAATATTTATAAAAATT
1 CAAAATATTTATAAAAATT
111769319 CAAAA-ATTTATA
1 CAAAATATTTATA
111769331 TTTTTAAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
18 7 0.23
19 16 0.53
20 7 0.23
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (19 bp):
CAAAATATTTATAAAAATT
Found at i:111770522 original size:25 final size:27
Alignment explanation
Indices: 111770481--111770532 Score: 81
Period size: 25 Copynumber: 2.0 Consensus size: 27
111770471 TTTGTGTTGT
111770481 TTTTTTTTCTCTCTTCTTTCTCCCTTC
1 TTTTTTTTCTCTCTTCTTTCTCCCTTC
*
111770508 TTTTTTTT-TCT-TTCTTTCTCTCTTC
1 TTTTTTTTCTCTCTTCTTTCTCCCTTC
111770533 AAAATGATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 13 0.54
26 3 0.12
27 8 0.33
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (27 bp):
TTTTTTTTCTCTCTTCTTTCTCCCTTC
Found at i:111777512 original size:86 final size:89
Alignment explanation
Indices: 111777312--111777524 Score: 251
Period size: 86 Copynumber: 2.4 Consensus size: 89
111777302 CTGTTCATCA
* * * *
111777312 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGTCTTATGACGAGGTATTTACGAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCGTACGACGAGGTATTTACAAT
111777377 TTCCATTTTTCAATTTATGTTTTTC
66 TTCCATTTTTCAATTTATG-TTTTC
* *
111777402 -AAAAATCAATTCATATTGCGAGAGGTGAGTTGAGCCTC-GG-GGTACG-CTGAGGTATTGT-CA
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCGTACGAC-GAGGTATT-TACA
***
111777462 ATTTTTGTGTTTT-AATTTATG-TTTC
64 ATTTCCAT-TTTTCAATTTATGTTTTC
*
111777487 AAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
111777525 TAAGACACGT
Statistics
Matches: 108, Mismatches: 11, Indels: 12
0.82 0.08 0.09
Matches are distributed among these distances:
85 4 0.04
86 36 0.33
87 25 0.23
88 7 0.06
89 36 0.33
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.36
Consensus pattern (89 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCGTACGACGAGGTATTTACAAT
TTCCATTTTTCAATTTATGTTTTC
Found at i:111777539 original size:86 final size:87
Alignment explanation
Indices: 111777313--111777631 Score: 227
Period size: 86 Copynumber: 3.7 Consensus size: 87
111777303 TGTTCATCAA
* * * * * *
111777313 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGTCTTATGAC-GAGGTATT-TACGA
1 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAAGAC--ACG-CTGAGGTATTGT-CAA
***
111777376 TTTCCAT-TTTTCAATTTATGTTTTTC
62 TTTTTGTGTTTTCAATTTATG-TTTTC
* * ** **
111777402 AAAAATCAATTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGTACGCTGAGGTATTGTCAATTTT
1 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTGTCAATTTT
111777467 TGTGTTTT-AATTTATG-TTTC
66 TGTGTTTTCAATTTATGTTTTC
* * * *
111777487 AAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTTAAGACACGTTGAGGTATTTTTAATTT
1 -AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTGTCAATTT
* * **
111777552 CTGT-CTTTCAA---A-----AA
65 TTGTGTTTTCAATTTATGTTTTC
* *
111777566 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGTAATT-TCAAT
1 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAAG--ACACGCTGAGGT-ATTGTCAAT
111777630 TT
63 TT
111777632 ATGTTTGTCA
Statistics
Matches: 193, Mismatches: 29, Indels: 25
0.78 0.12 0.10
Matches are distributed among these distances:
78 38 0.20
80 17 0.09
81 3 0.02
83 1 0.01
85 7 0.04
86 60 0.31
87 24 0.12
88 5 0.03
89 38 0.20
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.35
Consensus pattern (87 bp):
AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTGTCAATTTT
TGTGTTTTCAATTTATGTTTTC
Found at i:111777796 original size:58 final size:59
Alignment explanation
Indices: 111777721--111777837 Score: 191
Period size: 58 Copynumber: 2.0 Consensus size: 59
111777711 CAAAAATCAA
* *
111777721 CTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGAGGT-ATTTTCAATTTCTG
1 CTCACATTGCGAGAGGTGAGTTAAGCCTCAAGACACGCTGAGGTAATTTTCAATTTCTG
* *
111777779 CTCACATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTTCAATTTCTG
1 CTCACATTGCGAGAGGTGAGTTAAGCCTCAAGACACGCTGAGGTAATTTTCAATTTCTG
111777838 TTGTTAAAAA
Statistics
Matches: 54, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
58 40 0.74
59 14 0.26
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.31
Consensus pattern (59 bp):
CTCACATTGCGAGAGGTGAGTTAAGCCTCAAGACACGCTGAGGTAATTTTCAATTTCTG
Found at i:111777955 original size:72 final size:72
Alignment explanation
Indices: 111777779--111778474 Score: 935
Period size: 72 Copynumber: 9.4 Consensus size: 72
111777769 TCAATTTCTG
*
111777779 CTCACATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTTCAATTTCTGTTGTTA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAA-TTTCAATTTCTGTT-TT-
*
111777844 AAAAAAATCAA
63 -CAAAAATCAA
** *
111777855 CTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTCCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTTTCAA
*
111777920 AATTCAA
66 AAATCAA
** * * * *
111777927 CTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTTTGTTTTTCA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG-TTTTC-
111777992 AAAAAAAAATCAA
64 ----AAAAATCAA
* *
111778005 CTCATATTGCAAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTTTCAA
111778070 AAATCAA
66 AAATCAA
*
111778077 CTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTTTCAA
*
111778142 AATTCAA
66 AAATCAA
* * *
111778149 CTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAAGTAATTTTAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTTTCAA
111778214 AAATCAA
66 AAATCAA
*
111778221 CTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTTTCAA
*
111778286 AATTCAA
66 AAATCAA
* ** * *
111778293 CTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTTTC--
111778358 AAAAATCAA
64 AAAAATCAA
* ** * *
111778367 CTTATATTGCGAGAAATGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTTTCAATTTCTGTCTT
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTAATTTCAATTTCTGT-TT
111778431 TCAAAAAAATCAA
62 TC--AAAAATCAA
*
111778444 CTCATATTGCGAGAGGTGAGTTGAGCTTCAG
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAG
111778475 ATCACACACT
Statistics
Matches: 566, Mismatches: 41, Indels: 24
0.90 0.06 0.04
Matches are distributed among these distances:
72 335 0.59
73 6 0.01
74 39 0.07
75 13 0.02
76 69 0.12
77 45 0.08
78 59 0.10
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (72 bp):
CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTTTCAA
AAATCAA
Found at i:111783895 original size:15 final size:14
Alignment explanation
Indices: 111783875--111783908 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
111783865 ATATATGCCT
*
111783875 ATATATATATTAAAG
1 ATATATATA-TAAAC
111783890 ATATATATATAAAC
1 ATATATATATAAAC
111783904 ATATA
1 ATATA
111783909 CTAATATCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (14 bp):
ATATATATATAAAC
Found at i:111784970 original size:14 final size:14
Alignment explanation
Indices: 111784951--111784990 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
111784941 AAGGTAAAAA
*
111784951 TCTTATTTTTTTAT
1 TCTTATTTATTTAT
111784965 TCTTATTTATTTA-
1 TCTTATTTATTTAT
111784978 T-TTATTTATTTAT
1 TCTTATTTATTTAT
111784991 ATATATATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
12 11 0.46
13 1 0.04
14 12 0.50
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.75
Consensus pattern (14 bp):
TCTTATTTATTTAT
Found at i:111784976 original size:4 final size:4
Alignment explanation
Indices: 111784953--111785001 Score: 53
Period size: 4 Copynumber: 11.8 Consensus size: 4
111784943 GGTAAAAATC
* * *
111784953 TTAT TTTT TTATT CTTAT TTAT TTAT TTAT TTAT TTAT ATAT ATAT TTA
1 TTAT TTAT TTA-T -TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTA
111785002 AATTTGTATA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
4 34 0.87
5 2 0.05
6 3 0.08
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (4 bp):
TTAT
Found at i:111813554 original size:46 final size:46
Alignment explanation
Indices: 111813487--111813795 Score: 154
Period size: 44 Copynumber: 6.7 Consensus size: 46
111813477 ATTATACAGG
* *
111813487 TCTTATCTCCCTGAGATTACAGTGGAGTAGACCGAAGAATTTCAGA
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGACCGAAGAATTTCAGA
** * *
111813533 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCA---GAGA
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGACCGAAG-AATTTCAGA
* * * * ** * *
111813577 TCTTATCTCTCTGAGATTACAGCGGAGTAGATTGAAG-CTAGT-A-A
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGACCGAAGAAT-TTCAGA
* * * * ** **
111813621 TCCTATCTCTCTGAAGTTACAGTGGAGCGGA-TTAA-AA-TAAAGGA
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGACCGAAGAATTTCA-GA
* * * * *
111813665 TCTTATCTCTCTGAAGTTACAGTAGAGTAGATCAC-ATCAG-ATTGAAGCCAGAGA
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGA-C-CGA--AGAATT----TC--AGA
* * *
111813719 TCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAAAATTTCAGA
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGACCGAAGAATTTCAGA
111813765 TCTTATCTCCCTGAGGTTACAGTGGAGCAGA
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGA
111813796 TTGAAGCCAG
Statistics
Matches: 201, Mismatches: 38, Indels: 48
0.70 0.13 0.17
Matches are distributed among these distances:
42 1 0.00
43 3 0.01
44 90 0.45
45 1 0.00
46 66 0.33
47 1 0.00
48 3 0.01
49 1 0.00
51 1 0.00
52 4 0.02
53 2 0.01
54 27 0.13
55 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (46 bp):
TCTTATCTCCCTGAGGTTACAGTGGAGCAGACCGAAGAATTTCAGA
Found at i:111813597 original size:44 final size:43
Alignment explanation
Indices: 111813530--111813928 Score: 257
Period size: 44 Copynumber: 8.8 Consensus size: 43
111813520 GAAGAATTTC
* * *
111813530 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG
1 AGATCTTATCTCTCTGA-ATTACAGTGGAGCAGATTGAAGCTAG
* *
111813574 AGATCTTATCTCTCTGAGATTACAGCGGAGTAGATTGAAGCTAG
1 AGATCTTATCTCTCTGA-ATTACAGTGGAGCAGATTGAAGCTAG
* * ** *
111813618 TA-ATCCTATCTCTCTGAAGTTACAGTGGAGCGGATT-AAAATAA
1 -AGATCTTATCTCTCTGAA-TTACAGTGGAGCAGATTGAAGCTAG
*
111813661 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAGATTGAAGCCAG
1 A-GATCTTATCTCTCTGAA-TTACAGT-G-G-AG-------CAGATTGAAGCTAG
* * ** ** **
111813716 AGATCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAAAATTTC
1 AGATCTTATCTCTCTGA-ATTACAGTGGAGCAGATTG--AAGCTAG
* * *
111813762 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG
1 AGATCTTATCTCTCTGA-ATTACAGTGGAGCAGATTGAAGCTAG
* * *
111813806 AGATCTTATCTCTCTAAAATTACAGCGGAGTAGATTGAAGCTAG
1 AGATCTTATCTCTCT-GAATTACAGTGGAGCAGATTGAAGCTAG
* * ** *
111813850 TA-ATCCTATCTCTCTGAAGTTACAGTGGAGCGGATT-AAAATAA
1 -AGATCTTATCTCTCTGAA-TTACAGTGGAGCAGATTGAAGCTAG
* *
111813893 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGAT
1 A-GATCTTATCTCTCTGAA-TTACAGTGGAGCAGAT
111813929 CACATCAGAT
Statistics
Matches: 278, Mismatches: 54, Indels: 46
0.74 0.14 0.12
Matches are distributed among these distances:
42 2 0.01
43 11 0.04
44 188 0.68
45 4 0.01
46 36 0.13
47 2 0.01
51 1 0.00
52 1 0.00
53 1 0.00
54 27 0.10
55 5 0.02
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (43 bp):
AGATCTTATCTCTCTGAATTACAGTGGAGCAGATTGAAGCTAG
Found at i:111813672 original size:88 final size:90
Alignment explanation
Indices: 111813487--111813697 Score: 225
Period size: 88 Copynumber: 2.4 Consensus size: 90
111813477 ATTATACAGG
* * * * *
111813487 TCTTATCTCCCTGAGATTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTA
1 TCTTATCTCTCTGAGATTACAGTGGAGTAGATCGAAGAATGTCAGATCCTATCTCCCTGAAGTTA
* **
111813552 CAGTGGAGCAGATTGAAGCCAGAGA
66 CAGTGGAGCAGATTAAAGAAAGAGA
* * * *
111813577 TCTTATCTCTCTGAGATTACAGCGGAGTAGATTGAAG-CTAGT-A-ATCCTATCTCTCTGAAGTT
1 TCTTATCTCTCTGAGATTACAGTGGAGTAGATCGAAGAAT-GTCAGATCCTATCTCCCTGAAGTT
* *
111813639 ACAGTGGAGCGGATTAAAATAAAG-GA
65 ACAGTGGAGCAGATT-AAAGAAAGAGA
*
111813665 TCTTATCTCTCTGA-AGTTACAGTAGAGTAGATC
1 TCTTATCTCTCTGAGA-TTACAGTGGAGTAGATC
111813698 ACATCAGATT
Statistics
Matches: 101, Mismatches: 17, Indels: 8
0.80 0.13 0.06
Matches are distributed among these distances:
87 1 0.01
88 60 0.59
89 6 0.06
90 34 0.34
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (90 bp):
TCTTATCTCTCTGAGATTACAGTGGAGTAGATCGAAGAATGTCAGATCCTATCTCCCTGAAGTTA
CAGTGGAGCAGATTAAAGAAAGAGA
Found at i:111813837 original size:144 final size:142
Alignment explanation
Indices: 111813560--111813840 Score: 323
Period size: 144 Copynumber: 2.0 Consensus size: 142
111813550 TACAGTGGAG
* ** ** **
111813560 CAGATTGAAGCCAGAGATCTTATCTCTCTGAGATTACAGCGGAGTAGATTGAAGCTAGTAATCCT
1 CAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCGGAACAGACCGAAAATAGTAATCCT
* * * * * *
111813625 ATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
66 ATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACAAAGGATCTTATCTCTCTAAAATTACAGCAG
111813690 AGTAGATCACAT
131 AGTAGATCACAT
* *
111813702 CAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAAA-ATTTCAGAT
1 CAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCGGAACAGACCGAAAATA-GT-A-AT
* * * * *
111813766 CTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGC-CAGAGATCTTATCTCTCTAAAATTACA
63 CCTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACAAAG-GATCTTATCTCTCTAAAATTACA
*
111813830 GCGGAGTAGAT
127 GCAGAGTAGAT
111813841 TGAAGCTAGT
Statistics
Matches: 114, Mismatches: 21, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
141 1 0.01
142 48 0.42
143 3 0.03
144 62 0.54
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (142 bp):
CAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCGGAACAGACCGAAAATAGTAATCCT
ATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACAAAGGATCTTATCTCTCTAAAATTACAGCAG
AGTAGATCACAT
Found at i:111813893 original size:232 final size:232
Alignment explanation
Indices: 111813487--111813988 Score: 925
Period size: 232 Copynumber: 2.2 Consensus size: 232
111813477 ATTATACAGG
** *
111813487 TCTTATCTCCCTGAGATTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAAAATTTCAGATCTTATCTCCCTGAGGTTA
* *
111813552 CAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCTCTGAGATTACAGCGGAGTAGATTGAAGCTA
66 CAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCTCTAAAATTACAGCGGAGTAGATTGAAGCTA
111813617 GTAATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGT
131 GTAATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGT
111813682 TACAGTAGAGTAGATCACATCAGATTGAAGCCAGAGA
196 TACAGTAGAGTAGATCACATCAGATTGAAGCCAGAGA
111813719 TCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAAAATTTCAGATCTTATCTCCCTGAGGTTA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAAAATTTCAGATCTTATCTCCCTGAGGTTA
111813784 CAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCTCTAAAATTACAGCGGAGTAGATTGAAGCTA
66 CAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCTCTAAAATTACAGCGGAGTAGATTGAAGCTA
111813849 GTAATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGT
131 GTAATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGT
111813914 TACAGTAGAGTAGATCACATCAGATTGAAGCCAGAGA
196 TACAGTAGAGTAGATCACATCAGATTGAAGCCAGAGA
* *
111813951 TCTTATCTCCCTGATG-TTGCAGTGGAACAGACTGAAAA
1 TCTTATCTCCCTGA-GATTACAGTGGAACAGACCGAAAA
111813989 CATAAATTTT
Statistics
Matches: 262, Mismatches: 7, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
232 261 1.00
233 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.28
Consensus pattern (232 bp):
TCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAAAATTTCAGATCTTATCTCCCTGAGGTTA
CAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCTCTAAAATTACAGCGGAGTAGATTGAAGCTA
GTAATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGT
TACAGTAGAGTAGATCACATCAGATTGAAGCCAGAGA
Found at i:111815660 original size:3 final size:3
Alignment explanation
Indices: 111815652--111815677 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
111815642 GATTTAGTCC
111815652 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
111815678 CCTATTTGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:111822813 original size:24 final size:24
Alignment explanation
Indices: 111822786--111822837 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
111822776 TTAGTAAGTC
*
111822786 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
111822810 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
111822834 AAAT
1 AAAT
111822838 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:111824784 original size:24 final size:24
Alignment explanation
Indices: 111824757--111824808 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
111824747 TTAGTAAGTC
*
111824757 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
111824781 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
111824805 AAAT
1 AAAT
111824809 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:111830398 original size:21 final size:21
Alignment explanation
Indices: 111830372--111830412 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
111830362 AGACGAGCAA
* *
111830372 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
111830393 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
111830413 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:111840858 original size:30 final size:31
Alignment explanation
Indices: 111840792--111840856 Score: 130
Period size: 31 Copynumber: 2.1 Consensus size: 31
111840782 TTCACTACTC
111840792 AAAATTTATTAAAAGCAATGTGGGACACAAA
1 AAAATTTATTAAAAGCAATGTGGGACACAAA
111840823 AAAATTTATTAAAAGCAATGTGGGACACAAA
1 AAAATTTATTAAAAGCAATGTGGGACACAAA
111840854 AAA
1 AAA
111840857 TTAAGGGGCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.54, C:0.09, G:0.15, T:0.22
Consensus pattern (31 bp):
AAAATTTATTAAAAGCAATGTGGGACACAAA
Found at i:111844451 original size:46 final size:44
Alignment explanation
Indices: 111844347--111844454 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
111844337 TGTCTTTGAC
** * * *
111844347 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
111844391 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
111844437 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
111844455 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:111847135 original size:12 final size:12
Alignment explanation
Indices: 111847118--111847152 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
111847108 TGAGGGTAGG
111847118 ATCTGAATATGC
1 ATCTGAATATGC
*
111847130 ATCTGAATATGT
1 ATCTGAATATGC
*
111847142 ATCTGATTATG
1 ATCTGAATATG
111847153 AAAATACATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.31, C:0.11, G:0.17, T:0.40
Consensus pattern (12 bp):
ATCTGAATATGC
Found at i:111852291 original size:22 final size:22
Alignment explanation
Indices: 111852258--111852326 Score: 63
Period size: 22 Copynumber: 3.1 Consensus size: 22
111852248 TACATAATAT
111852258 ATAAA-AAAATTAAAATTAAAA
1 ATAAATAAAATTAAAATTAAAA
* *
111852279 ATAATTAAAATTATGAA-T-AAA
1 ATAAATAAAATTA-AAATTAAAA
*
111852300 ATAAAATAAAATTTAAATTAATAA
1 AT-AAATAAAATTAAAATTAA-AA
111852324 ATA
1 ATA
111852327 CCTCAAATTA
Statistics
Matches: 37, Mismatches: 5, Indels: 10
0.71 0.10 0.19
Matches are distributed among these distances:
21 11 0.30
22 18 0.49
23 4 0.11
24 4 0.11
ACGTcount: A:0.68, C:0.00, G:0.01, T:0.30
Consensus pattern (22 bp):
ATAAATAAAATTAAAATTAAAA
Found at i:111852298 original size:16 final size:16
Alignment explanation
Indices: 111852259--111852291 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
111852249 ACATAATATA
111852259 TAAAAA-AATTAAAAT
1 TAAAAATAATTAAAAT
111852274 TAAAAATAATTAAAAT
1 TAAAAATAATTAAAAT
111852290 TA
1 TA
111852292 TGAATAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
TAAAAATAATTAAAAT
Found at i:111865731 original size:23 final size:24
Alignment explanation
Indices: 111865696--111865744 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
111865686 CAATATTCGG
111865696 TTTGATATATGAGATTTTT-TCAA
1 TTTGATATATGAGATTTTTCTCAA
*
111865719 TTTGATACT-TGAGTTTTTTCTCAA
1 TTTGATA-TATGAGATTTTTCTCAA
111865743 TT
1 TT
111865745 AAGTGCCTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 16 0.70
24 7 0.30
ACGTcount: A:0.24, C:0.08, G:0.12, T:0.55
Consensus pattern (24 bp):
TTTGATATATGAGATTTTTCTCAA
Found at i:111867260 original size:19 final size:22
Alignment explanation
Indices: 111867221--111867260 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 22
111867211 AGAAACCCAA
111867221 CCATATCCAACCGTATACACCC
1 CCATATCCAACCGTATACACCC
111867243 CCATA-CCAACC-T-TACACC
1 CCATATCCAACCGTATACACC
111867261 GTGTGGGGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 1 0.06
21 6 0.33
22 5 0.28
ACGTcount: A:0.33, C:0.47, G:0.03, T:0.17
Consensus pattern (22 bp):
CCATATCCAACCGTATACACCC
Found at i:111867359 original size:27 final size:26
Alignment explanation
Indices: 111867322--111867487 Score: 215
Period size: 27 Copynumber: 6.2 Consensus size: 26
111867312 AGCATGGCTG
** *
111867322 CCAGAACAGATAATGTGATAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
111867348 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
111867376 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
111867403 CCAGATCAGATAATCGTGGCATAGCCA
1 CCAGAACAGATAAT-GTGGCAGAGCCA
111867430 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
111867457 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
111867484 CCAG
1 CCAG
111867488 GACGCTTCCT
Statistics
Matches: 125, Mismatches: 9, Indels: 11
0.86 0.06 0.08
Matches are distributed among these distances:
26 8 0.06
27 99 0.79
28 18 0.14
ACGTcount: A:0.36, C:0.23, G:0.24, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:111867381 original size:54 final size:54
Alignment explanation
Indices: 111867322--111867487 Score: 271
Period size: 54 Copynumber: 3.1 Consensus size: 54
111867312 AGCATGGCTG
** * *
111867322 CCAGAACAGATA-ATGTGATAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGAT-CAGATAATCGTGGCATAGCCA
111867376 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCATAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCATAGCCA
*
111867430 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCATAGCCA
111867484 CCAG
1 CCAG
111867488 GACGCTTCCT
Statistics
Matches: 106, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
54 89 0.84
55 17 0.16
ACGTcount: A:0.36, C:0.23, G:0.24, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCATAGCCA
Found at i:111869142 original size:26 final size:26
Alignment explanation
Indices: 111869106--111869215 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
111869096 CATGAAATTC
111869106 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
111869132 TTATCATGAAACATTTACTTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
111869158 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
111869184 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
111869210 TTATCA
1 TTATCA
111869216 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:111869828 original size:37 final size:37
Alignment explanation
Indices: 111869769--111869868 Score: 112
Period size: 37 Copynumber: 2.6 Consensus size: 37
111869759 GACAGGTTGC
* *
111869769 TTCTTATTTTTTTTTACTTTTTTTTAACTTTTGT-CTTT
1 TTCTTATTTTTTTTT-C-TTTTTTTAACTTTTATATTTT
*
111869807 TTCTTTATTTTTTTTTCTTTTTTTAAGTTTTATATTTT
1 TTC-TTATTTTTTTTTCTTTTTTTAACTTTTATATTTT
* * *
111869845 TTCTTATTTTATTTTGTTTATTTA
1 TTCTTATTTTTTTTTCTTTTTTTA
111869869 TTTTTTGTTA
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
37 32 0.59
38 10 0.19
39 12 0.22
ACGTcount: A:0.13, C:0.07, G:0.03, T:0.77
Consensus pattern (37 bp):
TTCTTATTTTTTTTTCTTTTTTTAACTTTTATATTTT
Found at i:111869879 original size:14 final size:14
Alignment explanation
Indices: 111869839--111869886 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
111869829 TTAAGTTTTA
*
111869839 TATTTTTTCTTATT
1 TATTTTTTGTTATT
*
111869853 T-TATTTTGTTTATT
1 TATTTTTTG-TTATT
111869867 TATTTTTTGTTATT
1 TATTTTTTGTTATT
*
111869881 AATTTT
1 TATTTT
111869887 AAAAAATTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
13 5 0.18
14 17 0.61
15 6 0.21
ACGTcount: A:0.17, C:0.02, G:0.04, T:0.77
Consensus pattern (14 bp):
TATTTTTTGTTATT
Found at i:111869945 original size:21 final size:21
Alignment explanation
Indices: 111869889--111869956 Score: 75
Period size: 23 Copynumber: 3.2 Consensus size: 21
111869879 TTAATTTTAA
* * *
111869889 AAAATTTGAAATGTATATTTG
1 AAAATTTTAAATATATATTTT
111869910 AAATATTTTATAATATATATTTT
1 AAA-ATTTTA-AATATATATTTT
*
111869933 AAAATTTTAAATA-CTATTTT
1 AAAATTTTAAATATATATTTT
111869953 AAAA
1 AAAA
111869957 ATATTTTTAA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
20 10 0.24
21 7 0.17
22 11 0.27
23 13 0.32
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.47
Consensus pattern (21 bp):
AAAATTTTAAATATATATTTT
Found at i:111869957 original size:21 final size:20
Alignment explanation
Indices: 111869882--111869958 Score: 64
Period size: 22 Copynumber: 3.5 Consensus size: 20
111869872 TTTGTTATTA
*
111869882 ATTTTAAAAAATTTGAAATGTAT
1 ATTTT-AAAAATTTTAAA--TAT
* *
111869905 ATTTGAAATATTTTATAATAT
1 ATTTTAAAAATTTTA-AATAT
*
111869926 ATATTTTAAAATTTTAAATACT
1 AT-TTTAAAAATTTTAAATA-T
111869948 ATTTTAAAAAT
1 ATTTTAAAAAT
111869959 ATTTTTAATT
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
21 17 0.39
22 21 0.48
23 6 0.14
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.48
Consensus pattern (20 bp):
ATTTTAAAAATTTTAAATAT
Found at i:111869966 original size:24 final size:22
Alignment explanation
Indices: 111869902--111869967 Score: 66
Period size: 23 Copynumber: 3.0 Consensus size: 22
111869892 ATTTGAAATG
*
111869902 TATATTTGAAATATTTTATAATA
1 TATATTTTAAATATTTT-TAATA
111869925 TATATTTTAAA-A-TTTTAA-A
1 TATATTTTAAATATTTTTAATA
111869944 TACTATTTTAAAAATATTTTTAAT
1 TA-TATTTT--AAATATTTTTAAT
111869968 TTTAAATATA
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
19 3 0.08
20 9 0.25
21 3 0.08
22 4 0.11
23 11 0.31
24 6 0.17
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (22 bp):
TATATTTTAAATATTTTTAATA
Found at i:111869971 original size:18 final size:18
Alignment explanation
Indices: 111869948--111869984 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
111869938 TTTAAATACT
*
111869948 ATTTTAAAAATATTTTTA
1 ATTTTAAAAATATATTTA
*
111869966 ATTTTAAATATATATTTA
1 ATTTTAAAAATATATTTA
111869984 A
1 A
111869985 AATTATTCCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
ATTTTAAAAATATATTTA
Found at i:111869988 original size:20 final size:20
Alignment explanation
Indices: 111869889--111869956 Score: 66
Period size: 22 Copynumber: 3.2 Consensus size: 20
111869879 TTAATTTTAA
* *
111869889 AAAATTTGAAATGTATATTT
1 AAAATTTTAAATATATATTT
111869909 GAAATATTTTATAATATATATTTT
1 -AAA-ATTTTA-AATATATA-TTT
111869933 AAAATTTTAAATACTAT-TTT
1 AAAATTTTAAATA-TATATTT
111869953 AAAA
1 AAAA
111869957 ATATTTTTAA
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
20 7 0.17
21 7 0.17
22 14 0.34
23 10 0.24
24 3 0.07
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.47
Consensus pattern (20 bp):
AAAATTTTAAATATATATTT
Found at i:111870183 original size:14 final size:14
Alignment explanation
Indices: 111870166--111870192 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
111870156 TACATAGAAT
111870166 TTTTTAAATTATTA
1 TTTTTAAATTATTA
111870180 TTTTTAAATTATT
1 TTTTTAAATTATT
111870193 TTTAAAGATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TTTTTAAATTATTA
Found at i:111870192 original size:11 final size:11
Alignment explanation
Indices: 111870176--111870229 Score: 51
Period size: 11 Copynumber: 5.1 Consensus size: 11
111870166 TTTTTAAATT
111870176 ATTATTTTTAA
1 ATTATTTTTAA
111870187 ATTATTTTTAA
1 ATTATTTTTAA
* *
111870198 A-GATATTT-A
1 ATTATTTTTAA
*
111870207 ACTATTTTTAA
1 ATTATTTTTAA
111870218 ATT-TTTATTAA
1 ATTATTT-TTAA
111870229 A
1 A
111870230 AATTTTATTT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
9 2 0.06
10 13 0.37
11 20 0.57
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (11 bp):
ATTATTTTTAA
Found at i:111870216 original size:10 final size:10
Alignment explanation
Indices: 111870178--111870235 Score: 53
Period size: 10 Copynumber: 5.6 Consensus size: 10
111870168 TTTAAATTAT
111870178 TATTTTTAAA
1 TATTTTTAAA
111870188 TTATTTTTAAA
1 -TATTTTTAAA
* * *
111870199 GATATTTAAC
1 TATTTTTAAA
111870209 TATTTTTAAA
1 TATTTTTAAA
*
111870219 TTTTTATTAAA
1 TATTT-TTAAA
*
111870230 AATTTT
1 TATTTT
111870236 ATTTAAACAT
Statistics
Matches: 37, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
10 19 0.51
11 18 0.49
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (10 bp):
TATTTTTAAA
Found at i:111870241 original size:34 final size:32
Alignment explanation
Indices: 111870178--111870236 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 32
111870168 TTTAAATTAT
*
111870178 TATTTTTAAATTATTT-TTAAAGATATTT-AAC
1 TATTTTTAAATT-TTTATTAAAAATATTTAAAC
111870209 TATTTTTAAATTTTTATTAAAAAT-TTTA
1 TATTTTTAAATTTTTATTAAAAATATTTA
111870237 TTTAAACATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 6 0.24
31 19 0.76
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.58
Consensus pattern (32 bp):
TATTTTTAAATTTTTATTAAAAATATTTAAAC
Found at i:111870366 original size:21 final size:23
Alignment explanation
Indices: 111870334--111870383 Score: 77
Period size: 22 Copynumber: 2.3 Consensus size: 23
111870324 TCATATTATT
*
111870334 AAAAATATATATTT-AATTTTAA
1 AAAAATATATATTTAAAATTTAA
111870356 AAAAATA-ATATTTAAAATTTAA
1 AAAAATATATATTTAAAATTTAA
111870378 AAAAAT
1 AAAAAT
111870384 TAATTAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 6 0.23
22 20 0.77
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (23 bp):
AAAAATATATATTTAAAATTTAA
Found at i:111870366 original size:23 final size:21
Alignment explanation
Indices: 111870332--111870392 Score: 72
Period size: 20 Copynumber: 3.0 Consensus size: 21
111870322 TTTCATATTA
* *
111870332 TTAAAAATATATATTT-AATT
1 TTAAAAAAATATATTTAAAAT
111870352 TTAAAAAAATAATATTTAAAAT
1 TTAAAAAAAT-ATATTTAAAAT
*
111870374 TTAAAAAAAT-TAATTAAAA
1 TTAAAAAAATATATTTAAAA
111870393 AATATATATT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 17 0.47
21 6 0.17
22 13 0.36
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (21 bp):
TTAAAAAAATATATTTAAAAT
Found at i:111870391 original size:35 final size:34
Alignment explanation
Indices: 111870355--111870450 Score: 126
Period size: 34 Copynumber: 2.9 Consensus size: 34
111870345 TTTAATTTTA
111870355 AAAAAATAATATTTAAAATTTAAAAAAATTAATT
1 AAAAAATAATATTTAAAATTTAAAAAAATTAATT
*
111870389 AAAAAATATATATTTAAAATTT-AGAAAATTAATT
1 AAAAAATA-ATATTTAAAATTTAAAAAAATTAATT
* *
111870423 --TAAATAATATTTAAATTTTTAAAAAAAT
1 AAAAAATAATATTTAAA-ATTTAAAAAAAT
111870451 ATATATTATA
Statistics
Matches: 55, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
31 9 0.16
32 8 0.15
33 6 0.11
34 19 0.35
35 13 0.24
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (34 bp):
AAAAAATAATATTTAAAATTTAAAAAAATTAATT
Found at i:111870393 original size:21 final size:22
Alignment explanation
Indices: 111870334--111870393 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
111870324 TCATATTATT
* *
111870334 AAAAATATATATT-TAATTTTAA
1 AAAAATA-ATATTAAAAATTTAA
*
111870356 AAAAATAATATTTAAAATTTAA
1 AAAAATAATATTAAAAATTTAA
*
111870378 AAAAATTA-ATTAAAAA
1 AAAAATAATATTAAAAA
111870394 ATATATATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
21 12 0.36
22 21 0.64
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (22 bp):
AAAAATAATATTAAAAATTTAA
Found at i:111870513 original size:14 final size:13
Alignment explanation
Indices: 111870491--111870613 Score: 73
Period size: 13 Copynumber: 9.6 Consensus size: 13
111870481 TTAAATTTTT
111870491 TAAAAAAATAATAA
1 TAAAAAAATAA-AA
*
111870505 TAAACAAATAAAA
1 TAAAAAAATAAAA
111870518 T----AAATAAAA
1 TAAAAAAATAAAA
* *
111870527 TAAGAAAATAAGA
1 TAAAAAAATAAAA
*
111870540 -AAAAATATAAAA
1 TAAAAAAATAAAA
*
111870552 CTTAAAAAAATTAAA
1 --TAAAAAAATAAAA
*
111870567 GAAAAATAA-AAAA
1 TAAAAA-AATAAAA
111870580 GTAAAAAAAGTAAAA
1 -TAAAAAAA-TAAAA
*
111870595 -AAAAAAA-AAAT
1 TAAAAAAATAAAA
111870606 TAAAAAAA
1 TAAAAAAA
111870614 ATCAGAAGCA
Statistics
Matches: 86, Mismatches: 11, Indels: 26
0.70 0.09 0.21
Matches are distributed among these distances:
9 9 0.10
11 3 0.03
12 16 0.19
13 27 0.31
14 17 0.20
15 14 0.16
ACGTcount: A:0.78, C:0.02, G:0.04, T:0.16
Consensus pattern (13 bp):
TAAAAAAATAAAA
Found at i:111870524 original size:9 final size:8
Alignment explanation
Indices: 111870491--111870613 Score: 86
Period size: 9 Copynumber: 14.0 Consensus size: 8
111870481 TTAAATTTTT
111870491 TAAAAAAA
1 TAAAAAAA
111870499 TAATAATAAA
1 TAA-AA-AAA
*
111870509 CAAATAAAA
1 TAAA-AAAA
111870518 TAAATAAAA
1 TAAA-AAAA
*
111870527 TAAGAAAA
1 TAAAAAAA
111870535 TAAGAAAAAA
1 T-A-AAAAAA
**
111870545 TATAAAACT
1 TA-AAAAAA
111870554 TAAAAAAA
1 TAAAAAAA
111870562 TTAAAGAAAAA
1 -T-AA-AAAAA
*
111870573 TAAAAAAG
1 TAAAAAAA
111870581 TAAAAAAA
1 TAAAAAAA
111870589 GTAAAAAAA
1 -TAAAAAAA
111870598 -AAAAAAA
1 TAAAAAAA
111870605 TTAAAAAAA
1 -TAAAAAAA
111870614 ATCAGAAGCA
Statistics
Matches: 93, Mismatches: 11, Indels: 21
0.74 0.09 0.17
Matches are distributed among these distances:
7 7 0.08
8 23 0.25
9 43 0.46
10 15 0.16
11 5 0.05
ACGTcount: A:0.78, C:0.02, G:0.04, T:0.16
Consensus pattern (8 bp):
TAAAAAAA
Found at i:111870551 original size:17 final size:17
Alignment explanation
Indices: 111870511--111870615 Score: 67
Period size: 17 Copynumber: 6.0 Consensus size: 17
111870501 ATAATAAACA
*
111870511 AATAAAATAAATAAAAT
1 AATAAAATAAAAAAAAT
*
111870528 AAGAAAATAAGAAAAAAT
1 AATAAAATAA-AAAAAAT
*
111870546 -ATAAAACTTAAAAAAATT
1 AATAAAA--TAAAAAAAAT
111870564 AA-AGAAA-AATAAAAAAGT
1 AATA-AAATAA-AAAAAA-T
*
111870582 AAAAAAAGTAAAAAAAA-
1 AATAAAA-TAAAAAAAAT
111870599 AA-AAAATTAAAAAAAAT
1 AATAAAA-TAAAAAAAAT
111870616 CAGAAGCAGA
Statistics
Matches: 71, Mismatches: 6, Indels: 22
0.72 0.06 0.22
Matches are distributed among these distances:
16 15 0.21
17 21 0.30
18 19 0.27
19 14 0.20
20 2 0.03
ACGTcount: A:0.78, C:0.01, G:0.05, T:0.16
Consensus pattern (17 bp):
AATAAAATAAAAAAAAT
Found at i:111870844 original size:13 final size:13
Alignment explanation
Indices: 111870826--111870850 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
111870816 AAAAATATAT
111870826 TAATATTTAAAAA
1 TAATATTTAAAAA
111870839 TAATATTTAAAA
1 TAATATTTAAAA
111870851 TTTTAAAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
TAATATTTAAAAA
Found at i:111870866 original size:20 final size:19
Alignment explanation
Indices: 111870768--111870862 Score: 70
Period size: 20 Copynumber: 4.8 Consensus size: 19
111870758 ACTTTTTAAA
*
111870768 AAAATTATAAAAAATTTATTT
1 AAAATTTTAAAAAA--TATTT
* *
111870789 AAAATTTT--TAAATGTTT
1 AAAATTTTAAAAAATATTT
111870806 AAATATTATT-AAAAATATATT
1 AAA-ATT-TTAAAAAATAT-TT
* *
111870827 AATATTTAAAAATAATATTT
1 AAAATTTTAAAA-AATATTT
111870847 AAAATTTTAAAAAATA
1 AAAATTTTAAAAAATA
111870863 ATTTCAAAAA
Statistics
Matches: 59, Mismatches: 9, Indels: 14
0.72 0.11 0.17
Matches are distributed among these distances:
17 7 0.12
18 3 0.05
19 10 0.17
20 23 0.39
21 16 0.27
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (19 bp):
AAAATTTTAAAAAATATTT
Found at i:111870903 original size:36 final size:34
Alignment explanation
Indices: 111870830--111871183 Score: 303
Period size: 36 Copynumber: 10.0 Consensus size: 34
111870820 ATATATTAAT
111870830 ATTTAAAAATA-ATATTTAAAATTTTAAAAAATA
1 ATTTAAAAATATATATTTAAAATTTTAAAAAATA
* *
111870863 ATTTCAAAAATATATTTTTAAAATTTATAAGAAATA
1 ATTT-AAAAATATATATTTAAAATTT-TAAAAAATA
*
111870899 ATTTCAAATATATATATTTAAAATTTTAAAAAATA
1 ATTT-AAAAATATATATTTAAAATTTTAAAAAATA
* *
111870934 ATTTAAAAATATATATTTGAAATTTT-AAAGAT-
1 ATTTAAAAATATATATTTAAAATTTTAAAAAATA
** * *
111870966 ATTT--AAACCT-T-TTTAAATTTTTTATAAAAATTT
1 ATTTAAAAATATATATTTAAA-ATTTTA-AAAAA-TA
* *
111870999 ATTTAAAAATTTTAATGTTTAAATATTATTAAAAATATATTTAA
1 ATTTAAAAA-TAT-ATATTTAAA-ATT-TT-AAAA-A-A--T-A
* *
111871043 TATTTAAAAAAATAATATTTAAAA-TCTAGAAAAATTA
1 -ATTTAAAAATAT-ATATTTAAAATTTTA-AAAAA-TA
* *
111871080 ATTTCAAAAATATATTTTTAAAATTTATAAGAAATA
1 ATTT-AAAAATATATATTTAAAATTT-TAAAAAATA
111871116 ATTTCAAAAATATATATTTAAAATTTTAAAAAATA
1 ATTT-AAAAATATATATTTAAAATTTTAAAAAATA
111871151 ATTTAAAAATA-ATATTTAAAATTTTAAAAAATA
1 ATTTAAAAATATATATTTAAAATTTTAAAAAATA
111871184 TATATTATAA
Statistics
Matches: 269, Mismatches: 27, Indels: 50
0.78 0.08 0.14
Matches are distributed among these distances:
28 5 0.02
29 5 0.02
30 4 0.01
31 4 0.01
32 5 0.02
33 35 0.13
34 34 0.13
35 39 0.14
36 73 0.27
37 13 0.05
38 5 0.02
39 10 0.04
40 7 0.03
41 6 0.02
42 2 0.01
43 3 0.01
44 10 0.04
45 9 0.03
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (34 bp):
ATTTAAAAATATATATTTAAAATTTTAAAAAATA
Found at i:111870919 original size:71 final size:70
Alignment explanation
Indices: 111870830--111871183 Score: 304
Period size: 71 Copynumber: 5.0 Consensus size: 70
111870820 ATATATTAAT
*
111870830 ATTT-AAAAATA-ATATTTAAAATTTTAAAAAATAATTTCAAAAATATATTTTTAAAATTTATAA
1 ATTTCAAAAATATATATTTAAAATTTTAAAAAATAATTT-AAAAATATATATTTAAAATTTATAA
*
111870893 GAAATA
65 AAAATA
* *
111870899 ATTTCAAATATATATATTTAAAATTTTAAAAAATAATTTAAAAATATATATTTGAAATTT-T-AA
1 ATTTCAAAAATATATATTTAAAATTTTAAAAAATAATTTAAAAATATATATTTAAAATTTATAAA
*
111870962 AGAT-
66 AAATA
** * * * *
111870966 ATTT---AAACCT-T-TTTAAATTTTTTATAAAAATTTATTTAAAAAT-TTTAATGTTTAAATAT
1 ATTTCAAAAATATATATTTAAA-ATTTTA-AAAAA-TAATTTAAAAATATAT-AT-TTAAAAT-T
111871025 TATTAAAAATATATTTA
60 TA-T-AAAA-A-A--TA
* * * *
111871042 ATATTTAAAAAAATAATATTTAAAA-TCTAGAAAAATTAATTTCAAAAATATATTTTTAAAATTT
1 AT-TTCAAAAATAT-ATATTTAAAATTTTA-AAAAA-TAATTT-AAAAATATATATTTAAAATTT
*
111871106 ATAAGAAATA
61 ATAAAAAATA
111871116 ATTTCAAAAATATATATTTAAAATTTTAAAAAATAATTTAAAAATA-ATATTTAAAATTT-TAAA
1 ATTTCAAAAATATATATTTAAAATTTTAAAAAATAATTTAAAAATATATATTTAAAATTTATAAA
111871179 AAATA
66 AAATA
111871184 TATATTATAA
Statistics
Matches: 230, Mismatches: 28, Indels: 55
0.73 0.09 0.18
Matches are distributed among these distances:
62 6 0.03
63 6 0.03
64 10 0.04
65 13 0.06
66 6 0.03
67 6 0.03
68 12 0.05
69 18 0.08
70 32 0.14
71 35 0.15
72 15 0.07
73 13 0.06
74 4 0.02
75 1 0.00
76 3 0.01
77 3 0.01
78 3 0.01
79 1 0.00
80 7 0.03
81 20 0.09
82 8 0.03
83 8 0.03
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (70 bp):
ATTTCAAAAATATATATTTAAAATTTTAAAAAATAATTTAAAAATATATATTTAAAATTTATAAA
AAATA
Found at i:111871041 original size:22 final size:23
Alignment explanation
Indices: 111871011--111871065 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
111871001 TTAAAAATTT
* *
111871011 TAATGTTTAAATA-TTATTAAAAA
1 TAATATTTAAATATTTA-AAAAAA
111871034 T-ATATTT-AATATTTAAAAAAA
1 TAATATTTAAATATTTAAAAAAA
111871055 TAATATTTAAA
1 TAATATTTAAA
111871066 ATCTAGAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
21 10 0.37
22 14 0.52
23 3 0.11
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (23 bp):
TAATATTTAAATATTTAAAAAAA
Found at i:111871048 original size:29 final size:26
Alignment explanation
Indices: 111870993--111871050 Score: 71
Period size: 29 Copynumber: 2.1 Consensus size: 26
111870983 TTTTTTATAA
* *
111870993 AAATTTATTTAAAAATTTTAATGTTT
1 AAATTTATTAAAAAATTTTAATATTT
111871019 AAATATTATTAAAAATATATTTAATATTT
1 AAAT-TTATTAAAAA-AT-TTTAATATTT
111871048 AAA
1 AAA
111871051 AAAATAATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 4 0.15
27 9 0.33
28 2 0.07
29 12 0.44
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (26 bp):
AAATTTATTAAAAAATTTTAATATTT
Found at i:111871075 original size:22 final size:21
Alignment explanation
Indices: 111871029--111871077 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 21
111871019 AAATATTATT
* *
111871029 AAAAATATATTTAATATTTAA
1 AAAAATATATTTAAAATCTAA
*
111871050 AAAAATAATATTTAAAATCTAG
1 AAAAAT-ATATTTAAAATCTAA
111871072 AAAAAT
1 AAAAAT
111871078 TAATTTCAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 6 0.25
22 18 0.75
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (21 bp):
AAAAATATATTTAAAATCTAA
Found at i:111871120 original size:217 final size:214
Alignment explanation
Indices: 111870741--111871178 Score: 720
Period size: 217 Copynumber: 2.0 Consensus size: 214
111870731 TTTTAATTAT
*
111870741 TTTTAAAGATATTTAAAACTTTTTAAAAAAATTATAAAAAATTTATTTAAAATTTTTAAATGTTT
1 TTTTAAAGATATTTAAAACTTTTTAAAAAAATTATAAAAAATTTATTTAAAAATTTTAAATGTTT
*
111870806 AAATATTATTAAAAATATATTAATATTTAAAAATAATATTTAAAATTTTAAAAAATAATTTCAAA
66 AAATATTATTAAAAATATATTAATATTTAAAAATAATATTTAAAATTCTAAAAAATAATTTCAAA
*
111870871 AATATATTTTTAAAATTTATAAGAAATAATTTCAAATATATATATTTAAAATTTTAAAAAATAAT
131 AATATATTTTTAAAATTTATAAGAAATAATTTCAAAAATATATATTTAAAATTTTAAAAAATAAT
*
111870936 TTAAAAATATATATTTGAAA
196 TTAAAAATA-ATATTTAAAA
* ****
111870956 TTTTAAAGATATTTAAACCTTTTTAAATTTTTTAT-AAAAATTTATTTAAAAATTTT-AATGTTT
1 TTTTAAAGATATTTAAAACTTTTTAAAAAAATTATAAAAAATTTATTTAAAAATTTTAAATGTTT
111871019 AAATATTATTAAAAATATATTTAATATTTAAAAAAATAATATTTAAAA-TCTAGAAAAATTAATT
66 AAATATTATTAAAAATATA-TTAATATTT--AAAAATAATATTTAAAATTCTA-AAAAA-TAATT
111871083 TCAAAAATATATTTTTAAAATTTATAAGAAATAATTTCAAAAATATATATTTAAAATTTTAAAAA
126 TCAAAAATATATTTTTAAAATTTATAAGAAATAATTTCAAAAATATATATTTAAAATTTTAAAAA
111871148 ATAATTTAAAAATAATATTTAAAA
191 ATAATTTAAAAATAATATTTAAAA
111871172 TTTTAAA
1 TTTTAAA
111871179 AAATATATAT
Statistics
Matches: 209, Mismatches: 9, Indels: 9
0.92 0.04 0.04
Matches are distributed among these distances:
213 26 0.12
214 29 0.14
215 33 0.16
216 38 0.18
217 83 0.40
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (214 bp):
TTTTAAAGATATTTAAAACTTTTTAAAAAAATTATAAAAAATTTATTTAAAAATTTTAAATGTTT
AAATATTATTAAAAATATATTAATATTTAAAAATAATATTTAAAATTCTAAAAAATAATTTCAAA
AATATATTTTTAAAATTTATAAGAAATAATTTCAAAAATATATATTTAAAATTTTAAAAAATAAT
TTAAAAATAATATTTAAAA
Found at i:111871141 original size:58 final size:57
Alignment explanation
Indices: 111871079--111871227 Score: 144
Period size: 59 Copynumber: 2.6 Consensus size: 57
111871069 TAGAAAAATT
* *
111871079 AATTTCAAAAATATATTTTTAAAATTTA-TAAGAAATAATTTCAAAAATATATATT-TAAA
1 AATTTCAAAAATATA-TTTAAAAATTTATTAA-AAAT--TTTAAAAAATATATATTATAAA
* * * *
111871138 ATTTTAAAAAATA-ATTTAAAAATAATATTTAAAATTTTAAAAAATATATATTATAAA
1 AATTTCAAAAATATATTTAAAAAT-TTATTAAAAATTTTAAAAAATATATATTATAAA
* *
111871195 ACATTTCAAATATATATTTCAAAATTT-TTAAAA
1 A-ATTTCAAAAATATATTTAAAAATTTATTAAAA
111871228 TTAATAACAA
Statistics
Matches: 73, Mismatches: 12, Indels: 12
0.75 0.12 0.12
Matches are distributed among these distances:
56 16 0.22
57 18 0.25
58 17 0.23
59 22 0.30
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (57 bp):
AATTTCAAAAATATATTTAAAAATTTATTAAAAATTTTAAAAAATATATATTATAAA
Found at i:111871160 original size:21 final size:22
Alignment explanation
Indices: 111871115--111871158 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
111871105 TATAAGAAAT
111871115 AATTTCAAAAATATATATTTAA
1 AATTTCAAAAATATATATTTAA
*
111871137 AATTTTAAAAA-ATA-ATTTAA
1 AATTTCAAAAATATATATTTAA
111871157 AA
1 AA
111871159 ATAATATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 8 0.38
21 3 0.14
22 10 0.48
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (22 bp):
AATTTCAAAAATATATATTTAA
Found at i:111871171 original size:23 final size:23
Alignment explanation
Indices: 111871145--111871227 Score: 82
Period size: 23 Copynumber: 3.6 Consensus size: 23
111871135 AAAATTTTAA
111871145 AAAATAATTTAAAAATA-ATATTT
1 AAAAT-ATTTAAAAATATATATTT
111871168 AAAAT-TTTAAAAAATATATATTAT
1 AAAATATTT-AAAAATATATATT-T
* *
111871192 AAAACATTT-CAAATATATATTT
1 AAAATATTTAAAAATATATATTT
*
111871214 CAAAATTTTTAAAA
1 -AAAATATTTAAAA
111871228 TTAATAACAA
Statistics
Matches: 49, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
21 3 0.06
22 8 0.16
23 28 0.57
24 7 0.14
25 3 0.06
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.40
Consensus pattern (23 bp):
AAAATATTTAAAAATATATATTT
Found at i:111871276 original size:13 final size:13
Alignment explanation
Indices: 111871238--111871279 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 13
111871228 TTAATAACAA
111871238 AAAATAAAATAAAT
1 AAAATAAAA-AAAT
111871252 -AAATAAACAAAAT
1 AAAATAAA-AAAAT
111871265 AAAATAAGAAAAAT
1 AAAATAA-AAAAAT
111871279 A
1 A
111871280 TAAAACTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
13 11 0.44
14 13 0.52
15 1 0.04
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.17
Consensus pattern (13 bp):
AAAATAAAAAAAT
Found at i:111876874 original size:17 final size:17
Alignment explanation
Indices: 111876854--111876887 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
111876844 AAATAGATTT
111876854 TTAATTAAAAATTTTAA
1 TTAATTAAAAATTTTAA
*
111876871 TTAATTAAAATTTTTAA
1 TTAATTAAAAATTTTAA
111876888 ACCTAAACCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TTAATTAAAAATTTTAA
Found at i:111879186 original size:33 final size:36
Alignment explanation
Indices: 111879110--111879188 Score: 94
Period size: 33 Copynumber: 2.3 Consensus size: 36
111879100 ATTTTTTTAA
*
111879110 AATATTATTATTTCTCAAAATATAAACTTTATATATG
1 AATA-TATTATTTCTCAAAATATAAACTTTATACATG
* *
111879147 AA-ATATTATTT-TTAAAATTTAAA-TTTATACAT-
1 AATATATTATTTCTCAAAATATAAACTTTATACATG
111879179 AATATATTAT
1 AATATATTAT
111879189 ACTTTCACAT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
32 2 0.05
33 15 0.39
34 10 0.26
35 8 0.21
36 1 0.03
37 2 0.05
ACGTcount: A:0.46, C:0.05, G:0.01, T:0.48
Consensus pattern (36 bp):
AATATATTATTTCTCAAAATATAAACTTTATACATG
Found at i:111883560 original size:3 final size:3
Alignment explanation
Indices: 111883552--111883580 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
111883542 ATCACATGTT
111883552 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
111883581 TGGATGTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:111883700 original size:73 final size:73
Alignment explanation
Indices: 111883581--111883839 Score: 500
Period size: 73 Copynumber: 3.5 Consensus size: 73
111883571 TATTATTATT
*
111883581 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
111883646 ATTTTAAG
66 ATTTTAAG
111883654 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
*
111883719 ATTTTGAG
66 ATTTTAAG
111883727 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
111883792 ATTTTAAG
66 ATTTTAAG
111883800 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
111883840 GTCAAGTTGT
Statistics
Matches: 183, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
73 183 1.00
ACGTcount: A:0.27, C:0.06, G:0.25, T:0.41
Consensus pattern (73 bp):
TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
ATTTTAAG
Found at i:111889073 original size:73 final size:73
Alignment explanation
Indices: 111888986--111889244 Score: 500
Period size: 73 Copynumber: 3.5 Consensus size: 73
111888976 ACAACTTGAC
111888986 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
111889051 CACTAACA
66 CACTAACA
*
111889059 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTCAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
111889124 CACTAACA
66 CACTAACA
111889132 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
111889197 CACTAACA
66 CACTAACA
*
111889205 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCA
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCA
111889245 AATAATAATA
Statistics
Matches: 183, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
73 183 1.00
ACGTcount: A:0.41, C:0.25, G:0.06, T:0.27
Consensus pattern (73 bp):
AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
CACTAACA
Found at i:111889253 original size:3 final size:3
Alignment explanation
Indices: 111889245--111889270 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
111889235 ATTACATCCA
111889245 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
111889271 AACATGTGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:111892663 original size:45 final size:45
Alignment explanation
Indices: 111892589--111892684 Score: 156
Period size: 45 Copynumber: 2.1 Consensus size: 45
111892579 CCCAGCAGTT
* * *
111892589 ATTTGAATTTCATTATTAGGTTCAACCATACCATAACCATTACCAG
1 ATTT-AATTCCATTATTAGGTTCAACCATACCATAAACAATACCAG
111892635 ATTTAATTCCATTATTAGGTTCAACCATACCATAAACAATACCAG
1 ATTTAATTCCATTATTAGGTTCAACCATACCATAAACAATACCAG
111892680 ATTTA
1 ATTTA
111892685 CAAGCACAAT
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
45 43 0.91
46 4 0.09
ACGTcount: A:0.38, C:0.21, G:0.07, T:0.34
Consensus pattern (45 bp):
ATTTAATTCCATTATTAGGTTCAACCATACCATAAACAATACCAG
Found at i:111895789 original size:62 final size:63
Alignment explanation
Indices: 111895670--111895795 Score: 184
Period size: 63 Copynumber: 2.0 Consensus size: 63
111895660 AACCTCCATT
* *
111895670 TTTTTTTCTTCACACAAAAAAGAGTTTAGAATATTAGGAGTGATGTAGCTCAATTTATATATA
1 TTTTTTTCTTCACACAAAAAAGAGCTTAGAATATTAGGAGTGATGTAGCTCAATTTATACATA
* **
111895733 TTTTTTTCTTCACACGACCAAGAGCTTAGAATATTATGG-GTGA-GTAGCTCAATTTATACATA
1 TTTTTTTCTTCACACAAAAAAGAGCTTAGAATATTA-GGAGTGATGTAGCTCAATTTATACATA
111895795 T
1 T
111895796 ACAAGGAAGC
Statistics
Matches: 57, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
62 19 0.33
63 36 0.63
64 2 0.04
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.39
Consensus pattern (63 bp):
TTTTTTTCTTCACACAAAAAAGAGCTTAGAATATTAGGAGTGATGTAGCTCAATTTATACATA
Found at i:111909945 original size:17 final size:18
Alignment explanation
Indices: 111909912--111909945 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
111909902 GGTTTTCTTT
*
111909912 TTTTTTTTAATATATTTC
1 TTTTTTTTAATAGATTTC
111909930 TTTTTTTTAAT-GATTT
1 TTTTTTTTAATAGATTT
111909946 ATTCAATCGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.74
Consensus pattern (18 bp):
TTTTTTTTAATAGATTTC
Found at i:111914925 original size:3 final size:3
Alignment explanation
Indices: 111914917--111914963 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
111914907 ATCACATGTT
111914917 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
111914964 TGGATGTAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:111919300 original size:3 final size:3
Alignment explanation
Indices: 111919292--111919329 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
111919282 ATCACATGTT
111919292 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
111919330 TGGATGTAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:111919411 original size:73 final size:73
Alignment explanation
Indices: 111919330--111919515 Score: 363
Period size: 73 Copynumber: 2.5 Consensus size: 73
111919320 TATTATTATT
*
111919330 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
111919395 ATTTTAAG
66 ATTTTAAG
111919403 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
111919468 ATTTTAAG
66 ATTTTAAG
111919476 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
111919516 GTCAAGTTGT
Statistics
Matches: 112, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 112 1.00
ACGTcount: A:0.28, C:0.06, G:0.25, T:0.41
Consensus pattern (73 bp):
TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
ATTTTAAG
Found at i:111921426 original size:113 final size:113
Alignment explanation
Indices: 111921223--111921448 Score: 416
Period size: 113 Copynumber: 2.0 Consensus size: 113
111921213 CTAAAAAGAC
*
111921223 CGTTTTGTATACTAATAGAGGAATATCAGCCTTATTATATAAAGTTGTATTTCAATTTTCAACCA
1 CGTTTTGTATACTAATAGAGGAATATCAGCCTTATTATATAAAGTTGCATTTCAATTTTCAACCA
* *
111921288 TCAGTGTCAGTTAAGTTCAAGTGGTGTATGTCTGAGGTGCAATGAGAA
66 TCAGTGTCAGTTAAGTTCAAATGGTGTATGTATGAGGTGCAATGAGAA
*
111921336 CGTTTTGTATACTAATAGAGGAATATCAGCCTTATTATATAAAGTTGCATTTCAATTTTCAGCCA
1 CGTTTTGTATACTAATAGAGGAATATCAGCCTTATTATATAAAGTTGCATTTCAATTTTCAACCA
111921401 TCAGTGTCAGTTAAGTTCAAATGGTGTATGTATGAGGTGCAATGAGAA
66 TCAGTGTCAGTTAAGTTCAAATGGTGTATGTATGAGGTGCAATGAGAA
111921449 ATGGTATTAT
Statistics
Matches: 109, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
113 109 1.00
ACGTcount: A:0.31, C:0.12, G:0.20, T:0.36
Consensus pattern (113 bp):
CGTTTTGTATACTAATAGAGGAATATCAGCCTTATTATATAAAGTTGCATTTCAATTTTCAACCA
TCAGTGTCAGTTAAGTTCAAATGGTGTATGTATGAGGTGCAATGAGAA
Found at i:111931341 original size:20 final size:20
Alignment explanation
Indices: 111931318--111931355 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
111931308 TTAAAAAGAT
*
111931318 TTTTTAAA-ATTATTTTTAA
1 TTTTTAAATAATATTTTTAA
111931337 TTTTTAAATAATATTTTTA
1 TTTTTAAATAATATTTTTA
111931356 CATATATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (20 bp):
TTTTTAAATAATATTTTTAA
Found at i:111944260 original size:31 final size:32
Alignment explanation
Indices: 111944223--111944286 Score: 103
Period size: 31 Copynumber: 2.0 Consensus size: 32
111944213 TGTAATAATG
* *
111944223 ATATATACACAATATGGTA-TTAAGAATATAT
1 ATATATACACAATATAGTATTTAAAAATATAT
111944254 ATATATACACAATATAGTATTTAAAAATATAT
1 ATATATACACAATATAGTATTTAAAAATATAT
111944286 A
1 A
111944287 CATAAGATGG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
31 18 0.60
32 12 0.40
ACGTcount: A:0.52, C:0.06, G:0.06, T:0.36
Consensus pattern (32 bp):
ATATATACACAATATAGTATTTAAAAATATAT
Found at i:111944302 original size:24 final size:22
Alignment explanation
Indices: 111944275--111944365 Score: 58
Period size: 24 Copynumber: 3.8 Consensus size: 22
111944265 ATATAGTATT
111944275 TAAAAATATATACATAAGATGGTA
1 TAAAAATATATACATAA-AT-GTA
* *
111944299 TAAAAACATGTACATGGAAATGTA
1 TAAAAATATATACAT--AAATGTA
* *
111944323 TAAGAA-ATATACATAATTAGTAATA
1 TAAAAATATATACATAA--A-T-GTA
111944348 TTAAAAATATATACATAA
1 -TAAAAATATATACATAA
111944366 CATACATAAA
Statistics
Matches: 53, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
21 2 0.04
23 8 0.15
24 22 0.42
25 4 0.08
26 7 0.13
27 10 0.19
ACGTcount: A:0.55, C:0.05, G:0.10, T:0.30
Consensus pattern (22 bp):
TAAAAATATATACATAAATGTA
Found at i:111944463 original size:16 final size:17
Alignment explanation
Indices: 111944432--111944468 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
111944422 AACTACTTTG
111944432 TACACTACACAAATATA
1 TACACTACACAAATATA
*
111944449 TACAC-ACACATATATA
1 TACACTACACAAATATA
111944465 TACA
1 TACA
111944469 TATATAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.24
Consensus pattern (17 bp):
TACACTACACAAATATA
Found at i:111944524 original size:44 final size:45
Alignment explanation
Indices: 111944458--111944582 Score: 141
Period size: 44 Copynumber: 2.8 Consensus size: 45
111944448 ATACACACAC
* * *
111944458 ATATATATACATATATAAATAATAATATTAGAAATATACAA-T-ATA
1 ATAT-TATAAATATAT-AATAATAATATAAAAAATATACAACTAATA
* * *
111944503 ATATTATAAATATACATATAATAGTATAAAAAATATATAACTAATA
1 ATATTATAAATATATA-ATAATAATATAAAAAATATACAACTAATA
111944549 ATATTA-AAATATATAATAAT-ATATAAAAAATATA
1 ATATTATAAATATATAATAATAATATAAAAAATATA
111944583 ATATTGAAAA
Statistics
Matches: 69, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
43 14 0.20
44 33 0.48
45 13 0.19
46 9 0.13
ACGTcount: A:0.60, C:0.03, G:0.02, T:0.35
Consensus pattern (45 bp):
ATATTATAAATATATAATAATAATATAAAAAATATACAACTAATA
Found at i:111944578 original size:21 final size:21
Alignment explanation
Indices: 111944468--111944582 Score: 90
Period size: 21 Copynumber: 5.2 Consensus size: 21
111944458 ATATATATAC
* *
111944468 ATATATAAATAATAATATTAGAA
1 ATATAT-AATAAT-ATATAAAAA
* * *
111944491 ATATACAAT-ATAATATTATAA
1 ATATATAATAAT-ATATAAAAA
*
111944512 ATATACATATAATAGTATAAAAA
1 ATATATA-ATAATA-TATAAAAA
*
111944535 ATATATAACTAATA-ATATTAAA
1 ATATATAA-TAATATATA-AAAA
111944557 ATATATAATAATATATAAAAA
1 ATATATAATAATATATAAAAA
111944578 ATATA
1 ATATA
111944583 ATATTGAAAA
Statistics
Matches: 79, Mismatches: 7, Indels: 14
0.79 0.07 0.14
Matches are distributed among these distances:
21 34 0.43
22 21 0.27
23 24 0.30
ACGTcount: A:0.61, C:0.03, G:0.02, T:0.35
Consensus pattern (21 bp):
ATATATAATAATATATAAAAA
Found at i:111944631 original size:63 final size:65
Alignment explanation
Indices: 111944468--111944638 Score: 160
Period size: 67 Copynumber: 2.7 Consensus size: 65
111944458 ATATATATAC
* * * *
111944468 ATATATAAATAATAATATTAGAAATATACAATATAATATTATAAATATACATATAATAGTATAAA
1 ATATATAACTAACAATATGA-AAATATATAATATAATA-TATAAATATACATATAATAGTATAAA
111944533 AA
64 AA
* *
111944535 ATATATAACTAATAATATTAAAATATAT-A-ATAATATATAAA-A-A-ATATAATA-T-TGAAAA
1 ATATATAACTAACAATATGAAAATATATAATATAATATATAAATATACATATAATAGTAT-AAAA
*
111944593 C
65 A
*
111944594 ATATATATA-TAACATATATGAAGAATATATAATATAATATTTAAA
1 ATATATA-ACTAACA-ATATGAA-AATATATAATATAATATATAAA
111944639 CATTTACATA
Statistics
Matches: 92, Mismatches: 6, Indels: 16
0.81 0.05 0.14
Matches are distributed among these distances:
58 1 0.01
59 16 0.17
60 15 0.16
61 8 0.09
62 2 0.02
63 17 0.18
64 6 0.07
65 1 0.01
66 7 0.08
67 19 0.21
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (65 bp):
ATATATAACTAACAATATGAAAATATATAATATAATATATAAATATACATATAATAGTATAAAAA
Found at i:111944730 original size:35 final size:35
Alignment explanation
Indices: 111944657--111944730 Score: 80
Period size: 35 Copynumber: 2.1 Consensus size: 35
111944647 TAATATATAC
* * *
111944657 ATATTAGAAATAAATAACAACTAATAATAATAATA
1 ATATTAGAAATAAATAACAAATAATAAAAAGAATA
*
111944692 ATATTAGAAAT-AATAATGAAATATATAAAAAGAA-A
1 ATATTAGAAATAAATAA-CAAATA-ATAAAAAGAATA
111944727 ATAT
1 ATAT
111944731 AATATAATAG
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
34 5 0.15
35 20 0.61
36 8 0.24
ACGTcount: A:0.64, C:0.03, G:0.05, T:0.28
Consensus pattern (35 bp):
ATATTAGAAATAAATAACAAATAATAAAAAGAATA
Found at i:111944828 original size:3 final size:3
Alignment explanation
Indices: 111944814--111944977 Score: 74
Period size: 3 Copynumber: 54.7 Consensus size: 3
111944804 ATACATACAC
*
111944814 TAA TAT TAA TAA TAA TAA TAA -AA CTAGA -AA TAA TAA TAA TTAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA -TA-A TAA TAA TAA TAA -TAA TAA
* * * * ** * *
111944860 TTA TAA TACG TTA GAA -AA TAA TTAA T-A TGT TAA TAA AAA TAA TAG
1 TAA TAA TA-A TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA
* * *
111944905 TAA TGAA -AA TAA TAC TAA CAG TAA TAA TAA -AGA TAA TAA TAGA -AA
1 TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TA-A TAA
* *
111944950 TAA -AA TAA TAG TAA TAA TAT TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
111944978 TGTAAAAAAA
Statistics
Matches: 119, Mismatches: 26, Indels: 32
0.67 0.15 0.18
Matches are distributed among these distances:
2 13 0.11
3 93 0.78
4 12 0.10
5 1 0.01
ACGTcount: A:0.60, C:0.02, G:0.06, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:111944902 original size:36 final size:35
Alignment explanation
Indices: 111944841--111944917 Score: 86
Period size: 36 Copynumber: 2.2 Consensus size: 35
111944831 ATAAAACTAG
** *
111944841 AAATAA-TAATAATTAATAATTATAATACGTTA-GA
1 AAATAATTAATAATTAATAAAAATAATA-GTAATGA
*
111944875 AAATAATTAATATGTTAATAAAAATAATAGTAATGA
1 AAATAATTAATA-ATTAATAAAAATAATAGTAATGA
111944911 AAATAAT
1 AAATAAT
111944918 ACTAACAGTA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
34 6 0.17
35 8 0.22
36 22 0.61
ACGTcount: A:0.58, C:0.01, G:0.06, T:0.34
Consensus pattern (35 bp):
AAATAATTAATAATTAATAAAAATAATAGTAATGA
Done.