Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
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: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 25 of 189
Found at i:7995571 original size:6 final size:6
Alignment explanation
Indices: 7995547--7995572 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
7995537 AAAAGTATTT
7995547 TAAAAA TAAAAA TAAAAA TAAAAA TA
1 TAAAAA TAAAAA TAAAAA TAAAAA TA
7995573 TATATTTATT
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:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
TAAAAA
Found at i:8005305 original size:23 final size:23
Alignment explanation
Indices: 8005270--8005314 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
8005260 TGGAGTATAA
* *
8005270 AAGTTTTATATTTTTATATGTAC
1 AAGTTTTATATTTATACATGTAC
8005293 AAGTTTTGA-ATTTATACATGTA
1 AAGTTTT-ATATTTATACATGTA
8005315 TATACAAGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.33, C:0.04, G:0.11, T:0.51
Consensus pattern (23 bp):
AAGTTTTATATTTATACATGTAC
Found at i:8005991 original size:41 final size:42
Alignment explanation
Indices: 8005892--8005980 Score: 135
Period size: 41 Copynumber: 2.1 Consensus size: 42
8005882 CAGTGCCTAT
* *
8005892 CAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAG
1 CAGGCTTAATGCCGGTGAAACAATATCAGACTATACGTCTAA
* *
8005934 CAGGCTTAATGCCGGTGAAAC-ATTTCAGACTATATGTCTAA
1 CAGGCTTAATGCCGGTGAAACAATATCAGACTATACGTCTAA
8005975 CAGGCT
1 CAGGCT
8005981 AAGTGTCGGT
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
41 22 0.51
42 21 0.49
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.27
Consensus pattern (42 bp):
CAGGCTTAATGCCGGTGAAACAATATCAGACTATACGTCTAA
Found at i:8013670 original size:22 final size:24
Alignment explanation
Indices: 8013645--8013699 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 24
8013635 TAATTAATAA
8013645 TTCAAATATTATAA-TAAAAT-TT
1 TTCAAATATTATAATTAAAATGTT
8013667 TTC-AA-ATTATAATTAAAATGTT
1 TTCAAATATTATAATTAAAATGTT
*
8013689 TTTACAATATT
1 TTCA-AATATT
8013700 TTATTTATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
20 7 0.26
21 8 0.30
22 7 0.26
24 2 0.07
25 3 0.11
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.47
Consensus pattern (24 bp):
TTCAAATATTATAATTAAAATGTT
Found at i:8014823 original size:21 final size:21
Alignment explanation
Indices: 8014799--8014842 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
8014789 GTTAATCTTA
*
8014799 GTCTGCCAAATGGCACGTTTT
1 GTCTGCCAAATAGCACGTTTT
* *
8014820 GTCTGCTAAATAGCTCGTTTT
1 GTCTGCCAAATAGCACGTTTT
8014841 GT
1 GT
8014843 TTTAGGACTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.18, C:0.20, G:0.23, T:0.39
Consensus pattern (21 bp):
GTCTGCCAAATAGCACGTTTT
Found at i:8018112 original size:50 final size:50
Alignment explanation
Indices: 8018003--8018252 Score: 270
Period size: 50 Copynumber: 4.9 Consensus size: 50
8017993 ACATTAAGAG
* *
8018003 GATGAGA--TCCCATGTAAGACCATGTCTTGGACATGGCATTGGCATCATTGA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGA
* *
8018054 GATTATGAGAGGTCCCATGTAAGACCAGGTCTGAGACATGGCATTGGCACCGA
1 G---ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA
* * * *
8018107 GATGAGAGGTCCCATATAAGACCATGTCTGGGATATGGCGTTGGCATCGA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA
** * * *
8018157 GATGAGAGGTCCCCCGTAAGACCATTTCTGGGACATGGCATGGGCACCTA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA
* ** * *
8018207 TATGAGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
8018253 GTACAAGAAA
Statistics
Matches: 167, Mismatches: 27, Indels: 11
0.81 0.13 0.05
Matches are distributed among these distances:
50 122 0.73
51 1 0.01
53 3 0.02
54 6 0.04
55 1 0.01
56 34 0.20
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (50 bp):
GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA
Found at i:8021814 original size:3 final size:3
Alignment explanation
Indices: 8021779--8021865 Score: 70
Period size: 3 Copynumber: 28.3 Consensus size: 3
8021769 ATAAGAAAAC
* * * * *
8021779 ATA ATA CTA ACA ATA GTA TTA ATA A-A TATA ATA ATA ATA GTA A-A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA
*
8021823 GATA ATA ATG ATA ATA ATA ATA ATA ATA ACTAA ATA ATA ATA A
1 -ATA ATA ATA ATA ATA ATA ATA ATA ATA A-T-A ATA ATA ATA A
8021866 AAAAATTGCT
Statistics
Matches: 67, Mismatches: 11, Indels: 12
0.74 0.12 0.13
Matches are distributed among these distances:
2 2 0.03
3 59 0.88
4 4 0.06
5 2 0.03
ACGTcount: A:0.61, C:0.03, G:0.05, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:8042283 original size:26 final size:26
Alignment explanation
Indices: 8042242--8042293 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
8042232 TAATATTTAA
8042242 ATTTTATTATGAAAATA-TATAAATAT
1 ATTTTATTATGAAAATAGTA-AAATAT
**
8042268 ATTTTATTATTTAAATAGTAAAATAT
1 ATTTTATTATGAAAATAGTAAAATAT
8042294 GTGTTTTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 21 0.91
27 2 0.09
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (26 bp):
ATTTTATTATGAAAATAGTAAAATAT
Found at i:8048382 original size:160 final size:160
Alignment explanation
Indices: 8048118--8048433 Score: 524
Period size: 160 Copynumber: 2.0 Consensus size: 160
8048108 ACACGGATAC
* *
8048118 TTCAAGAAAAGTAGAGTCAGAGTAACATAGGTAGCACCTGATTGAACTGTTCAATAATGTCAAAG
1 TTCAAGAAAAGTAGAGTCAGAGCAACATAGGTAGCACCTGATTAAACTGTTCAATAATGTCAAAG
* * *
8048183 TTTTAGATGATGAATAGCCGTTGAAAGCAATTAAATCTGTGTCCAACAATTATTTTTTGTTGGCT
66 TTTTAGATGATGAATACCCGTTGAAAGCAATTAAATCTGTGTCCAACAATTATCTTTTATTGGCT
8048248 TTACTTCGTATGGTAAAAGATTTTGGATTG
131 TTACTTCGTATGGTAAAAGATTTTGGATTG
** * *
8048278 TTCAAGAAAAGTAGAGTTGGAGCAACATTGGTAGCACCTGATTAAACTGTTCAATCATGTCAAAG
1 TTCAAGAAAAGTAGAGTCAGAGCAACATAGGTAGCACCTGATTAAACTGTTCAATAATGTCAAAG
* *
8048343 TTTTTGATGATGAATACCCTTTGAAAGCAATTAAATCTGTGTCCAACAATTATCTTTTATTGGCT
66 TTTTAGATGATGAATACCCGTTGAAAGCAATTAAATCTGTGTCCAACAATTATCTTTTATTGGCT
*
8048408 TTACTTTGTATGGTAAAAGATTTTGG
131 TTACTTCGTATGGTAAAAGATTTTGG
8048434 CTCGATTGTA
Statistics
Matches: 144, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
160 144 1.00
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.35
Consensus pattern (160 bp):
TTCAAGAAAAGTAGAGTCAGAGCAACATAGGTAGCACCTGATTAAACTGTTCAATAATGTCAAAG
TTTTAGATGATGAATACCCGTTGAAAGCAATTAAATCTGTGTCCAACAATTATCTTTTATTGGCT
TTACTTCGTATGGTAAAAGATTTTGGATTG
Found at i:8056042 original size:13 final size:12
Alignment explanation
Indices: 8056014--8056049 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
8056004 TTTATCAGTG
8056014 AAAAATATACAT
1 AAAAATATACAT
*
8056026 AAAAATATCCAT
1 AAAAATATACAT
8056038 AAAAA-ATACAT
1 AAAAATATACAT
8056049 A
1 A
8056050 TGACAATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 6 0.27
12 16 0.73
ACGTcount: A:0.67, C:0.11, G:0.00, T:0.22
Consensus pattern (12 bp):
AAAAATATACAT
Found at i:8056316 original size:19 final size:19
Alignment explanation
Indices: 8056278--8056318 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
8056268 ACCATATATA
* * *
8056278 ATTTCAATACATCATGCTT
1 ATTTCAATAAACCATACTT
8056297 ATTTCAATAAACCATACTT
1 ATTTCAATAAACCATACTT
8056316 ATT
1 ATT
8056319 GTACATATTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.20, G:0.02, T:0.41
Consensus pattern (19 bp):
ATTTCAATAAACCATACTT
Found at i:8058144 original size:21 final size:22
Alignment explanation
Indices: 8058120--8058169 Score: 75
Period size: 21 Copynumber: 2.3 Consensus size: 22
8058110 CACTTCACTC
*
8058120 GAAAAAATTAAATTG-TTCAAA
1 GAAAAAATTAAATTGCTCCAAA
8058141 GAAAAAATTAAATTGCTCCAAA
1 GAAAAAATTAAATTGCTCCAAA
*
8058163 CAAAAAA
1 GAAAAAA
8058170 ATATGGAGAC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 15 0.58
22 11 0.42
ACGTcount: A:0.60, C:0.10, G:0.08, T:0.22
Consensus pattern (22 bp):
GAAAAAATTAAATTGCTCCAAA
Found at i:8069049 original size:21 final size:22
Alignment explanation
Indices: 8069023--8069066 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
8069013 AATAATTCTT
*
8069023 TTTTTAAT-ATTTTTTTATAAA
1 TTTTTAATGATTTATTTATAAA
8069044 TTTTTAATGATTTATTTATAAA
1 TTTTTAATGATTTATTTATAAA
8069066 T
1 T
8069067 CAATCACATC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (22 bp):
TTTTTAATGATTTATTTATAAA
Found at i:8074285 original size:99 final size:99
Alignment explanation
Indices: 8073983--8074446 Score: 576
Period size: 99 Copynumber: 4.5 Consensus size: 99
8073973 ATAATATTGA
* * *
8073983 TATACG-AAAAAGGAAAAAAAATATTTTTTGGGTGCTGGCCTGTCAATGCCCGGCACCCAATACA
1 TATACGAAAAAAGTAAAAAAAA-A---TTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACA
*
8074047 ATTTAAAAAATAATAATTTTTTTCGTGTCAGAATCAGATATCAG
62 ATTTAAAAAA-AA-AA----ATTCGTGTCAGAATCAGATATCAG
* *
8074091 TATACGAAAAAAGTAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCTGGCATCCAGTACAATT
1 TATACGAAAAAAGTAAAAAAAAA-TTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAA-T
* **
8074156 TTTAAAAAAAATTTTCTTTTTTTTTGTGTCAGAATCAGATATCAG
64 TTAAAAAAAAAAATTC---------GTGTCAGAATCAGATATCAG
*
8074201 TATACGAAAAAAGTAAAAAAAAA-TTGGGTGCTGGCCTGTCAATGGCCGGCACCTAGTACAATTT
1 TATACGAAAAAAGTAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAA-TT
8074265 TAAAAAAAAAAATTCGTGTCAGAATCAGATATCAG
65 TAAAAAAAAAAATTCGTGTCAGAATCAGATATCAG
* * *
8074300 TATACGAAAAAAATAAAAAAAAATTT-GGTGCTGGCCTATCAATGGCCAGCACCCAGTACAATTT
1 TATACGAAAAAAGTAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTT
8074364 -AAAAAAAAAATTCGTGTCAGAATCAGATATCAG
66 AAAAAAAAAAATTCGTGTCAGAATCAGATATCAG
*
8074397 TATACGAAAAAAGTAAAAAAAAATTTGGGTGCTGGCCTGTAAATGGCCGG
1 TATACGAAAAAAGTAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGG
8074447 TACCAAATTT
Statistics
Matches: 322, Mismatches: 21, Indels: 36
0.85 0.06 0.09
Matches are distributed among these distances:
97 58 0.18
98 23 0.07
99 74 0.23
100 2 0.01
101 4 0.01
105 1 0.00
106 38 0.12
107 8 0.02
108 57 0.18
109 14 0.04
110 43 0.13
ACGTcount: A:0.40, C:0.15, G:0.18, T:0.27
Consensus pattern (99 bp):
TATACGAAAAAAGTAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTT
AAAAAAAAAAATTCGTGTCAGAATCAGATATCAG
Found at i:8075101 original size:43 final size:44
Alignment explanation
Indices: 8075042--8075153 Score: 163
Period size: 44 Copynumber: 2.5 Consensus size: 44
8075032 GAATTGAATT
*
8075042 AAATGAAAATTTGAAAAGTGAGTCAAA-ATAAATTGGATAGAAAC
1 AAATG-AAATTTGAAAAGTGAGTCAAAGATAAATGGGATAGAAAC
* *
8075086 AAATGAAATTTGAAAAGTGAGTCAAAGATAGATGGGATAGAAAT
1 AAATGAAATTTGAAAAGTGAGTCAAAGATAAATGGGATAGAAAC
* *
8075130 AATTGAAATTTGAAAAGTTAGTCA
1 AAATGAAATTTGAAAAGTGAGTCA
8075154 GAACAATTAT
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
43 21 0.34
44 41 0.66
ACGTcount: A:0.51, C:0.04, G:0.21, T:0.25
Consensus pattern (44 bp):
AAATGAAATTTGAAAAGTGAGTCAAAGATAAATGGGATAGAAAC
Found at i:8076483 original size:106 final size:103
Alignment explanation
Indices: 8076151--8076502 Score: 487
Period size: 99 Copynumber: 3.4 Consensus size: 103
8076141 ATTACAAGGT
* *
8076151 GGTGCCGGCCATTGACAGGCCAGCACTCAAATTTTTTTTTATTTTTTTCGTATTCTGATATCTGA
1 GGTGCCGGCCATTGACAGGCCAGCACCCAAATTTTTTTTTATTTTTTTCGTATACTGATATCTGA
* *
8076216 TTCTGACACAAAAAAAAGAAAATTTTTTAAATTGTACTG
66 TTCTGACACGAAAAAAA-TAAATTTTTTAAATTGTACTG
* * *
8076255 GGTGCCGGCCATTGATAGGCCAGTACCCAAATTTTTTTTTTTTACTTTTTTCGTATACTGATATC
1 GGTGCCGGCCATTGACAGGCCAGCACCCAAA---TTTTTTTTTATTTTTTTCGTATACTGATATC
* *
8076320 TGATTTTGACACGAAAAAAAT-AA---TTTAAGTTGTACTG
63 TGATTCTGACACGAAAAAAATAAATTTTTTAAATTGTACTG
* **
8076357 GGTGTCGGCCATTGACAGGCCAGCACCCAAAAATTTTTTTATTTTTTTCGTATACTGATATCTGA
1 GGTGCCGGCCATTGACAGGCCAGCACCCAAATTTTTTTTTATTTTTTTCGTATACTGATATCTGA
* *
8076422 TTCTGACACGAAAAAAATAAATTTTTTTTTAAATTCTACCG
66 TTCTGACACGAAAAAAATAAA---TTTTTTAAATTGTACTG
8076463 GGTGCCGGCCATTGACAGGCCAGCACCCAAATTTTTTTTT
1 GGTGCCGGCCATTGACAGGCCAGCACCCAAATTTTTTTTT
8076503 CCTTTTTCTT
Statistics
Matches: 216, Mismatches: 22, Indels: 18
0.84 0.09 0.07
Matches are distributed among these distances:
99 48 0.22
100 2 0.01
102 41 0.19
104 28 0.13
105 2 0.01
106 48 0.22
107 47 0.22
ACGTcount: A:0.28, C:0.18, G:0.16, T:0.38
Consensus pattern (103 bp):
GGTGCCGGCCATTGACAGGCCAGCACCCAAATTTTTTTTTATTTTTTTCGTATACTGATATCTGA
TTCTGACACGAAAAAAATAAATTTTTTAAATTGTACTG
Found at i:8076509 original size:106 final size:103
Alignment explanation
Indices: 8076151--8076509 Score: 483
Period size: 106 Copynumber: 3.5 Consensus size: 103
8076141 ATTACAAGGT
* * *
8076151 GGTGCCGGCCATTGACAGGCCAGCACTCAAATTTTTTTTTATTTTTTTCGTATTCTGATATCTGA
1 GGTGCCGGCCATTGACAGGCCAGCACCCAAATTTTTTTTTACTTTTTTCGTATACTGATATCTGA
* *
8076216 TTCTGACACAAAAAAAAGAAAATTTTTTAAATTGTACTG
66 TTCTGACACGAAAAAAA-TAAATTTTTTAAATTGTACTG
* *
8076255 GGTGCCGGCCATTGATAGGCCAGTACCCAAATTTTTTTTTTTTACTTTTTTCGTATACTGATATC
1 GGTGCCGGCCATTGACAGGCCAGCACCCAAA---TTTTTTTTTACTTTTTTCGTATACTGATATC
* *
8076320 TGATTTTGACACGAAAAAAAT-AA---TTTAAGTTGTACTG
63 TGATTCTGACACGAAAAAAATAAATTTTTTAAATTGTACTG
* ** *
8076357 GGTGTCGGCCATTGACAGGCCAGCACCCAAAAATTTTTTTATTTTTTTCGTATACTGATATCTGA
1 GGTGCCGGCCATTGACAGGCCAGCACCCAAATTTTTTTTTACTTTTTTCGTATACTGATATCTGA
* *
8076422 TTCTGACACGAAAAAAATAAATTTTTTTTTAAATTCTACCG
66 TTCTGACACGAAAAAAATAAA---TTTTTTAAATTGTACTG
*
8076463 GGTGCCGGCCATTGACAGGCCAGCACCCAAATTTTTTTTTCCTTTTT
1 GGTGCCGGCCATTGACAGGCCAGCACCCAAATTTTTTTTTACTTTTT
8076510 CTTTTTTTTT
Statistics
Matches: 221, Mismatches: 24, Indels: 18
0.84 0.09 0.07
Matches are distributed among these distances:
99 48 0.22
100 2 0.01
102 41 0.19
104 28 0.13
105 2 0.01
106 53 0.24
107 47 0.21
ACGTcount: A:0.28, C:0.18, G:0.16, T:0.38
Consensus pattern (103 bp):
GGTGCCGGCCATTGACAGGCCAGCACCCAAATTTTTTTTTACTTTTTTCGTATACTGATATCTGA
TTCTGACACGAAAAAAATAAATTTTTTAAATTGTACTG
Found at i:8076516 original size:17 final size:17
Alignment explanation
Indices: 8076494--8076527 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
8076484 AGCACCCAAA
8076494 TTTTTTTTTCCTTTTTC
1 TTTTTTTTTCCTTTTTC
8076511 TTTTTTTTTCCTTTTTC
1 TTTTTTTTTCCTTTTTC
8076528 GTATATCAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTTTTTTTCCTTTTTC
Found at i:8076884 original size:21 final size:20
Alignment explanation
Indices: 8076860--8076898 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
8076850 CCTAAATTTT
8076860 TTTAAAAAGATCCATAAAATC
1 TTTAAAAA-ATCCATAAAATC
* *
8076881 TTTAATAAATTCATAAAA
1 TTTAAAAAATCCATAAAA
8076899 ATTCTAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.54, C:0.10, G:0.03, T:0.33
Consensus pattern (20 bp):
TTTAAAAAATCCATAAAATC
Found at i:8084767 original size:14 final size:17
Alignment explanation
Indices: 8084730--8084772 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 17
8084720 AAATTAATTC
8084730 TAATGTATATTATTAAAT
1 TAAT-TATATTATTAAAT
8084748 TAATTATATTA-TAAA-
1 TAATTATATTATTAAAT
8084763 T-ATTATATTA
1 TAATTATATTA
8084773 AGAAATAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 9 0.36
15 1 0.04
16 4 0.16
17 7 0.28
18 4 0.16
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (17 bp):
TAATTATATTATTAAAT
Found at i:8090218 original size:36 final size:36
Alignment explanation
Indices: 8090172--8090398 Score: 328
Period size: 36 Copynumber: 6.0 Consensus size: 36
8090162 GGTAGCTTTA
*
8090172 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
8090208 GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
8090244 GCTATACTTATCCGATCATGTGAAAAAGTGATAAGT
1 GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
*
8090280 CCTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
8090316 GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGTGGT
1 GCTATACTTATCTGATCAAGTGAAAAAGTGATAA---GT
8090355 AGCCTTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 -G-C-TA--T--ACTTATCTGATCAAGTGAAAAAGTGATAAGT
8090398 G
1 G
8090399 GTAGCCTAGC
Statistics
Matches: 174, Mismatches: 7, Indels: 14
0.89 0.04 0.07
Matches are distributed among these distances:
36 135 0.78
39 2 0.01
40 1 0.01
41 1 0.01
42 3 0.02
43 2 0.01
44 1 0.01
46 29 0.17
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (36 bp):
GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
Found at i:8090424 original size:45 final size:46
Alignment explanation
Indices: 8090316--8090441 Score: 213
Period size: 46 Copynumber: 2.8 Consensus size: 46
8090306 AGTGATAAGT
*
8090316 GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGTGGTAGCCTTA
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGGTAGCCTTA
8090362 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGGTAGCC-TA
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGGTAGCCTTA
*
8090407 GCTACACTTATCTGATCAAG-G-ACAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTG
8090442 ATCATACGTA
Statistics
Matches: 78, Mismatches: 2, Indels: 3
0.94 0.02 0.04
Matches are distributed among these distances:
43 13 0.17
44 1 0.01
45 22 0.28
46 42 0.54
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (46 bp):
GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGGTAGCCTTA
Found at i:8093664 original size:23 final size:23
Alignment explanation
Indices: 8093638--8093702 Score: 71
Period size: 23 Copynumber: 2.8 Consensus size: 23
8093628 GGACTCACCA
8093638 CAGCTTGTATGAGCTTACCGTTT
1 CAGCTTGTATGAGCTTACCGTTT
* *
8093661 CAGC-TCTACGGAGCTTACCGTTT
1 CAGCTTGTA-TGAGCTTACCGTTT
*
8093684 CAGCTCG-ATAGAGCTTACC
1 CAGCTTGTAT-GAGCTTACC
8093703 ATTTATCAGC
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
22 3 0.09
23 31 0.91
ACGTcount: A:0.20, C:0.28, G:0.22, T:0.31
Consensus pattern (23 bp):
CAGCTTGTATGAGCTTACCGTTT
Found at i:8100461 original size:23 final size:23
Alignment explanation
Indices: 8100435--8100526 Score: 62
Period size: 23 Copynumber: 3.9 Consensus size: 23
8100425 GGACTCACCA
8100435 CAGCTTGTATGAGCTTACCGTTT
1 CAGCTTGTATGAGCTTACCGTTT
* *
8100458 CAGC-TCTACGGAGCTTACCGTTT
1 CAGCTTGTA-TGAGCTTACCGTTT
* * *
8100481 CAACTCG-ATAGAGCTTACCATTTAT
1 CAGCTTGTAT-GAGCTTACC-GTT-T
* *
8100506 CAGCTCGGAATGAGCTTACCG
1 CAGCT-TGTATGAGCTTACCG
8100527 ATCATGGCTC
Statistics
Matches: 52, Mismatches: 10, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
22 3 0.06
23 30 0.58
24 2 0.04
25 5 0.10
26 10 0.19
27 2 0.04
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.30
Consensus pattern (23 bp):
CAGCTTGTATGAGCTTACCGTTT
Found at i:8102860 original size:21 final size:21
Alignment explanation
Indices: 8102818--8102860 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
8102808 TTTCAAAAAA
* *
8102818 ATTATATATGTATTATATTAT
1 ATTATATATGTATAATAATAT
8102839 ATTATATTAT-TATAATAATAT
1 ATTATA-TATGTATAATAATAT
8102860 A
1 A
8102861 ACTAAAAGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (21 bp):
ATTATATATGTATAATAATAT
Found at i:8102946 original size:9 final size:9
Alignment explanation
Indices: 8102929--8102962 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
8102919 CGAAACAGGG
8102929 AGAAAAGAA
1 AGAAAAGAA
*
8102938 AGCAAAGAA
1 AGAAAAGAA
8102947 AGAAAAGAA
1 AGAAAAGAA
8102956 AGGAAAA
1 A-GAAAA
8102963 ATTAGAGTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 17 0.77
10 5 0.23
ACGTcount: A:0.74, C:0.03, G:0.24, T:0.00
Consensus pattern (9 bp):
AGAAAAGAA
Found at i:8106642 original size:32 final size:32
Alignment explanation
Indices: 8106603--8106673 Score: 115
Period size: 32 Copynumber: 2.2 Consensus size: 32
8106593 ATTTTAGAGG
* *
8106603 TTGATTAATACAAATCATTGGAGAAATTAAGA
1 TTGATTAATACAAACCATTGAAGAAATTAAGA
*
8106635 TTGATTAATACAAACCCTTGAAGAAATTAAGA
1 TTGATTAATACAAACCATTGAAGAAATTAAGA
8106667 TTGATTA
1 TTGATTA
8106674 GAAATTTAGT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.45, C:0.08, G:0.14, T:0.32
Consensus pattern (32 bp):
TTGATTAATACAAACCATTGAAGAAATTAAGA
Found at i:8109462 original size:52 final size:52
Alignment explanation
Indices: 8109400--8109503 Score: 119
Period size: 52 Copynumber: 2.0 Consensus size: 52
8109390 AAAAATGCTC
8109400 TTTTATCATT-ATTTATTTTA-ATTT-TTTTCACATTTATTATTTAGTTG-AAACTG
1 TTTTATCATTAATTTA-TTTACATTTCTTTT-ACA--TATTATTTA-TTGTAAACTG
8109453 TTTTA-CATTAAATTTATTTACATTTCTTTTACATATTATTTATTGTAAACT
1 TTTTATCATT-AATTTATTTACATTTCTTTTACATATTATTTATTGTAAACT
8109504 TATGTATGTC
Statistics
Matches: 46, Mismatches: 0, Indels: 11
0.81 0.00 0.19
Matches are distributed among these distances:
51 3 0.07
52 18 0.39
53 9 0.20
54 12 0.26
55 4 0.09
ACGTcount: A:0.29, C:0.09, G:0.04, T:0.59
Consensus pattern (52 bp):
TTTTATCATTAATTTATTTACATTTCTTTTACATATTATTTATTGTAAACTG
Found at i:8119404 original size:6 final size:6
Alignment explanation
Indices: 8119393--8119438 Score: 83
Period size: 6 Copynumber: 7.7 Consensus size: 6
8119383 TTTTTGAGCT
*
8119393 TATATG TATATG TATATG TATATA TATATG TATATG TATATG TATA
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATA
8119439 ATTCTGAGTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.37, C:0.00, G:0.13, T:0.50
Consensus pattern (6 bp):
TATATG
Found at i:8123925 original size:42 final size:41
Alignment explanation
Indices: 8123866--8123945 Score: 117
Period size: 40 Copynumber: 1.9 Consensus size: 41
8123856 ATATATCCAT
*
8123866 TTTTTAAAATTAATAGAAAATAATATTTTAAAATTATAATCTA
1 TTTTTAAAATTAATAGAAAAT-A-ATCTTAAAATTATAATCTA
*
8123909 TTTTT-AAATTAATAGAAGATAATCTTAAAATTATAAT
1 TTTTTAAAATTAATAGAAAATAATCTTAAAATTATAAT
8123946 AACTAGATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
40 15 0.43
41 1 0.03
42 14 0.40
43 5 0.14
ACGTcount: A:0.50, C:0.03, G:0.04, T:0.44
Consensus pattern (41 bp):
TTTTTAAAATTAATAGAAAATAATCTTAAAATTATAATCTA
Found at i:8124281 original size:14 final size:15
Alignment explanation
Indices: 8124258--8124294 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
8124248 ATTATTAAAT
8124258 AAAT-TTTTAAAG-A
1 AAATATTTTAAAGAA
8124271 AAATATTTTAAAGATA
1 AAATATTTTAAAGA-A
8124287 AAATATTT
1 AAATATTT
8124295 CCTTTATGGG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 4 0.19
14 8 0.38
16 9 0.43
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (15 bp):
AAATATTTTAAAGAA
Found at i:8127892 original size:20 final size:20
Alignment explanation
Indices: 8127853--8127894 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
8127843 ATTAAACAAT
* *
8127853 AATTATGTCTCTTGATGAAC
1 AATTATATCTCTTGACGAAC
*
8127873 AATTATATCTCTTGGCGAAC
1 AATTATATCTCTTGACGAAC
8127893 AA
1 AA
8127895 GTATTGCATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (20 bp):
AATTATATCTCTTGACGAAC
Found at i:8129089 original size:17 final size:17
Alignment explanation
Indices: 8129067--8129099 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
8129057 CAGTTGAACC
*
8129067 AATTTTTTTTTTTTAAT
1 AATTTTTATTTTTTAAT
8129084 AATTTTTATTTTTTAA
1 AATTTTTATTTTTTAA
8129100 AAAAAAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (17 bp):
AATTTTTATTTTTTAAT
Found at i:8131522 original size:9 final size:9
Alignment explanation
Indices: 8131508--8131548 Score: 64
Period size: 9 Copynumber: 4.3 Consensus size: 9
8131498 AAGAGCTTTA
8131508 TTTCATAAT
1 TTTCATAAT
8131517 TTTCATAATT
1 TTTCATAA-T
8131527 ATTTCATAAT
1 -TTTCATAAT
8131537 TTTCATAAT
1 TTTCATAAT
8131546 TTT
1 TTT
8131549 GAGAACTAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
9 20 0.67
10 2 0.07
11 8 0.27
ACGTcount: A:0.32, C:0.10, G:0.00, T:0.59
Consensus pattern (9 bp):
TTTCATAAT
Found at i:8131530 original size:20 final size:20
Alignment explanation
Indices: 8131505--8131546 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
8131495 TTGAAGAGCT
8131505 TTATTTCATAATTTTCATAA
1 TTATTTCATAATTTTCATAA
8131525 TTATTTCATAATTTTCATAA
1 TTATTTCATAATTTTCATAA
8131545 TT
1 TT
8131547 TTGAGAACTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.33, C:0.10, G:0.00, T:0.57
Consensus pattern (20 bp):
TTATTTCATAATTTTCATAA
Found at i:8133093 original size:50 final size:50
Alignment explanation
Indices: 8132971--8133262 Score: 302
Period size: 50 Copynumber: 5.7 Consensus size: 50
8132961 GATAATAACA
* * * *
8132971 TGCCAAAGTCATGTCCCAGACATGGTCTTACATGGGATGTT-TCTTGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-GTTCTCATAT-CGG
* * *
8133020 TGCCAATGCCATATCCCAAATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGG
* * *
8133070 TGCCCATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGG
* ** ** *
8133120 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGG
** * **
8133170 TGCCAACACCATGTCCCAGACATGGTCTTACATGGAACCTCTCATAACCTCGATG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCAT-A--TCG--G
8133225 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
8133263 TCTCTTTACC
Statistics
Matches: 208, Mismatches: 26, Indels: 11
0.85 0.11 0.04
Matches are distributed among these distances:
48 4 0.02
49 36 0.17
50 130 0.62
53 3 0.01
55 1 0.00
56 34 0.16
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGG
Found at i:8140288 original size:43 final size:46
Alignment explanation
Indices: 8140196--8140305 Score: 122
Period size: 47 Copynumber: 2.4 Consensus size: 46
8140186 CTTTACCGTT
* *
8140196 TTGATA-TATTTGATATATTGAGTATGTTCGGTATGTTTCTGTATTTC
1 TTGATATTTTTTGATATATTGAGTATGTT--GTATGTTTCTGTATATC
*
8140243 TTGGTA-TTTTTGATATATTGAGTATG-T-TATGTTAT-TGTATATC
1 TTGATATTTTTTGATATATTGAGTATGTTGTATGTT-TCTGTATATC
*
8140286 TTGATATTTTTTTATATATT
1 TTGATATTTTTTGATATATT
8140306 TGATATATTG
Statistics
Matches: 56, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
43 18 0.32
44 13 0.23
46 1 0.02
47 24 0.43
ACGTcount: A:0.23, C:0.04, G:0.16, T:0.57
Consensus pattern (46 bp):
TTGATATTTTTTGATATATTGAGTATGTTGTATGTTTCTGTATATC
Found at i:8140421 original size:13 final size:13
Alignment explanation
Indices: 8140403--8140429 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
8140393 ACTTTTGATA
8140403 TATTGCATGAAAT
1 TATTGCATGAAAT
8140416 TATTGCATGAAAT
1 TATTGCATGAAAT
8140429 T
1 T
8140430 GGAAGTGTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.07, G:0.15, T:0.41
Consensus pattern (13 bp):
TATTGCATGAAAT
Found at i:8141257 original size:18 final size:17
Alignment explanation
Indices: 8141224--8141262 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
8141214 TTTTATAAAT
8141224 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
8141242 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
8141259 TGTG
1 TGTG
8141263 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:8141515 original size:23 final size:23
Alignment explanation
Indices: 8141488--8141560 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
8141478 AGTGTTATTG
8141488 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* * *
8141511 TTCAGTGGTAGCTACGACTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
8141534 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
8141557 ATCA
1 ATCA
8141561 ATGTGGCACT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:8145717 original size:2 final size:2
Alignment explanation
Indices: 8145712--8145744 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
8145702 CCAAACCTAA
8145712 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
8145745 TCTTCTTCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:8162110 original size:132 final size:132
Alignment explanation
Indices: 8161720--8162746 Score: 1705
Period size: 132 Copynumber: 7.8 Consensus size: 132
8161710 TCCATTCCAC
*
8161720 TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGCAA
1 TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAA
* * *
8161785 TCTTCAACCTACTCCACTACTGCTTAGGGAGATAGGACTAACGACTTAAATCTGCTTCTCCACTG
66 TCTTCAACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTG
8161850 TA
131 TA
* * * *
8161852 TTGGAAAGATAAGATTCACCATATTCGATCTGCTCCACTACTGCTTAGGGTGACAAAATAT-CAA
1 TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAA
* * * *
8161916 TCTTCGACCTATTCCACTACTGTTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTA
66 TCTTCAACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTG
8161981 TA
131 TA
*
8161983 TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGTTTAGGGTGACAGAATCTGCAA
1 TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAA
** * * *
8162048 TCTTTGACCTATTCCACTACTGTTTAGGGTGATAAGACTAATGGCTTAAATCTGCTTCTCCACTG
66 TCTTCAACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTG
8162113 TA
131 TA
8162115 TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAA
1 TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAA
* *
8162180 TCTTCAACCTACTCCACTACTACTTAGGGTGATAGGACAAATGGCTTAAATCTGCTTCTCCACTG
66 TCTTCAACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTG
8162245 TA
131 TA
8162247 TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAA
1 TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAA
* * *
8162312 TCTTCGACCTATTCCACTACTGTTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTG
66 TCTTCAACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTG
8162377 TA
131 TA
*
8162379 TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGTTTAGGGTGACAGAATCTGCAA
1 TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAA
* * * *
8162444 TCTTCGACCTATTCCACTACTGTTTAGGGTGATAAGACTAATGGCTTAAATCTGCTTCTCCACTG
66 TCTTCAACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTG
8162509 TA
131 TA
* *
8162511 TTGGGAAGATAAGATTCACCATCTTCAATCTGCTCCACTACTGCATAGGGTGACAGAATCTGCAA
1 TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAA
* *
8162576 TCTTCAACCTACTCCACTACTACTTAGGGTGATAGGACAAATGGCTTAAATCTGCTTCTCCACTG
66 TCTTCAACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTG
8162641 TA
131 TA
* * * * *
8162643 TTAGGAAGATAAGATTCACCATCTTCGATCTACTCCACTACTGCTCAGGGTGACAGAATTTTCAA
1 TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAA
*
8162708 TCTTCAACCTACTCCACTACTACTTAGGGTGATAGGACT
66 TCTTCAACCTACTCCACTACTGCTTAGGGTGATAGGACT
8162747 GCTTAGAAAG
Statistics
Matches: 842, Mismatches: 52, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
131 119 0.14
132 723 0.86
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (132 bp):
TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAA
TCTTCAACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTG
TA
Found at i:8162942 original size:50 final size:50
Alignment explanation
Indices: 8162815--8164010 Score: 1111
Period size: 50 Copynumber: 24.1 Consensus size: 50
8162805 CTGCCATCTC
* * ** * *
8162815 CAATCTGTTTAACTGCAATGTTGGGGAAGTAAGATTCGCTGTCGTAGCTT
1 CAATCTTTTTAATTGCAATGTCAGGGAAGTAAGATCCGCTGTTGTAGCTT
* * ** * **** * *
8162865 CAATATATTCCATTACACCACCTGGGAAGTAAGATTCGCTGTTGT-GACTT
1 CAATCTTTTTAATTGCAATGTCAGGGAAGTAAGATCCGCTGTTGTAG-CTT
* *** *
8162915 CAATCTTTTTAATTGCAATGTCGGGGAAAG-AAGATTTACCGTTGTAGCTT
1 CAATCTTTTTAATTGCAATGTCAGGG-AAGTAAGATCCGCTGTTGTAGCTT
* ** * ** * * * * *
8162965 CAATCTATTCCACTGCACCGCCTGGAAAGTAAGATTCGCCGTTGTAGCTT
1 CAATCTTTTTAATTGCAATGTCAGGGAAGTAAGATCCGCTGTTGTAGCTT
* *
8163015 CAATCTTTTTAATTGC-----CGGGGAAGCAAGATCCGCTGTTGTAGCTT
1 CAATCTTTTTAATTGCAATGTCAGGGAAGTAAGATCCGCTGTTGTAGCTT
* ** * * * * *
8163060 CAATCTGTTCCACTGCAACG-CTAAGAAAGTAAGATCCACTGTTGTAGCTT
1 CAATCTTTTTAATTGCAATGTC-AGGGAAGTAAGATCCGCTGTTGTAGCTT
*
8163110 TAATCTTTTTAATTGCAATGTCAGGGAAGTAAGATCCGCTGTTGTAGCTT
1 CAATCTTTTTAATTGCAATGTCAGGGAAGTAAGATCCGCTGTTGTAGCTT
*
8163160 CAATCTTTTTAATTGTAATGTCAGGGAAGTAAGATCCGCTGTTGTAGCTT
1 CAATCTTTTTAATTGCAATGTCAGGGAAGTAAGATCCGCTGTTGTAGCTT
* ** * ** * * * *
8163210 CAATCTGTTCCACTGCAA-CACTAAGAAAGTAAGATCTGCTATTGTAGCTT
1 CAATCTTTTTAATTGCAATGTC-AGGGAAGTAAGATCCGCTGTTGTAGCTT
* *
8163260 CAATCTTTTTAATTGCAATGTCAAGGAAGTAAGATCCACTGTTGTAGCTT
1 CAATCTTTTTAATTGCAATGTCAGGGAAGTAAGATCCGCTGTTGTAGCTT
* ** * * * * *
8163310 CAATCTGTTCCATTGCAACGTTAAGAAAGTAAAATCCGCTGTTGTAGCTT
1 CAATCTTTTTAATTGCAATGTCAGGGAAGTAAGATCCGCTGTTGTAGCTT
**
8163360 CAATCTTTTTAATTGCAATGTCAAAGAAGTAAGATCCGCTGTTGTAGCTT
1 CAATCTTTTTAATTGCAATGTCAGGGAAGTAAGATCCGCTGTTGTAGCTT
* ** * * * *
8163410 CAATCTGTTCCACTGCAACG-CTAAGAAAGTAAGATCCGCTGTTGTAGCTT
1 CAATCTTTTTAATTGCAATGTC-AGGGAAGTAAGATCCGCTGTTGTAGCTT
*
8163460 CAATTTTTTTAATTGCAATGTCAGGGAAGTAAGATCCGCTGTTGTAGCTT
1 CAATCTTTTTAATTGCAATGTCAGGGAAGTAAGATCCGCTGTTGTAGCTT
* ** * *
8163510 CAATCTGTTCCACTGCAATG-CTAGGAAAGTAAGATCCGCTGTTGTAGCTT
1 CAATCTTTTTAATTGCAATGTC-AGGGAAGTAAGATCCGCTGTTGTAGCTT
*
8163560 CAATCTTTTTAATTGCAATGTCAGGAAAGTAAGATCCGCTGTTGTAGCTT
1 CAATCTTTTTAATTGCAATGTCAGGGAAGTAAGATCCGCTGTTGTAGCTT
* ** * * * *
8163610 CAATCTGTTCCACTGCAATG-CTAGGAAAGTAAGATCTGTTGTTGTAGCTT
1 CAATCTTTTTAATTGCAATGTC-AGGGAAGTAAGATCCGCTGTTGTAGCTT
*
8163660 CAATCTTTTTAATTGCAATGTCAGGGAAGTAAGATCCGCTATTGTAGCTT
1 CAATCTTTTTAATTGCAATGTCAGGGAAGTAAGATCCGCTGTTGTAGCTT
** * * * * *
8163710 CAAT-TTGTTCCACTACAACG-CTAAGAAAGTAAGATCCGCTGTTGTAGCTT
1 CAATCTT-TTTAATTGCAATGTC-AGGGAAGTAAGATCCGCTGTTGTAGCTT
*
8163760 CAATCTTTTTAATTGCAATGTCAGGGAAGTAAGATCCGCTGTTGTAGTTT
1 CAATCTTTTTAATTGCAATGTCAGGGAAGTAAGATCCGCTGTTGTAGCTT
* ** * * * *
8163810 CAATCTGTTCCACTGCAACG-CTAAGAAAGTAAGATCCGCTGTTGTAGCTT
1 CAATCTTTTTAATTGCAATGTC-AGGGAAGTAAGATCCGCTGTTGTAGCTT
*
8163860 CAATCTTTTTAATTGCAATGTCAGGGAAGTAAGATCCGCTGCTGTAGCTT
1 CAATCTTTTTAATTGCAATGTCAGGGAAGTAAGATCCGCTGTTGTAGCTT
* ** * * *
8163910 CAATCTGTTCCACTGCAATG-CTAAGAAAGTAAGATCCGCTGTTGTAGCTT
1 CAATCTTTTTAATTGCAATGTC-AGGGAAGTAAGATCCGCTGTTGTAGCTT
* * * *
8163960 CAATCTTTTTAA---CTA-CT-AGGGAAGCAAGATCCGCAGTTGTAGCTT
1 CAATCTTTTTAATTGCAATGTCAGGGAAGTAAGATCCGCTGTTGTAGCTT
8164005 CAATCT
1 CAATCT
8164011 GTTCCACTCA
Statistics
Matches: 930, Mismatches: 190, Indels: 57
0.79 0.16 0.05
Matches are distributed among these distances:
45 66 0.07
47 2 0.00
49 14 0.02
50 835 0.90
51 13 0.01
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (50 bp):
CAATCTTTTTAATTGCAATGTCAGGGAAGTAAGATCCGCTGTTGTAGCTT
Found at i:8163966 original size:100 final size:100
Alignment explanation
Indices: 8163040--8164063 Score: 1492
Period size: 100 Copynumber: 10.3 Consensus size: 100
8163030 CCGGGGAAGC
* ** * * * * *
8163040 AAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAACG-CTAAGAAAGTAAGATCCACTGTTG
1 AAGATCCGCTGTTGTAGCTTCAATCTTTTTAATTGCAATGTC-AGGGAAGTAAGATCCGCTGTTG
* * ** * * * *
8163104 TAGCTTTAATCTTTTTAATTGCAATG-TCAGGGAAGT
65 TAGCTTCAATCTGTTCCACTGCAACGCT-AAGAAAGT
*
8163140 AAGATCCGCTGTTGTAGCTTCAATCTTTTTAATTGTAATGTCAGGGAAGTAAGATCCGCTGTTGT
1 AAGATCCGCTGTTGTAGCTTCAATCTTTTTAATTGCAATGTCAGGGAAGTAAGATCCGCTGTTGT
*
8163205 AGCTTCAATCTGTTCCACTGCAACACTAAGAAAGT
66 AGCTTCAATCTGTTCCACTGCAACGCTAAGAAAGT
* * * *
8163240 AAGATCTGCTATTGTAGCTTCAATCTTTTTAATTGCAATGTCAAGGAAGTAAGATCCACTGTTGT
1 AAGATCCGCTGTTGTAGCTTCAATCTTTTTAATTGCAATGTCAGGGAAGTAAGATCCGCTGTTGT
* *
8163305 AGCTTCAATCTGTTCCATTGCAACGTTAAGAAAGT
66 AGCTTCAATCTGTTCCACTGCAACGCTAAGAAAGT
* **
8163340 AAAATCCGCTGTTGTAGCTTCAATCTTTTTAATTGCAATGTCAAAGAAGTAAGATCCGCTGTTGT
1 AAGATCCGCTGTTGTAGCTTCAATCTTTTTAATTGCAATGTCAGGGAAGTAAGATCCGCTGTTGT
8163405 AGCTTCAATCTGTTCCACTGCAACGCTAAGAAAGT
66 AGCTTCAATCTGTTCCACTGCAACGCTAAGAAAGT
*
8163440 AAGATCCGCTGTTGTAGCTTCAATTTTTTTAATTGCAATGTCAGGGAAGTAAGATCCGCTGTTGT
1 AAGATCCGCTGTTGTAGCTTCAATCTTTTTAATTGCAATGTCAGGGAAGTAAGATCCGCTGTTGT
* *
8163505 AGCTTCAATCTGTTCCACTGCAATGCTAGGAAAGT
66 AGCTTCAATCTGTTCCACTGCAACGCTAAGAAAGT
*
8163540 AAGATCCGCTGTTGTAGCTTCAATCTTTTTAATTGCAATGTCAGGAAAGTAAGATCCGCTGTTGT
1 AAGATCCGCTGTTGTAGCTTCAATCTTTTTAATTGCAATGTCAGGGAAGTAAGATCCGCTGTTGT
* *
8163605 AGCTTCAATCTGTTCCACTGCAATGCTAGGAAAGT
66 AGCTTCAATCTGTTCCACTGCAACGCTAAGAAAGT
* * *
8163640 AAGATCTGTTGTTGTAGCTTCAATCTTTTTAATTGCAATGTCAGGGAAGTAAGATCCGCTATTGT
1 AAGATCCGCTGTTGTAGCTTCAATCTTTTTAATTGCAATGTCAGGGAAGTAAGATCCGCTGTTGT
* *
8163705 AGCTTCAATTTGTTCCACTACAACGCTAAGAAAGT
66 AGCTTCAATCTGTTCCACTGCAACGCTAAGAAAGT
8163740 AAGATCCGCTGTTGTAGCTTCAATCTTTTTAATTGCAATGTCAGGGAAGTAAGATCCGCTGTTGT
1 AAGATCCGCTGTTGTAGCTTCAATCTTTTTAATTGCAATGTCAGGGAAGTAAGATCCGCTGTTGT
*
8163805 AGTTTCAATCTGTTCCACTGCAACGCTAAGAAAGT
66 AGCTTCAATCTGTTCCACTGCAACGCTAAGAAAGT
*
8163840 AAGATCCGCTGTTGTAGCTTCAATCTTTTTAATTGCAATGTCAGGGAAGTAAGATCCGCTGCTGT
1 AAGATCCGCTGTTGTAGCTTCAATCTTTTTAATTGCAATGTCAGGGAAGTAAGATCCGCTGTTGT
*
8163905 AGCTTCAATCTGTTCCACTGCAATGCTAAGAAAGT
66 AGCTTCAATCTGTTCCACTGCAACGCTAAGAAAGT
* * * *
8163940 AAGATCCGCTGTTGTAGCTTCAATCTTTTTAA---CTA-CT-AGGGAAGCAAGATCCGCAGTTGT
1 AAGATCCGCTGTTGTAGCTTCAATCTTTTTAATTGCAATGTCAGGGAAGTAAGATCCGCTGTTGT
*
8164000 AGCTTCAATCTGTTCCACT-C-ACTGCCT-GGAAAGGT
66 AGCTTCAATCTGTTCCACTGCAAC-G-CTAAGAAA-GT
* * *
8164035 AAGATTCGCCGTTGTGGCTTCAATCTTTT
1 AAGATCCGCTGTTGTAGCTTCAATCTTTT
8164064 ACTTGCAGAC
Statistics
Matches: 851, Mismatches: 68, Indels: 15
0.91 0.07 0.02
Matches are distributed among these distances:
93 1 0.00
94 6 0.01
95 69 0.08
96 1 0.00
97 2 0.00
100 770 0.90
101 2 0.00
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.33
Consensus pattern (100 bp):
AAGATCCGCTGTTGTAGCTTCAATCTTTTTAATTGCAATGTCAGGGAAGTAAGATCCGCTGTTGT
AGCTTCAATCTGTTCCACTGCAACGCTAAGAAAGT
Found at i:8166573 original size:17 final size:17
Alignment explanation
Indices: 8166536--8166572 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
8166526 TGACCTCTCC
8166536 TTTTACTTTTTCTTCTT
1 TTTTACTTTTTCTTCTT
*
8166553 TTTTCCTTTTTCTT-TT
1 TTTTACTTTTTCTTCTT
8166569 TTTT
1 TTTT
8166573 TTTCTATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 6 0.32
17 13 0.68
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.81
Consensus pattern (17 bp):
TTTTACTTTTTCTTCTT
Found at i:8166605 original size:8 final size:9
Alignment explanation
Indices: 8166586--8166623 Score: 69
Period size: 9 Copynumber: 4.3 Consensus size: 9
8166576 CTATTTTGAC
8166586 TTTGATTTT
1 TTTGATTTT
8166595 TTTGA-TTT
1 TTTGATTTT
8166603 TTTGATTTT
1 TTTGATTTT
8166612 TTTGATTTT
1 TTTGATTTT
8166621 TTT
1 TTT
8166624 TGAGTCTGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
8 8 0.29
9 20 0.71
ACGTcount: A:0.11, C:0.00, G:0.11, T:0.79
Consensus pattern (9 bp):
TTTGATTTT
Found at i:8166608 original size:17 final size:17
Alignment explanation
Indices: 8166586--8166622 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
8166576 CTATTTTGAC
8166586 TTTGATTTTTTTGATTT
1 TTTGATTTTTTTGATTT
8166603 TTTGATTTTTTTGATTT
1 TTTGATTTTTTTGATTT
8166620 TTT
1 TTT
8166623 TTGAGTCTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.11, C:0.00, G:0.11, T:0.78
Consensus pattern (17 bp):
TTTGATTTTTTTGATTT
Found at i:8166611 original size:7 final size:8
Alignment explanation
Indices: 8166586--8166622 Score: 56
Period size: 8 Copynumber: 4.4 Consensus size: 8
8166576 CTATTTTGAC
8166586 TTTGATTTT
1 TTTGA-TTT
8166595 TTTGATTT
1 TTTGATTT
8166603 TTTGATTTT
1 TTTGA-TTT
8166612 TTTGATTT
1 TTTGATTT
8166620 TTT
1 TTT
8166623 TTGAGTCTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
8 14 0.52
9 13 0.48
ACGTcount: A:0.11, C:0.00, G:0.11, T:0.78
Consensus pattern (8 bp):
TTTGATTT
Found at i:8176070 original size:2 final size:2
Alignment explanation
Indices: 8176063--8176093 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
8176053 AGGAAAAGGT
8176063 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
8176094 AGATTTTAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:8178621 original size:28 final size:28
Alignment explanation
Indices: 8178589--8178653 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
8178579 TATCAAAAAT
*
8178589 ATCAATAAAAATTTTTAAGTGTAGAGAC
1 ATCAATAAAAAATTTTAAGTGTAGAGAC
*
8178617 ATCAATAAAAAATTTTAAGTGTAGAGAT
1 ATCAATAAAAAATTTTAAGTGTAGAGAC
8178645 ATCAATAAA
1 ATCAATAAA
8178654 TATCAATAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.51, C:0.06, G:0.12, T:0.31
Consensus pattern (28 bp):
ATCAATAAAAAATTTTAAGTGTAGAGAC
Found at i:8184696 original size:17 final size:17
Alignment explanation
Indices: 8184674--8184722 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
8184664 ATATTAAAAT
*
8184674 AATAAAAATAACATATC
1 AATAAAAATAACATAAC
* *
8184691 AATAAAAAAAATATAAC
1 AATAAAAATAACATAAC
*
8184708 AA-AAACATAACATAA
1 AATAAAAATAACATAA
8184723 ACTATCTCAA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
16 10 0.38
17 16 0.62
ACGTcount: A:0.71, C:0.10, G:0.00, T:0.18
Consensus pattern (17 bp):
AATAAAAATAACATAAC
Found at i:8185770 original size:31 final size:31
Alignment explanation
Indices: 8185712--8185770 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
8185702 GCGTGACCGA
*
8185712 AGGTGCCGCCTCTGCACTAGGCGTGACCAAG
1 AGGTGCCGCCTCTGCACTAGGCATGACCAAG
*
8185743 AGGTGCCGCCTCTTCAGC-AGGCATGACC
1 AGGTGCCGCCTCTGCA-CTAGGCATGACC
8185771 TTGCTCATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
31 24 0.96
32 1 0.04
ACGTcount: A:0.19, C:0.34, G:0.31, T:0.17
Consensus pattern (31 bp):
AGGTGCCGCCTCTGCACTAGGCATGACCAAG
Found at i:8187467 original size:23 final size:24
Alignment explanation
Indices: 8187432--8187479 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
8187422 ATACCTAAAC
8187432 TTCACACAAATAAAAAACAATCAA
1 TTCACACAAATAAAAAACAATCAA
* * *
8187456 TTCA-ACATATAAAACACATTCAA
1 TTCACACAAATAAAAAACAATCAA
8187479 T
1 T
8187480 CACCATCACC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 17 0.81
24 4 0.19
ACGTcount: A:0.56, C:0.21, G:0.00, T:0.23
Consensus pattern (24 bp):
TTCACACAAATAAAAAACAATCAA
Found at i:8189178 original size:15 final size:15
Alignment explanation
Indices: 8189158--8189265 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
8189148 TTTATGGAAA
*
8189158 ATCAAAGATATGGGT
1 ATCAAAGATATGGAT
* * *
8189173 ATCAAATA-ATAGAA
1 ATCAAAGATATGGAT
*
8189187 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGAT
* *
8189203 ATCAAATAT-TGGAA
1 ATCAAAGATATGGAT
8189217 AGTCAAAGATATGGAT
1 A-TCAAAGATATGGAT
* *
8189233 ATCAAATAT-TGGAA
1 ATCAAAGATATGGAT
*
8189247 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGAT
8189263 ATC
1 ATC
8189266 GAGATATTGG
Statistics
Matches: 69, Mismatches: 18, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
14 13 0.19
15 43 0.62
16 13 0.19
ACGTcount: A:0.45, C:0.07, G:0.21, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGAT
Found at i:8189195 original size:30 final size:30
Alignment explanation
Indices: 8189152--8189275 Score: 194
Period size: 30 Copynumber: 4.1 Consensus size: 30
8189142 TCCATATTTA
* *
8189152 TGGAAAATCAAAGATATGGGTATCAAATAA
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
8189182 TAGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
8189212 TGGAAAGTCAAAGATATGGATATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
8189242 TGGAAAGTCAAAGATATGGGTATCGAGATAT
1 TGGAAAGTCAAAGATATGGGTATC-AAATAT
8189273 TGG
1 TGG
8189276 CATAATAAAA
Statistics
Matches: 86, Mismatches: 7, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
30 78 0.91
31 8 0.09
ACGTcount: A:0.44, C:0.06, G:0.23, T:0.26
Consensus pattern (30 bp):
TGGAAAGTCAAAGATATGGGTATCAAATAT
Found at i:8193867 original size:15 final size:15
Alignment explanation
Indices: 8193847--8193924 Score: 61
Period size: 15 Copynumber: 5.2 Consensus size: 15
8193837 TTTATGGAAA
8193847 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* **
8193862 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
8193876 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* * **
8193892 ATCAAATAT-TAGAA
1 ATCAAAGATATGGGT
8193906 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
8193922 ATC
1 ATC
8193925 GAGATATTGG
Statistics
Matches: 45, Mismatches: 14, Indels: 8
0.67 0.21 0.12
Matches are distributed among these distances:
14 7 0.16
15 31 0.69
16 7 0.16
ACGTcount: A:0.44, C:0.08, G:0.22, T:0.27
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:8193875 original size:30 final size:30
Alignment explanation
Indices: 8193841--8193934 Score: 152
Period size: 30 Copynumber: 3.1 Consensus size: 30
8193831 TCCATATTTA
*
8193841 TGGAAAATCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
8193871 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
* *
8193901 TAGAAAGTCAAAGATATGGGTATCGAGATAT
1 TGGAAAGTCAAAGATATGGGTATC-AAATAT
8193932 TGG
1 TGG
8193935 CATAATAAAA
Statistics
Matches: 59, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
30 52 0.88
31 7 0.12
ACGTcount: A:0.43, C:0.06, G:0.24, T:0.27
Consensus pattern (30 bp):
TGGAAAGTCAAAGATATGGGTATCAAATAT
Found at i:8199503 original size:21 final size:21
Alignment explanation
Indices: 8199479--8199528 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
8199469 TACACGGTCT
8199479 AGCCACACGGACATGTGGGGA
1 AGCCACACGGACATGTGGGGA
*
8199500 AGCCACACGGACGTGTGGGGA
1 AGCCACACGGACATGTGGGGA
8199521 AGCCACAC
1 AGCCACAC
8199529 TGCCTGGACT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.28, C:0.28, G:0.36, T:0.08
Consensus pattern (21 bp):
AGCCACACGGACATGTGGGGA
Found at i:8200844 original size:22 final size:22
Alignment explanation
Indices: 8200819--8200862 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
8200809 TACACCAAAA
* *
8200819 TAGGCTTTTAGCGGCGCTTTTT
1 TAGGCCTTTAGCGACGCTTTTT
8200841 TAGGCCTTTAGCGACGCTTTTT
1 TAGGCCTTTAGCGACGCTTTTT
8200863 AGCGCCACTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.11, C:0.20, G:0.25, T:0.43
Consensus pattern (22 bp):
TAGGCCTTTAGCGACGCTTTTT
Found at i:8200998 original size:43 final size:43
Alignment explanation
Indices: 8200934--8201096 Score: 236
Period size: 43 Copynumber: 3.8 Consensus size: 43
8200924 GCGTCGCTAA
* * *
8200934 CTTTAGCGGCGCTTTTTCCACAAACGCCACTAAAGACTAAGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCACTAAAGACCATGAC
*
8200977 CTTTAGCGGCGCTTTTCCCACAAACGCCACTAAAAACCATGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCACTAAAGACCATGAC
* * *
8201020 CTTTAGCGGCGCTTTTACCACAAACGCCGCTAAAGACCATGGC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCACTAAAGACCATGAC
* **
8201063 TTTTAGCGGCGCTTTTCAAACAAACGCCACTAAA
1 CTTTAGCGGCGCTTTTCCCACAAACGCCACTAAA
8201097 AATATATCTT
Statistics
Matches: 107, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 107 1.00
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTTCCCACAAACGCCACTAAAGACCATGAC
Found at i:8204508 original size:14 final size:14
Alignment explanation
Indices: 8204489--8204525 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
8204479 TAAAACCCTA
*
8204489 AATCCCTAACTCCT
1 AATCCCTAACTCAT
8204503 AATCCCTAACTCAT
1 AATCCCTAACTCAT
*
8204517 AACCCCTAA
1 AATCCCTAA
8204526 ACCTTAAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.35, C:0.41, G:0.00, T:0.24
Consensus pattern (14 bp):
AATCCCTAACTCAT
Found at i:8204541 original size:21 final size:21
Alignment explanation
Indices: 8204481--8204557 Score: 66
Period size: 21 Copynumber: 3.7 Consensus size: 21
8204471 CCGACCCTTA
*
8204481 AAACCCTAAATCCCTAACTCCT
1 AAACCCTAAATCCC-AACCCCT
* * **
8204503 AATCCCTAACTCATAACCCCT
1 AAACCCTAAATCCCAACCCCT
* *
8204524 AAACCTTAAATCCCAACCCTT
1 AAACCCTAAATCCCAACCCCT
*
8204545 AAACCAT-AATCCC
1 AAACCCTAAATCCC
8204558 TAAATCTATA
Statistics
Matches: 43, Mismatches: 12, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
20 6 0.14
21 27 0.63
22 10 0.23
ACGTcount: A:0.38, C:0.40, G:0.00, T:0.22
Consensus pattern (21 bp):
AAACCCTAAATCCCAACCCCT
Found at i:8205704 original size:41 final size:40
Alignment explanation
Indices: 8205628--8205819 Score: 251
Period size: 41 Copynumber: 4.7 Consensus size: 40
8205618 AATATTTTTT
* **
8205628 GCGGCGCTTTTTAAAAAACGCCGCTAAA-AATAGAGCATTA
1 GCGGCGC-TTTTCAAAAACGCCGCTAAAGACCAGAGCATTA
8205668 GCGGCGCTTTATCAAAAACGCCGCTAAAGACCAGAGCATTA
1 GCGGCGCTTT-TCAAAAACGCCGCTAAAGACCAGAGCATTA
* *
8205709 GCGGCGCTTCTTCAAAAATGCCGCTAAAGACCCGAGCATTA
1 GCGGCGCTT-TTCAAAAACGCCGCTAAAGACCAGAGCATTA
* * *
8205750 GCGGCGCTTCTCCAAAAATGCCGCTAAAGACCCGAGCATTA
1 GCGGCGCTT-TTCAAAAACGCCGCTAAAGACCAGAGCATTA
*
8205791 GCAGCGCTTTTCGAAAAACGCCGCTAAAG
1 GCGGCGCTTTTC-AAAAACGCCGCTAAAG
8205820 CCCTGAAAAA
Statistics
Matches: 139, Mismatches: 9, Indels: 7
0.90 0.06 0.05
Matches are distributed among these distances:
39 3 0.02
40 25 0.18
41 110 0.79
42 1 0.01
ACGTcount: A:0.32, C:0.27, G:0.22, T:0.19
Consensus pattern (40 bp):
GCGGCGCTTTTCAAAAACGCCGCTAAAGACCAGAGCATTA
Found at i:8205919 original size:39 final size:38
Alignment explanation
Indices: 8205857--8205991 Score: 126
Period size: 40 Copynumber: 3.4 Consensus size: 38
8205847 TGTGCTTGGG
* ** * * *
8205857 TTTTTTGCGGCGCTTTTTGAAAAATGCCACTAATGTTCA
1 TTTTTAGCGGCG-TTTTCCAAAAACGCCGCTAATGTTGA
* *
8205896 TTTTTAGCGGCGTTTTCCAAAAAACGCCGCTAATACTGGA
1 TTTTTAGCGGCGTTTTCC-AAAAACGCCGCTAAT-GTTGA
* * *
8205936 TCTTTAGCGGCGTTTTTCCTAAAGCGCCGCTAATGCTTGA
1 TTTTTAGCGGCG-TTTTCCAAAAACGCCGCTAATG-TTGA
8205976 TTTTTAGCGGCGTTTT
1 TTTTTAGCGGCGTTTT
8205992 TTGTTCAAAC
Statistics
Matches: 78, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
38 4 0.05
39 28 0.36
40 40 0.51
41 6 0.08
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (38 bp):
TTTTTAGCGGCGTTTTCCAAAAACGCCGCTAATGTTGA
Found at i:8205992 original size:40 final size:41
Alignment explanation
Indices: 8205876--8205992 Score: 141
Period size: 40 Copynumber: 2.9 Consensus size: 41
8205866 GCGCTTTTTG
* * *
8205876 AAAAATGCCACTAATG-TTCATTTTTAGCGGCG-TTTTCCA
1 AAAAACGCCGCTAATGCTTGATTTTTAGCGGCGTTTTTCCA
* * *
8205915 AAAAACGCCGCTAATACTGGATCTTTAGCGGCGTTTTTCC-
1 AAAAACGCCGCTAATGCTTGATTTTTAGCGGCGTTTTTCCA
* *
8205955 TAAAGCGCCGCTAATGCTTGATTTTTAGCGGCGTTTTT
1 AAAAACGCCGCTAATGCTTGATTTTTAGCGGCGTTTTT
8205993 TGTTCAAACG
Statistics
Matches: 65, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
39 13 0.20
40 46 0.71
41 6 0.09
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (41 bp):
AAAAACGCCGCTAATGCTTGATTTTTAGCGGCGTTTTTCCA
Found at i:8215323 original size:20 final size:21
Alignment explanation
Indices: 8215298--8215337 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
8215288 CTACCCTACT
8215298 CTACTTCA-ATTTAAT-TTTTG
1 CTACTT-ATATTTAATATTTTG
8215318 CTACTTATATTTAATATTTT
1 CTACTTATATTTAATATTTT
8215338 TAAAATTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 1 0.06
20 13 0.72
21 4 0.22
ACGTcount: A:0.28, C:0.12, G:0.03, T:0.57
Consensus pattern (21 bp):
CTACTTATATTTAATATTTTG
Found at i:8219330 original size:13 final size:13
Alignment explanation
Indices: 8219312--8219337 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8219302 GCCCAAACGT
8219312 CGAAATTTTCAAA
1 CGAAATTTTCAAA
8219325 CGAAATTTTCAAA
1 CGAAATTTTCAAA
8219338 AAATCATTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (13 bp):
CGAAATTTTCAAA
Found at i:8221560 original size:38 final size:38
Alignment explanation
Indices: 8221517--8221592 Score: 116
Period size: 38 Copynumber: 2.0 Consensus size: 38
8221507 TAATGAGTCA
* *
8221517 ATAACCATTTTCATGGTGTCACTCCATAGAGTCTGTAG
1 ATAACCATTTTCATGGTGTCACTCCATAAAGCCTGTAG
* *
8221555 ATAACCATTTTCATGTTGTCATTCCATAAAGCCTGTAG
1 ATAACCATTTTCATGGTGTCACTCCATAAAGCCTGTAG
8221593 GTTATTTCCA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.28, C:0.21, G:0.16, T:0.36
Consensus pattern (38 bp):
ATAACCATTTTCATGGTGTCACTCCATAAAGCCTGTAG
Found at i:8228211 original size:18 final size:18
Alignment explanation
Indices: 8228188--8228230 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
8228178 TGATGGGTCA
8228188 TTTCCTTCTCCTTCTCCT
1 TTTCCTTCTCCTTCTCCT
8228206 TTTCCTTCTCCTTCTCCT
1 TTTCCTTCTCCTTCTCCT
8228224 TTTCCTT
1 TTTCCTT
8228231 TACCTATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.00, C:0.42, G:0.00, T:0.58
Consensus pattern (18 bp):
TTTCCTTCTCCTTCTCCT
Found at i:8228231 original size:6 final size:6
Alignment explanation
Indices: 8228190--8228230 Score: 64
Period size: 6 Copynumber: 6.8 Consensus size: 6
8228180 ATGGGTCATT
* *
8228190 TCCTTC TCCTTC TCCTTT TCCTTC TCCTTC TCCTTT TCCTT
1 TCCTTC TCCTTC TCCTTC TCCTTC TCCTTC TCCTTC TCCTT
8228231 TACCTATTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.00, C:0.44, G:0.00, T:0.56
Consensus pattern (6 bp):
TCCTTC
Found at i:8232319 original size:12 final size:11
Alignment explanation
Indices: 8232291--8232334 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
8232281 AGATAAATGT
*
8232291 TATTTAATTAA
1 TATTTTATTAA
8232302 TATTTTATTAA
1 TATTTTATTAA
* *
8232313 TATTTTTAGTAT
1 TA-TTTTATTAA
8232325 TATTTTATTA
1 TATTTTATTA
8232335 CTAAATGATT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
11 19 0.68
12 9 0.32
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:8246323 original size:30 final size:31
Alignment explanation
Indices: 8246289--8246347 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
8246279 AACTAAAAAA
* *
8246289 AAAGTTATAATTT-AGTCATTAAACTATTCG
1 AAAGTTATAATTTAAGCCAGTAAACTATTCG
* *
8246319 AAAGTTTTCATTTAAGCCAGTAAACTATT
1 AAAGTTATAATTTAAGCCAGTAAACTATT
8246348 TAAAAGTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 11 0.46
31 13 0.54
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (31 bp):
AAAGTTATAATTTAAGCCAGTAAACTATTCG
Found at i:8247598 original size:17 final size:18
Alignment explanation
Indices: 8247560--8247624 Score: 62
Period size: 18 Copynumber: 3.6 Consensus size: 18
8247550 TTAAGATGAC
*
8247560 AATATAAAA-AGTTACAATA
1 AATATAAAATA-TTA-AAAA
*
8247579 AATAAAAAATA-TAAAAA
1 AATATAAAATATTAAAAA
* *
8247596 AATATTAAATATTAAAAT
1 AATATAAAATATTAAAAA
8247614 AATATAAAATA
1 AATATAAAATA
8247625 AATATTTTTA
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
17 12 0.32
18 17 0.45
19 8 0.21
20 1 0.03
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.28
Consensus pattern (18 bp):
AATATAAAATATTAAAAA
Found at i:8247635 original size:25 final size:25
Alignment explanation
Indices: 8247581--8247645 Score: 67
Period size: 28 Copynumber: 2.4 Consensus size: 25
8247571 TTACAATAAA
8247581 TAAAAAATATAAAAAAATATTAAATAT
1 TAAAAAATATAAAAAAATATT--ATAT
*
8247608 TAAAATAATATAAAATAAATATTTTTAAT
1 TAAAA-AATATAAAA-AAATA-TTAT-AT
8247637 TAAAAAATA
1 TAAAAAATA
8247646 ATATGAGTGG
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
27 5 0.15
28 14 0.42
29 12 0.36
30 2 0.06
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (25 bp):
TAAAAAATATAAAAAAATATTATAT
Found at i:8254698 original size:3 final size:3
Alignment explanation
Indices: 8254692--8254723 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
8254682 ATTTTATTAT
8254692 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
8254724 CACATTTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:8268884 original size:23 final size:23
Alignment explanation
Indices: 8268840--8268887 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 23
8268830 AGAATTTTAA
8268840 TAAATGAAAAATATATAAAAATAT
1 TAAATGAAAAATATAT-AAAATAT
*
8268864 TAAATTAAAAATCATAT-AAATAT
1 TAAATGAAAAAT-ATATAAAATAT
8268887 T
1 T
8268888 TTTAAAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 7 0.32
24 11 0.50
25 4 0.18
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (23 bp):
TAAATGAAAAATATATAAAATAT
Found at i:8269468 original size:20 final size:21
Alignment explanation
Indices: 8269444--8269513 Score: 58
Period size: 22 Copynumber: 3.3 Consensus size: 21
8269434 TCTAGAATCA
8269444 TAAAAAACATATAAAAATTA-
1 TAAAAAACATATAAAAATTAC
8269464 TAAAAAAAACCA-ATAAAAATTAC
1 T--AAAAAA-CATATAAAAATTAC
* *
8269487 T-AAAAACGATA-AAAATTTAT
1 TAAAAAAC-ATATAAAAATTAC
8269507 TAAAAAA
1 TAAAAAA
8269514 TCATTTGTAA
Statistics
Matches: 41, Mismatches: 2, Indels: 13
0.73 0.04 0.23
Matches are distributed among these distances:
19 1 0.02
20 15 0.37
21 6 0.15
22 16 0.39
23 3 0.07
ACGTcount: A:0.69, C:0.07, G:0.01, T:0.23
Consensus pattern (21 bp):
TAAAAAACATATAAAAATTAC
Found at i:8269473 original size:22 final size:23
Alignment explanation
Indices: 8269445--8269492 Score: 73
Period size: 22 Copynumber: 2.1 Consensus size: 23
8269435 CTAGAATCAT
8269445 AAAAAA-CATATAAAAATTA-TAA
1 AAAAAACCA-ATAAAAATTACTAA
8269467 AAAAAACCAATAAAAATTACTAA
1 AAAAAACCAATAAAAATTACTAA
8269490 AAA
1 AAA
8269493 CGATAAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
22 16 0.67
23 8 0.33
ACGTcount: A:0.73, C:0.08, G:0.00, T:0.19
Consensus pattern (23 bp):
AAAAAACCAATAAAAATTACTAA
Found at i:8269543 original size:24 final size:24
Alignment explanation
Indices: 8269498--8269543 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
8269488 AAAAACGATA
* *
8269498 AAAATTTATTAAAAAATCATTTGT
1 AAAATATATTAAAAAATAATTTGT
* *
8269522 AAAATATATTAGAAATTAATTT
1 AAAATATATTAAAAAATAATTT
8269544 AAAACCATTA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.41
Consensus pattern (24 bp):
AAAATATATTAAAAAATAATTTGT
Found at i:8269796 original size:19 final size:21
Alignment explanation
Indices: 8269751--8269796 Score: 55
Period size: 19 Copynumber: 2.4 Consensus size: 21
8269741 TAAAATAATA
*
8269751 AATTATTTTTATAGATTTTAT
1 AATTAATTTTATAGATTTTAT
8269772 AA--AATTTTAT-GATTTT-T
1 AATTAATTTTATAGATTTTAT
8269789 AATTAATT
1 AATTAATT
8269797 CATAATGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 6
0.76 0.03 0.21
Matches are distributed among these distances:
17 3 0.14
18 6 0.27
19 11 0.50
21 2 0.09
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (21 bp):
AATTAATTTTATAGATTTTAT
Found at i:8269821 original size:12 final size:13
Alignment explanation
Indices: 8269804--8269837 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
8269794 ATTCATAATG
8269804 TTTTTTTATAT-A
1 TTTTTTTATATGA
*
8269816 TTTTTTTGTATGA
1 TTTTTTTATATGA
8269829 TTTTTTTAT
1 TTTTTTTAT
8269838 GTTTTTATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 10 0.53
13 9 0.47
ACGTcount: A:0.18, C:0.00, G:0.06, T:0.76
Consensus pattern (13 bp):
TTTTTTTATATGA
Found at i:8270701 original size:21 final size:21
Alignment explanation
Indices: 8270672--8270711 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
8270662 ATATTTTTTA
8270672 TTTTTTTA-TTTTAAAATACT
1 TTTTTTTATTTTTAAAATACT
8270692 TTTTTATTATTTTTAAAATA
1 TTTTT-TTATTTTTAAAATA
8270712 AATTTTTGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 3 0.17
22 10 0.56
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (21 bp):
TTTTTTTATTTTTAAAATACT
Found at i:8270713 original size:27 final size:26
Alignment explanation
Indices: 8270655--8270714 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
8270645 GCCCGAATAT
*
8270655 AATAAATATATTTTTTATTTTTTTAT
1 AATAAATATATTTTTTATTTTTTTAA
**
8270681 TTTAAA-ATACTTTTTTATTATTTTTAA
1 AATAAATATA-TTTTTTATT-TTTTTAA
8270708 AATAAAT
1 AATAAAT
8270715 TTTTGGTGTT
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
25 3 0.12
26 13 0.50
27 10 0.38
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (26 bp):
AATAAATATATTTTTTATTTTTTTAA
Found at i:8270717 original size:21 final size:21
Alignment explanation
Indices: 8270671--8270717 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
8270661 TATATTTTTT
* *
8270671 ATTTTTTTATTTTAAAATACT
1 ATTTTATTATTTTAAAATACA
*
8270692 TTTTTATTATTTTTAAAATA-A
1 ATTTTATTA-TTTTAAAATACA
8270713 ATTTT
1 ATTTT
8270718 TGGTGTTTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (21 bp):
ATTTTATTATTTTAAAATACA
Found at i:8270717 original size:22 final size:20
Alignment explanation
Indices: 8270671--8270718 Score: 60
Period size: 22 Copynumber: 2.3 Consensus size: 20
8270661 TATATTTTTT
*
8270671 ATTTTTTTATTTTAAAATAC
1 ATTTTTTTATTTTAAAATAA
*
8270691 TTTTTTATTATTTTTAAAATAA
1 ATTTTT-TTA-TTTTAAAATAA
8270713 ATTTTT
1 ATTTTT
8270719 GGTGTTTATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 5 0.22
21 3 0.13
22 15 0.65
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (20 bp):
ATTTTTTTATTTTAAAATAA
Found at i:8273882 original size:30 final size:30
Alignment explanation
Indices: 8273810--8273882 Score: 92
Period size: 30 Copynumber: 2.4 Consensus size: 30
8273800 AAAAAAATGA
*
8273810 CACACAGCCGTGTAGTTAGACCGTGTGTGT
1 CACACAGCCGTGTAGTCAGACCGTGTGTGT
* * *
8273840 CACATAGTCGTGTAGTCCGACCGTGTGTGT
1 CACACAGCCGTGTAGTCAGACCGTGTGTGT
* *
8273870 CATACGGCCGTGT
1 CACACAGCCGTGT
8273883 GATAGCCCGT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.18, C:0.25, G:0.30, T:0.27
Consensus pattern (30 bp):
CACACAGCCGTGTAGTCAGACCGTGTGTGT
Found at i:8274019 original size:21 final size:19
Alignment explanation
Indices: 8273978--8274020 Score: 50
Period size: 21 Copynumber: 2.2 Consensus size: 19
8273968 CCAATTTCAC
* *
8273978 ACACACTCAAAAGCCCTAA
1 ACACACTCAAAAGACCAAA
8273997 ACACACTTCAACAAGACCAAA
1 ACACAC-TCAA-AAGACCAAA
8274018 ACA
1 ACA
8274021 TGCTAAAATC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 6 0.30
20 4 0.20
21 10 0.50
ACGTcount: A:0.51, C:0.35, G:0.05, T:0.09
Consensus pattern (19 bp):
ACACACTCAAAAGACCAAA
Found at i:8276643 original size:19 final size:18
Alignment explanation
Indices: 8276599--8276646 Score: 69
Period size: 18 Copynumber: 2.6 Consensus size: 18
8276589 TAAAAATATA
*
8276599 TATTTTTTTAAATTAATT
1 TATTTTTTTAAAATAATT
*
8276617 TATATTTTTAAAATAATTT
1 TATTTTTTTAAAATAA-TT
8276636 TATTTTTTTAA
1 TATTTTTTTAA
8276647 TTTTGTCTAC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 14 0.54
19 12 0.46
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
TATTTTTTTAAAATAATT
Found at i:8279566 original size:16 final size:16
Alignment explanation
Indices: 8279545--8279580 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
8279535 TTTGGTTCGC
8279545 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
8279561 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
8279577 TGTA
1 TGTA
8279581 ATAGCAAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.39
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:8279834 original size:16 final size:16
Alignment explanation
Indices: 8279797--8279838 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
8279787 TTAATCATAT
*
8279797 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
8279813 TT-AAATATATTATAA
1 TTAAAATATATTATAA
8279828 TTAAAATATAT
1 TTAAAATATAT
8279839 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:8279845 original size:14 final size:15
Alignment explanation
Indices: 8279806--8279847 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
8279796 TTTAAACATA
*
8279806 ATTATTATTAAATAT
1 ATTATAATTAAATAT
8279821 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
8279835 A-TATAATTTAATA
1 ATTATAATTAAATA
8279848 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:8280020 original size:47 final size:46
Alignment explanation
Indices: 8279969--8280129 Score: 140
Period size: 47 Copynumber: 3.6 Consensus size: 46
8279959 GATTTAATAA
8279969 AATTTAAAATAATTATAACTAATAAATTATCTTATATGAATTTGTAT
1 AATTTAAAATAATTATAA-TAATAAATTATCTTATATGAATTTGTAT
* * * * *
8280016 AATTTAAAATAATTATTATTACATATAAT-TTA-AT-AA---GATAT
1 AATTTAAAATAATTATAATAATAAATTATCTTATATGAATTTG-TAT
* * * *
8280057 AATTTCATAA-AATTATTGATAATAAATTTTCTTATATGAATTTATAT
1 AATTT-AAAATAATTA-TAATAATAAATTATCTTATATGAATTTGTAT
8280104 AATTTAAAATAATT-TATATAATAAAT
1 AATTTAAAATAATTATA-ATAATAAAT
8280130 CTATTGTATA
Statistics
Matches: 88, Mismatches: 15, Indels: 23
0.70 0.12 0.18
Matches are distributed among these distances:
40 1 0.01
41 13 0.15
42 11 0.12
43 5 0.06
44 4 0.05
45 6 0.07
46 19 0.22
47 29 0.33
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.45
Consensus pattern (46 bp):
AATTTAAAATAATTATAATAATAAATTATCTTATATGAATTTGTAT
Found at i:8287570 original size:44 final size:46
Alignment explanation
Indices: 8287484--8287571 Score: 126
Period size: 44 Copynumber: 2.0 Consensus size: 46
8287474 GGTTCGCTGT
* * * *
8287484 AATGGAATAGAGTCGTAATAGGTAATTCTTTTGTTTGGTTGAATGG
1 AATGCAATAGAGGCGTAATAGGTAATTCTTGTGTTTGATTGAATGG
8287530 AATGCAATAGAGGCGTAATA-GT-ATTCTTGTGTTTGATTGAAT
1 AATGCAATAGAGGCGTAATAGGTAATTCTTGTGTTTGATTGAAT
8287572 AAAATGATGT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
44 18 0.47
45 2 0.05
46 18 0.47
ACGTcount: A:0.30, C:0.06, G:0.26, T:0.39
Consensus pattern (46 bp):
AATGCAATAGAGGCGTAATAGGTAATTCTTGTGTTTGATTGAATGG
Found at i:8287840 original size:26 final size:26
Alignment explanation
Indices: 8287810--8287948 Score: 96
Period size: 26 Copynumber: 5.5 Consensus size: 26
8287800 TAATACTATA
8287810 AAATATAATTTAAAATAATTATTATT
1 AAATATAATTTAAAATAATTATTATT
* *
8287836 AAATATAATTTAATAAAAATATATAATT
1 AAATATAATTTAA-AATAAT-TATTATT
* * * * *
8287864 TAATAAAATATATGAAT--TTACTA--
1 AAATATAATTTA-AAATAATTATTATT
* * *
8287887 AAATCATAA--T-ATATAA-TACTATA
1 AAAT-ATAATTTAAAATAATTATTATT
8287910 AAATATAATTTAAAATAATTATTATT
1 AAATATAATTTAAAATAATTATTATT
8287936 AAATATAATTTAA
1 AAATATAATTTAA
8287949 CAAAAATATA
Statistics
Matches: 85, Mismatches: 16, Indels: 24
0.68 0.13 0.19
Matches are distributed among these distances:
20 2 0.02
21 5 0.06
22 5 0.06
23 7 0.08
24 4 0.05
25 8 0.09
26 32 0.38
27 5 0.06
28 17 0.20
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.41
Consensus pattern (26 bp):
AAATATAATTTAAAATAATTATTATT
Found at i:8287851 original size:100 final size:100
Alignment explanation
Indices: 8287718--8287972 Score: 492
Period size: 100 Copynumber: 2.5 Consensus size: 100
8287708 TTAATCATAT
*
8287718 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATATATGAATTT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATATATGAATTT
8287783 ACTAAAATCATAATATATAATACTATAAAATATAA
66 ACTAAAATCATAATATATAATACTATAAAATATAA
8287818 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATATATGAATTT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATATATGAATTT
8287883 ACTAAAATCATAATATATAATACTATAAAATATAA
66 ACTAAAATCATAATATATAATACTATAAAATATAA
*
8287918 TTTAAAATAATTATTATTAAATATAATTTAACAAAAATATATAATTTAATAAAAT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAAT
8287973 TCTTAGTATT
Statistics
Matches: 153, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
100 153 1.00
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (100 bp):
TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATATATGAATTT
ACTAAAATCATAATATATAATACTATAAAATATAA
Found at i:8288031 original size:61 final size:61
Alignment explanation
Indices: 8287872--8288054 Score: 173
Period size: 59 Copynumber: 3.0 Consensus size: 61
8287862 TTTAATAAAA
*
8287872 TATATGAATTTACTAAAATCATAATATATAATACTATAAAA-TATAATTTAAAATAATTAT
1 TATATGAATTTACTAAAATCATAATATATAAAACTATAAAATTATAATTTAAAATAATTAT
* * * ** * ** * * *
8287932 TAT-TAAATATAATTTAA-CA-AAAATATATAATTTAATAAAATTCTTAGTATT-AAAT-ATTCT
1 TATATGAATTTACTAAAATCATAATATATA-AAACT-ATAAAATT-ATAAT-TTAAAATAATTAT
8287992 TATATGAATTTACTAAAATCATAATATATAAAACTATAAAA-TATAATTTAAAATAATTAT
1 TATATGAATTTACTAAAATCATAATATATAAAACTATAAAATTATAATTTAAAATAATTAT
8288052 TAT
1 TAT
8288055 TAAATATAAT
Statistics
Matches: 90, Mismatches: 23, Indels: 20
0.68 0.17 0.15
Matches are distributed among these distances:
57 7 0.08
58 6 0.07
59 22 0.24
60 19 0.21
61 22 0.24
62 7 0.08
63 7 0.08
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (61 bp):
TATATGAATTTACTAAAATCATAATATATAAAACTATAAAATTATAATTTAAAATAATTAT
Found at i:8291708 original size:14 final size:14
Alignment explanation
Indices: 8291689--8291740 Score: 54
Period size: 14 Copynumber: 3.9 Consensus size: 14
8291679 TATATATTTG
8291689 TAATATTATTAAAA
1 TAATATTATTAAAA
* *
8291703 TAATATTTTTAAAT
1 TAATATTATTAAAA
*
8291717 TAA-ATTATTTAAA
1 TAATATTATTAAAA
*
8291730 -AATATTTTTAA
1 TAATATTATTAA
8291741 TTAATGCGTT
Statistics
Matches: 30, Mismatches: 7, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
12 2 0.07
13 13 0.43
14 15 0.50
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TAATATTATTAAAA
Found at i:8291735 original size:26 final size:26
Alignment explanation
Indices: 8291693--8291744 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
8291683 TATTTGTAAT
8291693 ATTATTAAAATAATATTTTTAAATTAA
1 ATTATTAAAATAATATTTTT-AATTAA
*
8291720 ATTATTTAAA-AATATTTTTAATTAA
1 ATTATTAAAATAATATTTTTAATTAA
8291745 TGCGTTGTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 6 0.25
26 9 0.38
27 9 0.38
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (26 bp):
ATTATTAAAATAATATTTTTAATTAA
Found at i:8306469 original size:12 final size:11
Alignment explanation
Indices: 8306451--8306484 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
8306441 ATATGCCCAA
8306451 AAAAATTATTT
1 AAAAATTATTT
8306462 ATAAAATTATTT
1 A-AAAATTATTT
8306474 AAGAAATTATT
1 AA-AAATTATT
8306485 ATTTTTTATG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 2 0.10
12 19 0.90
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (11 bp):
AAAAATTATTT
Found at i:8310194 original size:31 final size:31
Alignment explanation
Indices: 8310156--8310249 Score: 152
Period size: 31 Copynumber: 3.0 Consensus size: 31
8310146 AGGCAAATTA
8310156 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
* *
8310187 CAAGAGTAATTGAATCCTAATAAAAAATATTT
1 CAAGAGTAATTGAATCCTAAT-AAAACTCTTT
*
8310219 AAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
8310250 AAAATTATCT
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
31 29 0.51
32 28 0.49
ACGTcount: A:0.46, C:0.13, G:0.10, T:0.32
Consensus pattern (31 bp):
CAAGAGTAATTGAATCCTAATAAAACTCTTT
Found at i:8310229 original size:32 final size:32
Alignment explanation
Indices: 8310157--8310243 Score: 140
Period size: 32 Copynumber: 2.8 Consensus size: 32
8310147 GGCAAATTAC
* * *
8310157 AAGAGTAATTGAATCCTAAT-AAAACTCTTTC
1 AAGAGTAATTGAATCCTAATAAAAAATATTTA
8310188 AAGAGTAATTGAATCCTAATAAAAAATATTTA
1 AAGAGTAATTGAATCCTAATAAAAAATATTTA
8310220 AAGAGTAATTGAATCCTAATAAAA
1 AAGAGTAATTGAATCCTAATAAAA
8310244 CTCTTTAAAA
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
31 20 0.38
32 32 0.62
ACGTcount: A:0.49, C:0.10, G:0.10, T:0.30
Consensus pattern (32 bp):
AAGAGTAATTGAATCCTAATAAAAAATATTTA
Found at i:8316503 original size:31 final size:31
Alignment explanation
Indices: 8316410--8316505 Score: 165
Period size: 31 Copynumber: 3.1 Consensus size: 31
8316400 GGCAAATTAC
*
8316410 AAGAGTAATTGAATCCTAATAAAACTCTTTC
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
8316441 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
*
8316473 AAGAGTAATTAAATCCTAATAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
8316504 AA
1 AA
8316506 ATTATCTAAG
Statistics
Matches: 62, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
31 33 0.53
32 29 0.47
ACGTcount: A:0.47, C:0.14, G:0.08, T:0.31
Consensus pattern (31 bp):
AAGAGTAATTGAATCCTAATAAAACTCTTTA
Found at i:8321466 original size:54 final size:54
Alignment explanation
Indices: 8321289--8321492 Score: 228
Period size: 54 Copynumber: 3.8 Consensus size: 54
8321279 TCCTTTGAAT
** ** * * *
8321289 TTGGCTGTTGCAAAAGATGATGTTACACTAGCAGCTAATGTTTGTCCTTCGAAC
1 TTGGCTGTCACAAAAGACAATGTTACACTAACAGCTAATGTTTCTCCTTCAAAC
* ** * *
8321343 TTGTCTGTCACAAAAGATGATGTTATACGAACAGCTAATGTTTCTCCTTCAAAC
1 TTGGCTGTCACAAAAGACAATGTTACACTAACAGCTAATGTTTCTCCTTCAAAC
* * *
8321397 TTGGCTGACACAAAAGACAATGTTACACTAGCAGCTAATGCTTCTCCTTCAAAC
1 TTGGCTGTCACAAAAGACAATGTTACACTAACAGCTAATGTTTCTCCTTCAAAC
* ** * *
8321451 TTGGCAGTCGTAAAAGACAATGCTACACTAACAACTAATGTT
1 TTGGCTGTCACAAAAGACAATGTTACACTAACAGCTAATGTT
8321493 AAAGAGAACA
Statistics
Matches: 126, Mismatches: 24, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 126 1.00
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (54 bp):
TTGGCTGTCACAAAAGACAATGTTACACTAACAGCTAATGTTTCTCCTTCAAAC
Found at i:8325002 original size:10 final size:10
Alignment explanation
Indices: 8324987--8325011 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
8324977 ATCACAAGTT
8324987 GAATTGACAC
1 GAATTGACAC
8324997 GAATTGACAC
1 GAATTGACAC
8325007 GAATT
1 GAATT
8325012 TAAGATTGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.40, C:0.16, G:0.20, T:0.24
Consensus pattern (10 bp):
GAATTGACAC
Found at i:8332025 original size:18 final size:18
Alignment explanation
Indices: 8331994--8332028 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
8331984 GCAGAGGGGG
8331994 TTTTTGTTTTTTTTTTCA
1 TTTTTGTTTTTTTTTTCA
8332012 TTTTT-TTTTCTTTTTTC
1 TTTTTGTTTT-TTTTTTC
8332029 TACTGCAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.03, C:0.09, G:0.03, T:0.86
Consensus pattern (18 bp):
TTTTTGTTTTTTTTTTCA
Found at i:8332027 original size:12 final size:11
Alignment explanation
Indices: 8331994--8332027 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
8331984 GCAGAGGGGG
*
8331994 TTTTTGTTTTT
1 TTTTTCTTTTT
*
8332005 TTTTTCATTTT
1 TTTTTCTTTTT
8332016 TTTTTCTTTTT
1 TTTTTCTTTTT
8332027 T
1 T
8332028 CTACTGCAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.03, C:0.06, G:0.03, T:0.88
Consensus pattern (11 bp):
TTTTTCTTTTT
Found at i:8333169 original size:20 final size:20
Alignment explanation
Indices: 8333127--8333169 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
8333117 ACCATTCATC
* *
8333127 AAGGTTATTTTCTTGATTCA
1 AAGGTTATTTTCTTGAATAA
* *
8333147 AAGGTTTTTTTTTTGAATAA
1 AAGGTTATTTTCTTGAATAA
8333167 AAG
1 AAG
8333170 CATTATTGGA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.30, C:0.05, G:0.16, T:0.49
Consensus pattern (20 bp):
AAGGTTATTTTCTTGAATAA
Found at i:8335564 original size:14 final size:14
Alignment explanation
Indices: 8335519--8335576 Score: 57
Period size: 14 Copynumber: 4.1 Consensus size: 14
8335509 CATTATTAGT
*
8335519 TTAATAAATAATAT
1 TTAATAAATAATAA
* *
8335533 TATAATAATTAA-AT
1 T-TAATAAATAATAA
8335547 TTAAATAAA-AATAA
1 TT-AATAAATAATAA
8335561 TTAATAAATAATAA
1 TTAATAAATAATAA
8335575 TT
1 TT
8335577 GGGGATATCA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
13 9 0.24
14 19 0.51
15 9 0.24
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
TTAATAAATAATAA
Found at i:8353342 original size:4 final size:4
Alignment explanation
Indices: 8353333--8353380 Score: 78
Period size: 4 Copynumber: 12.0 Consensus size: 4
8353323 TTTCTCTAAG
* *
8353333 CATA CATA CATA CATA CATA CACA CATA CATA CATA CATG CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
8353381 TGTCATATTC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
4 40 1.00
ACGTcount: A:0.48, C:0.27, G:0.02, T:0.23
Consensus pattern (4 bp):
CATA
Found at i:8357681 original size:42 final size:42
Alignment explanation
Indices: 8357614--8357723 Score: 134
Period size: 43 Copynumber: 2.6 Consensus size: 42
8357604 TTGCGGCGTT
*
8357614 AGGTCATGTTCTTTAGC-AGCACTTTTAT-AAAAACGCCGCTAA
1 AGGTCATGTTCTTTAGCGA-CACTTTT-TCAAAAACGCCACTAA
* * *
8357656 AGGTTATGTTCTTTAGCGACGCTTTTTCCACAAACGCCACTAA
1 AGGTCATGTTCTTTAGCGACACTTTTT-CAAAAACGCCACTAA
*
8357699 AAGTCATGTTCTTTAGCGACACTTT
1 AGGTCATGTTCTTTAGCGACACTTT
8357724 ACCCACAAAC
Statistics
Matches: 58, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
41 1 0.02
42 22 0.38
43 35 0.60
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.34
Consensus pattern (42 bp):
AGGTCATGTTCTTTAGCGACACTTTTTCAAAAACGCCACTAA
Found at i:8357708 original size:43 final size:43
Alignment explanation
Indices: 8357644--8357736 Score: 132
Period size: 43 Copynumber: 2.2 Consensus size: 43
8357634 ACTTTTATAA
* * * * **
8357644 AAACGCCGCTAAAGGTTATGTTCTTTAGCGACGCTTTTTCCAC
1 AAACGCCACTAAAAGTCATGTTCTTTAGCGACACTTTACCCAC
8357687 AAACGCCACTAAAAGTCATGTTCTTTAGCGACACTTTACCCAC
1 AAACGCCACTAAAAGTCATGTTCTTTAGCGACACTTTACCCAC
8357730 AAACGCC
1 AAACGCC
8357737 GCTATTGTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (43 bp):
AAACGCCACTAAAAGTCATGTTCTTTAGCGACACTTTACCCAC
Found at i:8360680 original size:84 final size:84
Alignment explanation
Indices: 8360420--8360673 Score: 402
Period size: 84 Copynumber: 3.0 Consensus size: 84
8360410 CATTTTGCGG
* *
8360420 AACATTAATTCAATCTTGTGGCGTTTT-TTAAGAAAACGCCACTACAAGATTTTATTCCAGTAGA
1 AACATTAATTCACTCTTGTGGCGTTTTCTTAA-AAAACGCCACTATAAGATTTTATTCCAGTAGA
8360484 GAAACGGCGCCGCATTGGCA
65 GAAACGGCGCCGCATTGGCA
* * *
8360504 AACATTAGTTCACTCTTGCGGCGTTTTCTTAAAAAACACCACTATAAGATTTTATTCCAGTAGAG
1 AACATTAATTCACTCTTGTGGCGTTTTCTTAAAAAACGCCACTATAAGATTTTATTCCAGTAGAG
*
8360569 AAACGGCGCCGAATTGGCA
66 AAACGGCGCCGCATTGGCA
*
8360588 AACATTAATTCACTCTTGTGGCGTTTTCTTAAAAAACGCCACTATAAGATTTTATTCCACTAGAG
1 AACATTAATTCACTCTTGTGGCGTTTTCTTAAAAAACGCCACTATAAGATTTTATTCCAGTAGAG
* * *
8360653 AAACGGTGCCGCTTTGCCA
66 AAACGGCGCCGCATTGGCA
8360672 AA
1 AA
8360674 TTTTAATAAA
Statistics
Matches: 155, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
84 151 0.97
85 4 0.03
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (84 bp):
AACATTAATTCACTCTTGTGGCGTTTTCTTAAAAAACGCCACTATAAGATTTTATTCCAGTAGAG
AAACGGCGCCGCATTGGCA
Found at i:8360695 original size:84 final size:84
Alignment explanation
Indices: 8360420--8360713 Score: 396
Period size: 84 Copynumber: 3.5 Consensus size: 84
8360410 CATTTTGCGG
* * *
8360420 AACATTAATTCAATCTTGTGGCGTTTT-TTAAGAAAACGCCACTACAAGATTTTATTCCAGTAGA
1 AACATTAATTCACTCTTGCGGCGTTTTCTTAA-AAAACGCCACTATAAGATTTTATTCCAGTAGA
8360484 GAAACGGCGCCGCATTGGCA
65 GAAACGGCGCCGCATTGGCA
* *
8360504 AACATTAGTTCACTCTTGCGGCGTTTTCTTAAAAAACACCACTATAAGATTTTATTCCAGTAGAG
1 AACATTAATTCACTCTTGCGGCGTTTTCTTAAAAAACGCCACTATAAGATTTTATTCCAGTAGAG
*
8360569 AAACGGCGCCGAATTGGCA
66 AAACGGCGCCGCATTGGCA
* *
8360588 AACATTAATTCACTCTTGTGGCGTTTTCTTAAAAAACGCCACTATAAGATTTTATTCCACTAGAG
1 AACATTAATTCACTCTTGCGGCGTTTTCTTAAAAAACGCCACTATAAGATTTTATTCCAGTAGAG
* * *
8360653 AAACGGTGCCGCTTTGCCA
66 AAACGGCGCCGCATTGGCA
** * * *
8360672 AATTTTAA-TAAATCCTTGCGGCGTTTTCACT-AAAAACGCCAC
1 AACATTAATTCACT-CTTGCGGCGTTTTC-TTAAAAAACGCCAC
8360714 AAAAAAATTT
Statistics
Matches: 187, Mismatches: 20, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
83 3 0.02
84 179 0.96
85 5 0.03
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.30
Consensus pattern (84 bp):
AACATTAATTCACTCTTGCGGCGTTTTCTTAAAAAACGCCACTATAAGATTTTATTCCAGTAGAG
AAACGGCGCCGCATTGGCA
Found at i:8360735 original size:84 final size:85
Alignment explanation
Indices: 8360647--8360807 Score: 193
Period size: 84 Copynumber: 1.9 Consensus size: 85
8360637 TTTTATTCCA
* * ** **
8360647 CTAGAGAAACGGTGCCGCTTTGCCAAATTTTAATAA-ATCCTTGCGGCGTTTTCAC-TAAAAACG
1 CTAGAGAAACGGCGCCGCTTTGACAAATTTTAA-AACATAATAACGGCGTTTTC-CGTAAAAACG
8360710 CCAC-AAAAAAATTTCGTTTCT
64 CCACTAAAAAAATTTCGTTTCT
* * * *
8360731 CTAGATAAATGGCGCCGTTTTGACAAATTTTAAAACATAATAACGGCGTTTTCCGTAAAAACGTC
1 CTAGAGAAACGGCGCCGCTTTGACAAATTTTAAAACATAATAACGGCGTTTTCCGTAAAAACGCC
8360796 ACTAAAAAAATT
66 ACTAAAAAAATT
8360808 AAACTCCTAA
Statistics
Matches: 64, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
83 3 0.05
84 52 0.81
85 9 0.14
ACGTcount: A:0.36, C:0.20, G:0.15, T:0.29
Consensus pattern (85 bp):
CTAGAGAAACGGCGCCGCTTTGACAAATTTTAAAACATAATAACGGCGTTTTCCGTAAAAACGCC
ACTAAAAAAATTTCGTTTCT
Found at i:8360747 original size:168 final size:168
Alignment explanation
Indices: 8360420--8360747 Score: 401
Period size: 168 Copynumber: 2.0 Consensus size: 168
8360410 CATTTTGCGG
*
8360420 AACATTAATTCAATCTTGTGGCGTTTTTTAAGAAAACGCCACTACAAGATTTTATTCCAGTAGAG
1 AACATTAATTCAATCTTGTGGCGTTTTTTAAGAAAACGCCACTACAAGATTTTATTCCACTAGAG
* * ** * * *
8360485 AAACGGCGCCGCATTGGCAAACATTAGTTCACTCTTGCGGCGTTTTCTTAAAAAACACCACTATA
66 AAACGGCGCCGCATTGCCAAACATTAATAAACTCTTGCGGCGTTTTCCTAAAAAACACCACAAAA
* * *
8360550 AGATTTTATTCCAGTAGAGAAACGGCGCCGAATTGGCA
131 AAATTTCATTCCACTAGAGAAACGGCGCCGAATTGGCA
* *
8360588 AACATTAATTCACTCTTGTGGCGTTTTCTTAA-AAAACGCCACTATAAGATTTTATTCCACTAGA
1 AACATTAATTCAATCTTGTGGCGTTTT-TTAAGAAAACGCCACTACAAGATTTTATTCCACTAGA
* * ** *
8360652 GAAACGGTGCCGCTTTGCCAAATTTTAATAAA-TCCTTGCGGCGTTTTCACT-AAAAACGCCACA
65 GAAACGGCGCCGCATTGCCAAACATTAATAAACT-CTTGCGGCGTTTTC-CTAAAAAACACCACA
* * * * *
8360715 AAAAAATTTCGTTTCTCTAGATAAATGGCGCCG
128 AAAAAATTTCATTCCACTAGAGAAACGGCGCCG
8360748 TTTTGACAAA
Statistics
Matches: 134, Mismatches: 23, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
167 1 0.01
168 128 0.96
169 5 0.04
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (168 bp):
AACATTAATTCAATCTTGTGGCGTTTTTTAAGAAAACGCCACTACAAGATTTTATTCCACTAGAG
AAACGGCGCCGCATTGCCAAACATTAATAAACTCTTGCGGCGTTTTCCTAAAAAACACCACAAAA
AAATTTCATTCCACTAGAGAAACGGCGCCGAATTGGCA
Found at i:8361218 original size:19 final size:19
Alignment explanation
Indices: 8361196--8361239 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
8361186 CCCTAAACCA
*
8361196 TAACCCAACCC-TGAATCCC
1 TAACCCAACCCAT-AACCCC
*
8361215 TAACTCAACCCATAACCCC
1 TAACCCAACCCATAACCCC
8361234 TAACCC
1 TAACCC
8361240 CTAAACCTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 20 0.95
20 1 0.05
ACGTcount: A:0.34, C:0.48, G:0.02, T:0.16
Consensus pattern (19 bp):
TAACCCAACCCATAACCCC
Found at i:8361404 original size:82 final size:83
Alignment explanation
Indices: 8361230--8361389 Score: 286
Period size: 82 Copynumber: 1.9 Consensus size: 83
8361220 CAACCCATAA
8361230 CCCCTAACCCCTAAACCTTATTTAATATATAAATTAAAAAAACACTAATTAATCTAAACCCTAAA
1 CCCCTAACCCCTAAACCTTATTTAATATATAAATTAAAAAAACACTAATTAATCTAAACCCTAAA
8361295 CCATAACCCAACCCCAAC
66 CCATAACCCAACCCCAAC
* * *
8361313 CCCCTAACCCCTAAACTTTATTTAATATATAAATT-AAAAAACACTAATTAGTCTAAACCTTAAA
1 CCCCTAACCCCTAAACCTTATTTAATATATAAATTAAAAAAACACTAATTAATCTAAACCCTAAA
8361377 CCATAACCCAACC
66 CCATAACCCAACC
8361390 TCGAATCCCT
Statistics
Matches: 74, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
82 40 0.54
83 34 0.46
ACGTcount: A:0.45, C:0.29, G:0.01, T:0.25
Consensus pattern (83 bp):
CCCCTAACCCCTAAACCTTATTTAATATATAAATTAAAAAAACACTAATTAATCTAAACCCTAAA
CCATAACCCAACCCCAAC
Found at i:8361499 original size:25 final size:25
Alignment explanation
Indices: 8361471--8361530 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
8361461 TTAATCTAAA
* *
8361471 CCCTAACCCTAA-CCCAATCCCAAAT
1 CCCTAACCCCAACCCCAA-CCCAAAC
*
8361496 CCCTAACCCCAACCCCAACCCCAAC
1 CCCTAACCCCAACCCCAACCCAAAC
8361521 CCCTAACCCC
1 CCCTAACCCC
8361531 TAAACCTTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
25 26 0.84
26 5 0.16
ACGTcount: A:0.32, C:0.58, G:0.00, T:0.10
Consensus pattern (25 bp):
CCCTAACCCCAACCCCAACCCAAAC
Found at i:8361530 original size:7 final size:7
Alignment explanation
Indices: 8361466--8361533 Score: 58
Period size: 6 Copynumber: 10.6 Consensus size: 7
8361456 ACTAATTAAT
*
8361466 CTAAACC
1 CTAACCC
8361473 CTAA-CC
1 CTAACCC
8361479 CTAA-CC
1 CTAACCC
*
8361485 C-AATCC
1 CTAACCC
* *
8361491 CAAATCC
1 CTAACCC
8361498 CTAACCC
1 CTAACCC
8361505 C-AACCC
1 CTAACCC
8361511 C-AACCC
1 CTAACCC
8361517 C-AACCC
1 CTAACCC
8361523 CTAACCC
1 CTAACCC
8361530 CTAA
1 CTAA
8361534 ACCTTATTTA
Statistics
Matches: 56, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
5 2 0.04
6 30 0.54
7 24 0.43
ACGTcount: A:0.35, C:0.53, G:0.00, T:0.12
Consensus pattern (7 bp):
CTAACCC
Found at i:8361530 original size:19 final size:19
Alignment explanation
Indices: 8361477--8361530 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 19
8361467 TAAACCCTAA
* *
8361477 CCCTAA-CCCAATCCCAAAT
1 CCCTAACCCCAA-CCCCAAC
8361496 CCCTAACCCCAACCCCAAC
1 CCCTAACCCCAACCCCAAC
8361515 CCC-AACCCCTAACCCC
1 CCCTAACCCC-AACCCC
8361531 TAAACCTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
18 6 0.19
19 20 0.65
20 5 0.16
ACGTcount: A:0.31, C:0.59, G:0.00, T:0.09
Consensus pattern (19 bp):
CCCTAACCCCAACCCCAAC
Done.