Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 11 of 228
Found at i:3959407 original size:90 final size:90
Alignment explanation
Indices: 3959282--3959959 Score: 1115
Period size: 90 Copynumber: 7.5 Consensus size: 90
3959272 TAAGATCTGT
3959282 TATCTTC-AGTCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCAGTCTACTTTGC
1 TATCTTCGA-TCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCAGTCTACTTTGC
3959346 TGCCAATACAGGAAGACAAGACTTGC
65 TGCCAATACAGGAAGACAAGACTTGC
* * * *
3959372 TATATTCGATCTACTTCGCTGCCAGTACAGAAAGACATGATCTGCTATCTTCAGTCTACTTTGCT
1 TATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCAGTCTACTTTGCT
*
3959437 GCCAATACAGGAAGACGAGACTTGC
66 GCCAATACAGGAAGACAAGACTTGC
* * *
3959462 TATCTTCGATCTACTTTGTTGCCAATACAGGAAGACAAGATCTGCTATCTTCAGTCTACCTTGCT
1 TATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCAGTCTACTTTGCT
3959527 GCCAATACAGGAAGACAAGACTTGC
66 GCCAATACAGGAAGACAAGACTTGC
* * *
3959552 TATCTTCGATCTACTTTGCTGCCAATACAGGAAGACAAGATCTGCTATCTTTAGTCTACTTCGCT
1 TATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCAGTCTACTTTGCT
*
3959617 GCCAATACAGGAAGATAAGACTTGC
66 GCCAATACAGGAAGACAAGACTTGC
* * * * *
3959642 TATCTTCGATCTACTTTGCTGCCAATACAGGAAGACAATATATGTTATCTTCAGTCTATTTTGCT
1 TATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCAGTCTACTTTGCT
*
3959707 GCCAATACAGGAAGATAAGACTTGC
66 GCCAATACAGGAAGACAAGACTTGC
* *
3959732 TATCTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCAGTCTACTTCGCT
1 TATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCAGTCTACTTTGCT
3959797 GCCAATACAGGAAGACAAGACTTGC
66 GCCAATACAGGAAGACAAGACTTGC
* * **
3959822 TATCTTCGATCTACTTCGCTACCAATACAGGAAGACAATATCTATTATCTTCAGTCTACTTTGCT
1 TATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCAGTCTACTTTGCT
3959887 GCCAATACAGGAAGACAAGACTTGC
66 GCCAATACAGGAAGACAAGACTTGC
*
3959912 TATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTACTAT
1 TATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTAT
3959960 AATGACTTCA
Statistics
Matches: 546, Mismatches: 41, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
90 545 1.00
91 1 0.00
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.29
Consensus pattern (90 bp):
TATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCAGTCTACTTTGCT
GCCAATACAGGAAGACAAGACTTGC
Found at i:3964641 original size:31 final size:31
Alignment explanation
Indices: 3964584--3964643 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
3964574 GGAGGTGGGA
*
3964584 TGGGAAGGGAATAAAAGTTTTAGGGAAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGAAAAAG
* * *
3964615 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGAAAAA
3964644 TAAAAGGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.42, C:0.00, G:0.38, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGAAAAAG
Found at i:3964871 original size:9 final size:9
Alignment explanation
Indices: 3964857--3964893 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
3964847 TATAGTTTGA
3964857 TATTCGAAT
1 TATTCGAAT
3964866 TATTCGAAT
1 TATTCGAAT
*
3964875 TATTCGAGT
1 TATTCGAAT
3964884 TATTCGAAT
1 TATTCGAAT
3964893 T
1 T
3964894 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:3965038 original size:16 final size:16
Alignment explanation
Indices: 3965017--3965047 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
3965007 CACCCCTAGT
3965017 GTTTAACTCGAAATTA
1 GTTTAACTCGAAATTA
3965033 GTTTAACTCGAAATT
1 GTTTAACTCGAAATT
3965048 CAAATTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (16 bp):
GTTTAACTCGAAATTA
Found at i:3972308 original size:500 final size:500
Alignment explanation
Indices: 3971352--3972342 Score: 1784
Period size: 500 Copynumber: 2.0 Consensus size: 500
3971342 TCGTACCAAA
* *
3971352 CTCGGACGGCCGCATTATCTTCCACTTTACCAAGAAACTCCCTTTCCATGTTGAGTTCTCTATTT
1 CTCGAACGGCCGCACTATCTTCCACTTTACCAAGAAACTCCCTTTCCATGTTGAGTTCTCTATTT
3971417 AAATAATGAACACGAATCAACACCTCTTTTATAATGAGAATGCCATGCAATCACAATCAAGGTAA
66 AAATAATGAACACGAATCAACACCTCTTTTATAATGAGAATGCCATGCAATCACAATCAAGGTAA
3971482 AAGCAAAGCAAGTCAATATAACAATAAACTAAAATTTAAAGTATACAAGGAATAATAATTAAAGC
131 AAGCAAAGCAAGTCAATATAACAATAAACTAAAATTTAAAGTATACAAGGAATAATAATTAAAGC
*
3971547 TACTATTCAGGAAACTACTAGGGTTTGAGGTGGTTCTACCTAGGGTAGGCTCCTAGGGCTCATTA
196 TACTATTCAGGAAACTACTAGGGTTCGAGGTGGTTCTACCTAGGGTAGGCTCCTAGGGCTCATTA
**
3971612 AATGCGGTTCGGCTCTAAAACAAAGGTACCCGAACCAGTAAATTCCTCTATCCTCACCCATTATA
261 AATGCGGTTCGGCTCTAAAACAAAGGTACCCGAACCAACAAATTCCTCTATCCTCACCCATTATA
** *
3971677 GGCTCATACGGAGTGAGTTCGGTTCAGGGGAATACATTTCCCTATGGCTGCACGGAGATGAAAAT
326 GGCTCATACGGAACGAGTTCGGTTCAGGGGAATACATTTCCCTATGGCTGCACGAAGATGAAAAT
* *
3971742 CTCATGAATACATAGGTACAGATGTATCCCGAAAGCGATCCGCTATCCTGCACGAAGGTGAAAAC
391 CTCATGAAGACATAGGTACAGATGTATCCCGAAAGCGATCCGCTATCCTACACGAAGGTGAAAAC
*
3971807 CTCACGAATGAGTAGCTTCTCACTCCCACTTAAAAGGGTGAAAAC
456 CTCACGAAGGAGTAGCTTCTCACTCCCACTTAAAAGGGTGAAAAC
*
3971852 CTCGAACGGCTGCACTATCTTCCACTTTACCAAGAAACTCCCTTTCCATGTTGAGTTCTCTATTT
1 CTCGAACGGCCGCACTATCTTCCACTTTACCAAGAAACTCCCTTTCCATGTTGAGTTCTCTATTT
* * *
3971917 AAATAATGAACGCGAATCAACACCTCTTTTATGATGAGAATGTCATGCAATCACAATCAAGGTAA
66 AAATAATGAACACGAATCAACACCTCTTTTATAATGAGAATGCCATGCAATCACAATCAAGGTAA
*
3971982 AAGCAAAGCAAGTCAGTATAACAATAAACTAAAATTTAAAGTATACAAGGAATAATAATTAAAGC
131 AAGCAAAGCAAGTCAATATAACAATAAACTAAAATTTAAAGTATACAAGGAATAATAATTAAAGC
3972047 TACTATTCAGGAAACTACTAGGGTTCGAGGTGGTTCTACCTAGGGTAGGCTCCTAGGGCTCATTA
196 TACTATTCAGGAAACTACTAGGGTTCGAGGTGGTTCTACCTAGGGTAGGCTCCTAGGGCTCATTA
* *
3972112 CATGCGGTTCGGCTCTAAAGCAAAGGTACCCGAACCAACAAATTCCTCTATCCTCACCCATTATA
261 AATGCGGTTCGGCTCTAAAACAAAGGTACCCGAACCAACAAATTCCTCTATCCTCACCCATTATA
3972177 GGCTCATACGGAACGAGTTCGGTTCAGGGGAATACATTTCCCTATGGCTGCACGAAGATGAAAAT
326 GGCTCATACGGAACGAGTTCGGTTCAGGGGAATACATTTCCCTATGGCTGCACGAAGATGAAAAT
** *
3972242 CTCATGAAGACATAGGTATGGATGTATCCCGAAAGCGATCCGCTATCCTACACGGAGGTGAAAAC
391 CTCATGAAGACATAGGTACAGATGTATCCCGAAAGCGATCCGCTATCCTACACGAAGGTGAAAAC
*
3972307 CTCACGAAGGAGTAGCTTCTCACTCTCACTTAAAAG
456 CTCACGAAGGAGTAGCTTCTCACTCCCACTTAAAAG
3972343 AGTGTGACCA
Statistics
Matches: 469, Mismatches: 22, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
500 469 1.00
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.25
Consensus pattern (500 bp):
CTCGAACGGCCGCACTATCTTCCACTTTACCAAGAAACTCCCTTTCCATGTTGAGTTCTCTATTT
AAATAATGAACACGAATCAACACCTCTTTTATAATGAGAATGCCATGCAATCACAATCAAGGTAA
AAGCAAAGCAAGTCAATATAACAATAAACTAAAATTTAAAGTATACAAGGAATAATAATTAAAGC
TACTATTCAGGAAACTACTAGGGTTCGAGGTGGTTCTACCTAGGGTAGGCTCCTAGGGCTCATTA
AATGCGGTTCGGCTCTAAAACAAAGGTACCCGAACCAACAAATTCCTCTATCCTCACCCATTATA
GGCTCATACGGAACGAGTTCGGTTCAGGGGAATACATTTCCCTATGGCTGCACGAAGATGAAAAT
CTCATGAAGACATAGGTACAGATGTATCCCGAAAGCGATCCGCTATCCTACACGAAGGTGAAAAC
CTCACGAAGGAGTAGCTTCTCACTCCCACTTAAAAGGGTGAAAAC
Found at i:3979455 original size:18 final size:19
Alignment explanation
Indices: 3979419--3979455 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
3979409 TGATTGTCGG
*
3979419 AGGTGAAATGAACACATAT
1 AGGTGAAATCAACACATAT
3979438 AGGTGAAATCAA-ACATAT
1 AGGTGAAATCAACACATAT
3979456 TTCAGGATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.49, C:0.11, G:0.19, T:0.22
Consensus pattern (19 bp):
AGGTGAAATCAACACATAT
Found at i:3979710 original size:31 final size:30
Alignment explanation
Indices: 3979675--3979740 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
3979665 TTAATAAAAG
* * *
3979675 TAAAATTGTATTTTGATTTCTTTAAAAATTA
1 TAAAATTGTAATTT-AATCCTTTAAAAATTA
*
3979706 TAAAATTTTAATTTAATCCTTTAAAAATTA
1 TAAAATTGTAATTTAATCCTTTAAAAATTA
3979736 TAAAA
1 TAAAA
3979741 ATATAGACTA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 19 0.61
31 12 0.39
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (30 bp):
TAAAATTGTAATTTAATCCTTTAAAAATTA
Found at i:3980319 original size:22 final size:23
Alignment explanation
Indices: 3980290--3980340 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
3980280 AATTTATTTT
* *
3980290 ATAA-TAAGATGATAT-TTTATA
1 ATAATTAAGATCATATATATATA
3980311 ATAATTAAGATCATATATATATA
1 ATAATTAAGATCATATATATATA
3980334 A-AATTAA
1 ATAATTAA
3980341 TGATAAACAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 4 0.15
22 16 0.62
23 6 0.23
ACGTcount: A:0.53, C:0.02, G:0.06, T:0.39
Consensus pattern (23 bp):
ATAATTAAGATCATATATATATA
Found at i:3980497 original size:22 final size:23
Alignment explanation
Indices: 3980453--3980506 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
3980443 AATAATTTAA
*
3980453 ATAAATACTCATATTTATATAAT
1 ATAAATATTCATATTTATATAAT
*
3980476 -TAAAATATTCATATTT-TTTAAT
1 AT-AAATATTCATATTTATATAAT
3980498 ATAAATATT
1 ATAAATATT
3980507 TATTATTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 13 0.48
23 14 0.52
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.48
Consensus pattern (23 bp):
ATAAATATTCATATTTATATAAT
Found at i:3980502 original size:23 final size:23
Alignment explanation
Indices: 3980447--3980506 Score: 72
Period size: 22 Copynumber: 2.7 Consensus size: 23
3980437 GCAAAGAATA
*
3980447 ATTTAA-ATAAATACTCATATTT
1 ATTTAATATAAATATTCATATTT
*
3980469 ATATAAT-TAAAATATTCATATTT
1 ATTTAATAT-AAATATTCATATTT
3980492 -TTTAATATAAATATT
1 ATTTAATATAAATATT
3980507 TATTATTAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
22 18 0.56
23 14 0.44
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.48
Consensus pattern (23 bp):
ATTTAATATAAATATTCATATTT
Found at i:3980595 original size:17 final size:17
Alignment explanation
Indices: 3980548--3980598 Score: 61
Period size: 18 Copynumber: 3.0 Consensus size: 17
3980538 ACTTTTTAAT
3980548 ATTA-AATAATTTATTA
1 ATTATAATAATTTATTA
*
3980564 A-AATAATAAATTTTATTA
1 ATTATAAT-AA-TTTATTA
3980582 ATTATAATAATTTATTA
1 ATTATAATAATTTATTA
3980599 TGTTATTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
15 1 0.03
16 4 0.14
17 9 0.31
18 10 0.34
19 5 0.17
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
ATTATAATAATTTATTA
Found at i:4017483 original size:36 final size:36
Alignment explanation
Indices: 4017431--4017517 Score: 156
Period size: 36 Copynumber: 2.4 Consensus size: 36
4017421 CCCAACTACT
* *
4017431 GTATACGTGAACAGTACTGTATACGTGAATAGTGTC
1 GTATACGTGAATAGTACTGTATACGTGAATAGTGCC
4017467 GTATACGTGAATAGTACTGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACTGTATACGTGAATAGTGCC
4017503 GTATACGTGAATAGT
1 GTATACGTGAATAGT
4017518 GCCGTAAACG
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 49 1.00
ACGTcount: A:0.31, C:0.13, G:0.25, T:0.31
Consensus pattern (36 bp):
GTATACGTGAATAGTACTGTATACGTGAATAGTGCC
Found at i:4017518 original size:18 final size:18
Alignment explanation
Indices: 4017431--4017523 Score: 132
Period size: 18 Copynumber: 5.2 Consensus size: 18
4017421 CCCAACTACT
* * *
4017431 GTATACGTGAACAGTACT
1 GTATACGTGAATAGTGCC
*
4017449 GTATACGTGAATAGTGTC
1 GTATACGTGAATAGTGCC
* *
4017467 GTATACGTGAATAGTACT
1 GTATACGTGAATAGTGCC
4017485 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTGCC
4017503 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTGCC
4017521 GTA
1 GTA
4017524 AACGGTCGTA
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 66 1.00
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (18 bp):
GTATACGTGAATAGTGCC
Found at i:4018888 original size:17 final size:17
Alignment explanation
Indices: 4018866--4018899 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
4018856 AAGGAGGACT
4018866 ATAATAAT-ATAATCATA
1 ATAATAATCAT-ATCATA
4018883 ATAATAATCATATCATA
1 ATAATAATCATATCATA
4018900 GGAATAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 14 0.88
18 2 0.12
ACGTcount: A:0.56, C:0.09, G:0.00, T:0.35
Consensus pattern (17 bp):
ATAATAATCATATCATA
Found at i:4019828 original size:45 final size:45
Alignment explanation
Indices: 4019760--4019963 Score: 234
Period size: 44 Copynumber: 4.6 Consensus size: 45
4019750 GTGGATCCTA
*
4019760 GCTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATAT
1 GCTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATCT
** * * * *
4019805 TTTCTACAGCAACTTCATG-GAGATAAGATTT-ATAGCTTTAATCT
1 GCTCTACTGCAACTTCA-GAGAGATAAGATTTGCTATCTTCAATCT
* *
4019849 GCTCTACTGCAATTTCAGAGAGATAAGATTTTCTATCTTCAATCT
1 GCTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATCT
* * *
4019894 GCTCCACTGCAAATTCAGGGAGATAAGATTTG-TATCTTCAATCT
1 GCTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATCT
* * * *
4019938 ACTCCACTGCCACTTCAGGGAGATAA
1 GCTCTACTGCAACTTCAGAGAGATAA
4019964 TATTCGTAAC
Statistics
Matches: 135, Mismatches: 21, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
43 1 0.01
44 69 0.51
45 64 0.47
46 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.33
Consensus pattern (45 bp):
GCTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATCT
Found at i:4019916 original size:89 final size:89
Alignment explanation
Indices: 4019760--4019963 Score: 264
Period size: 89 Copynumber: 2.3 Consensus size: 89
4019750 GTGGATCCTA
** * * *
4019760 GCTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATATTTTCTACAGCAACTTCATGG
1 GCTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATATGCTCCACAGCAAATTCAGGG
*
4019825 AGATAAGATTTATAGCTTTAATCT
66 AGATAAGATTTATAGCTTCAATCT
* * * *
4019849 GCTCTACTGCAATTTCAGAGAGATAAGATTTTCTATCTTCAATCTGCTCCACTGCAAATTCAGGG
1 GCTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATATGCTCCACAGCAAATTCAGGG
* *
4019914 AGATAAGATTTGTATCTTCAATCT
66 AGATAAGATTTATAGCTTCAATCT
* * * *
4019938 ACTCCACTGCCACTTCAGGGAGATAA
1 GCTCTACTGCAACTTCAGAGAGATAA
4019964 TATTCGTAAC
Statistics
Matches: 98, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
89 98 1.00
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.33
Consensus pattern (89 bp):
GCTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATATGCTCCACAGCAAATTCAGGG
AGATAAGATTTATAGCTTCAATCT
Found at i:4022217 original size:51 final size:50
Alignment explanation
Indices: 4022129--4022408 Score: 380
Period size: 51 Copynumber: 5.4 Consensus size: 50
4022119 TCGGGCTGTT
* *
4022129 ACAAGTGACAAGTGATAAGTAGTAGCTTCAGCCACACTTATCTGATCAGTG
1 ACAAGTGACAAGTGATAAGT-GTAGCTTTAGCTACACTTATCTGATCAGTG
*
4022180 ACAAATGACAAGTGATAAGTAGTAGCTTTAGCTACACTTATCTGACCAGTGACAAGTG
1 ACAAGTGACAAGTGATAAGT-GTAGCTTTAGCTACACTTATCTG---A-T--C-AGTG
4022238 ACAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTG
1 ACAAGTGACAAGTGATAAGT-GTAGCTTTAGCTACACTTATCTGATCAGTG
* *
4022289 ACAAGTAACAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAGGG
1 ACAAGTGACAAGTGATAAGTG-TAGCTTTAGCTACACTTATCTGATCAGTG
* * *
4022340 ACAAGTGACAAGTGATAAGTGATAGATTTAGCTACACTTATCTGATTAGGG
1 ACAAGTGACAAGTGATAAGTG-TAGCTTTAGCTACACTTATCTGATCAGTG
4022391 ACAAGTGACAAGTGATAA
1 ACAAGTGACAAGTGATAA
4022409 ATGTGATCCG
Statistics
Matches: 211, Mismatches: 10, Indels: 16
0.89 0.04 0.07
Matches are distributed among these distances:
50 1 0.00
51 158 0.75
52 1 0.00
54 2 0.01
55 2 0.01
57 1 0.00
58 46 0.22
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.27
Consensus pattern (50 bp):
ACAAGTGACAAGTGATAAGTGTAGCTTTAGCTACACTTATCTGATCAGTG
Found at i:4022237 original size:7 final size:7
Alignment explanation
Indices: 4022222--4022258 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
4022212 TACACTTATC
*
4022222 TGACCAG
1 TGACAAG
4022229 TGACAAG
1 TGACAAG
4022236 TGACAAG
1 TGACAAG
4022243 TGACAAG
1 TGACAAG
*
4022250 TGATAAG
1 TGACAAG
4022257 TG
1 TG
4022259 GTAGCTTTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.38, C:0.14, G:0.30, T:0.19
Consensus pattern (7 bp):
TGACAAG
Found at i:4022315 original size:109 final size:102
Alignment explanation
Indices: 4022129--4022408 Score: 391
Period size: 109 Copynumber: 2.7 Consensus size: 102
4022119 TCGGGCTGTT
* * * *
4022129 ACAAGTGACAAGTGATAAGTAGTAGCTTCAGCCACACTTATCTGATCAGTGACAAATGACAAGTG
1 ACAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGACAAGTG
*
4022194 ATAAGTAGTAGCTTTAGCTACACTTATCTGACCAGTGACAAGTG
66 ATAAGTAGTAGCTTTAGCTACACTTATCTG---A-T--C-AGGG
*
4022238 ACAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTAACAAGTG
1 ACAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGACAAGTG
4022303 ATAAGT-GATAGCTTTAGCTACACTTATCTGATCAGGG
66 ATAAGTAG-TAGCTTTAGCTACACTTATCTGATCAGGG
* * * *
4022340 ACAAGTGACAAGTGATAAGTGATAGATTTAGCTACACTTATCTGATTAGGGACAAGTGACAAGTG
1 ACAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGACAAGTG
4022405 ATAA
66 ATAA
4022409 ATGTGATCCG
Statistics
Matches: 159, Mismatches: 11, Indels: 9
0.89 0.06 0.05
Matches are distributed among these distances:
102 67 0.42
103 1 0.01
105 1 0.01
106 1 0.01
108 1 0.01
109 88 0.55
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.27
Consensus pattern (102 bp):
ACAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGACAAGTG
ATAAGTAGTAGCTTTAGCTACACTTATCTGATCAGGG
Found at i:4023142 original size:45 final size:45
Alignment explanation
Indices: 4023051--4023148 Score: 124
Period size: 45 Copynumber: 2.2 Consensus size: 45
4023041 GGGTAAGGGG
* **
4023051 TGTTACACTGCAACTTCAGGGAAATAAGATTCGCTATCTTTAATC
1 TGTTACACTGCAACTTCAGGGAAATAAGATTAGCTATCACTAATC
* * * * *
4023096 TGTTACACTGCAACTTTAGGGAGATAAGATTAGGTTTCACTGATC
1 TGTTACACTGCAACTTCAGGGAAATAAGATTAGCTATCACTAATC
4023141 TGTTACAC
1 TGTTACAC
4023149 CATTCTCTAG
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (45 bp):
TGTTACACTGCAACTTCAGGGAAATAAGATTAGCTATCACTAATC
Found at i:4036848 original size:16 final size:16
Alignment explanation
Indices: 4036827--4036857 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
4036817 TGCCATTTCG
4036827 GAATTTCCTTTTTCAT
1 GAATTTCCTTTTTCAT
4036843 GAATTTCCTTTTTCA
1 GAATTTCCTTTTTCA
4036858 GATAGTTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.19, G:0.06, T:0.55
Consensus pattern (16 bp):
GAATTTCCTTTTTCAT
Found at i:4040784 original size:3 final size:3
Alignment explanation
Indices: 4040766--4040816 Score: 59
Period size: 3 Copynumber: 17.3 Consensus size: 3
4040756 TTAAATATCC
* * * *
4040766 TTA TTA TTT TTA -TA TTA TTA GTA TTA TTA GTA TTA TTA TTA TTA TAA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
4040813 TTA T
1 TTA T
4040817 GTACTAGTGT
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
2 2 0.05
3 37 0.95
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:4041091 original size:38 final size:37
Alignment explanation
Indices: 4041007--4041100 Score: 95
Period size: 38 Copynumber: 2.5 Consensus size: 37
4040997 TATACATACT
4041007 TATACATACTTAAATATATTTTCCATATTTCATAATTC
1 TATACATACTTAAATATATTTTCCATATTT-ATAATTC
* * *
4041045 T-TATATACTTACATATATTTATGCATATTT-TACA-TC
1 TATACATACTTAAATATATTT-TCCATATTTATA-ATTC
*
4041081 ATATACATACTTATATATAT
1 -TATACATACTTAAATATAT
4041101 ATTCTTTATA
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
36 4 0.09
37 19 0.40
38 24 0.51
ACGTcount: A:0.37, C:0.14, G:0.01, T:0.48
Consensus pattern (37 bp):
TATACATACTTAAATATATTTTCCATATTTATAATTC
Found at i:4043349 original size:23 final size:21
Alignment explanation
Indices: 4043314--4043364 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 21
4043304 TTAGCCTCTC
4043314 CATTTTTACTTTTTTCCATTTT
1 CATTTTTACTTTTTTCCA-TTT
*
4043336 CTATTTTT-CATTTTTTTCATTT
1 C-ATTTTTAC-TTTTTTCCATTT
4043358 CATTTTT
1 CATTTTT
4043365 TTTACGACTC
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 6 0.23
22 6 0.23
23 14 0.54
ACGTcount: A:0.14, C:0.16, G:0.00, T:0.71
Consensus pattern (21 bp):
CATTTTTACTTTTTTCCATTT
Found at i:4043867 original size:13 final size:13
Alignment explanation
Indices: 4043849--4043897 Score: 57
Period size: 13 Copynumber: 3.8 Consensus size: 13
4043839 TTTTTGTTTC
*
4043849 TTTTTGTTTTTAT
1 TTTTTGTTCTTAT
*
4043862 TTTTTGTTCTTGT
1 TTTTTGTTCTTAT
4043875 TTTTTGTTCTT-T
1 TTTTTGTTCTTAT
4043887 TCTTTT-TTCTT
1 T-TTTTGTTCTT
4043898 TTCTTTTCTT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
12 7 0.21
13 26 0.79
ACGTcount: A:0.02, C:0.08, G:0.08, T:0.82
Consensus pattern (13 bp):
TTTTTGTTCTTAT
Found at i:4043891 original size:5 final size:5
Alignment explanation
Indices: 4043881--4043926 Score: 53
Period size: 5 Copynumber: 9.4 Consensus size: 5
4043871 TTGTTTTTTG
4043881 TTCTT TTCTTTT TTCTT TTCTT TTCTT TTC-T TTC-T TTCTT TT-TT TT
1 TTCTT TTC--TT TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT TT
4043927 GGAATTGAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
4 12 0.32
5 21 0.55
7 5 0.13
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (5 bp):
TTCTT
Found at i:4043894 original size:35 final size:36
Alignment explanation
Indices: 4043839--4043923 Score: 97
Period size: 35 Copynumber: 2.4 Consensus size: 36
4043829 CCGGTAGAGG
4043839 TTTTTGTTTCTTTTTGTTTTTATTTT-TTGTTCTTGT
1 TTTTTGTTTCTTTTTGTTTTTATTTTCTT-TTCTTGT
*
4043875 TTTTTG-TTCTTTTCT-TTTTTCTTTTCTTTTCTT-T
1 TTTTTGTTTCTTTT-TGTTTTTATTTTCTTTTCTTGT
* *
4043909 TCTTTCTTTCTTTTT
1 TTTTTGTTTCTTTTT
4043924 TTTGGAATTG
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
34 6 0.14
35 28 0.65
36 9 0.21
ACGTcount: A:0.01, C:0.12, G:0.06, T:0.81
Consensus pattern (36 bp):
TTTTTGTTTCTTTTTGTTTTTATTTTCTTTTCTTGT
Found at i:4043899 original size:22 final size:22
Alignment explanation
Indices: 4043840--4043926 Score: 81
Period size: 22 Copynumber: 4.0 Consensus size: 22
4043830 CGGTAGAGGT
* * *
4043840 TTTTGTTTCTTT-TTGTTTTTA
1 TTTTCTTTCTTTCTTTTTTTTC
* *
4043861 TTTTTTGTTCTTGT-TTTTTGTTC
1 TTTTCT-TTCTT-TCTTTTTTTTC
4043884 TTTTCTTT-TTTCTTTTCTTTTC
1 TTTTCTTTCTTTCTTTT-TTTTC
4043906 TTTTCTTTCTTTCTTTTTTTT
1 TTTTCTTTCTTTCTTTTTTTT
4043927 GGAATTGAAT
Statistics
Matches: 55, Mismatches: 6, Indels: 9
0.79 0.09 0.13
Matches are distributed among these distances:
20 1 0.02
21 11 0.20
22 23 0.42
23 20 0.36
ACGTcount: A:0.01, C:0.11, G:0.06, T:0.82
Consensus pattern (22 bp):
TTTTCTTTCTTTCTTTTTTTTC
Found at i:4049704 original size:44 final size:45
Alignment explanation
Indices: 4049593--4049879 Score: 129
Period size: 44 Copynumber: 6.6 Consensus size: 45
4049583 ACTTGATGCG
*
4049593 ATCTACTCTACTGCAACTTTAGAGAGATAAGATCTGGATGTTTTA
1 ATCTACTCTACTGCAACTTTAGGGAGATAAGATCTGGATGTTTTA
** * * * * *
4049638 ATCCGCTCCACTGAAACTTTAGGGAGATAGGAT-T-GATTTCTTTT
1 ATCTACTCTACTGCAACTTTAGGGAGATAAGATCTGGATGT-TTTA
* * * **
4049682 GTCTACTCTACTGCAACTTTAGGCAGATAAGA-CTGTATG---CG
1 ATCTACTCTACTGCAACTTTAGGGAGATAAGATCTGGATGTTTTA
* * * *
4049723 ATCTGCTCT-CTGCAACTTCAGAGAGATAAGATAT--ATGGTTTTA
1 ATCTACTCTACTGCAACTTTAGGGAGATAAGATCTGGAT-GTTTTA
** * * * * *
4049766 ATCCGCTCCACTGCAACTTCAAGAAGAT-AGAAT-TGGATG---TG
1 ATCTACTCTACTGCAACTTTAGGGAGATAAG-ATCTGGATGTTTTA
* * * *
4049807 ATCTACTCTACTGTAACTTCAGAGAGATAAGAT-TTG-TGGTTTTA
1 ATCTACTCTACTGCAACTTTAGGGAGATAAGATCTGGAT-GTTTTA
* * * * *
4049851 ACCTGCTCCACTACAACTTTAGAGAGATA
1 ATCTACTCTACTGCAACTTTAGGGAGATA
4049880 GGATTATTGG
Statistics
Matches: 177, Mismatches: 48, Indels: 35
0.68 0.18 0.13
Matches are distributed among these distances:
39 2 0.01
40 21 0.12
41 35 0.20
42 2 0.01
43 14 0.08
44 72 0.41
45 31 0.18
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (45 bp):
ATCTACTCTACTGCAACTTTAGGGAGATAAGATCTGGATGTTTTA
Found at i:4049794 original size:84 final size:85
Alignment explanation
Indices: 4049691--4049869 Score: 220
Period size: 85 Copynumber: 2.1 Consensus size: 85
4049681 TGTCTACTCT
* * * * *
4049691 ACTGCAACTTTAGGCAGATA-AGACTGTATGCGATCTGCTCT-CTGCAACTTCAGAGAGATAAGA
1 ACTGCAACTTCAAGAAGATAGA-ACTGGATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGA
4049754 TATATGGTTTTAATCC-GCTCC
65 TATATGGTTTTAA-CCTGCTCC
* * *
4049775 ACTGCAACTTCAAGAAGATAGAATTGGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGAT
1 ACTGCAACTTCAAGAAGATAGAACTGGATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGAT
* *
4049840 TTGTGGTTTTAACCTGCTCC
66 ATATGGTTTTAACCTGCTCC
*
4049860 ACTACAACTT
1 ACTGCAACTT
4049870 TAGAGAGATA
Statistics
Matches: 81, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
84 34 0.42
85 47 0.58
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (85 bp):
ACTGCAACTTCAAGAAGATAGAACTGGATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGAT
ATATGGTTTTAACCTGCTCC
Found at i:4049818 original size:130 final size:129
Alignment explanation
Indices: 4049508--4049803 Score: 341
Period size: 130 Copynumber: 2.3 Consensus size: 129
4049498 TAGTGCTTCG
* * * * * * *
4049508 ATCCACTCCACTACAACATCAAGAAGATAGAATCGGTTTCTTCTGTCTACTCCATTGCACTTTCA
1 ATCCGCTCCACTGCAACTTCAAGAAGATAGAATTGGATTCATCTGTCTACTCCACTGCACTTTCA
* * *
4049573 GGGAGATAAGACTTGATGCGATCTACTCTACTGCAACTTTAGAGAGATAAGATCTGGATGTTTTA
66 GGCAGATAAGACTTGATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATAT-GATGTTTTA
* * * * * * * *
4049638 ATCCGCTCCACTGAAACTTTAGGGAGATAGGATT-GATTTCTTTTGTCTACTCTACTGCAACTTT
1 ATCCGCTCCACTGCAACTTCAAGAAGATAGAATTGGA-TTCATCTGTCTACTCCACTGC-ACTTT
*
4049702 -AGGCAGATAAGAC-TGTATGCGATCTGCTCT-CTGCAACTTCAGAGAGATAAGATAT-ATGGTT
64 CAGGCAGATAAGACTTG-ATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATATGAT-GTT
4049763 TTA
127 TTA
4049766 ATCCGCTCCACTGCAACTTCAAGAAGATAGAATTGGAT
1 ATCCGCTCCACTGCAACTTCAAGAAGATAGAATTGGAT
4049804 GTGATCTACT
Statistics
Matches: 139, Mismatches: 22, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
127 2 0.01
128 36 0.26
129 28 0.20
130 68 0.49
131 5 0.04
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (129 bp):
ATCCGCTCCACTGCAACTTCAAGAAGATAGAATTGGATTCATCTGTCTACTCCACTGCACTTTCA
GGCAGATAAGACTTGATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATATGATGTTTTA
Found at i:4050024 original size:50 final size:50
Alignment explanation
Indices: 4049968--4050543 Score: 378
Period size: 50 Copynumber: 11.5 Consensus size: 50
4049958 TCGGGGAAAC
* * * *
4049968 AAGATTCACCGTCGTAGCTTCAATCTGTTCCACTACACCACCAGAGAAGT
1 AAGATTCGCCGTCGTAGCTTCAATCTGTTTCACTACACCGCCAGGGAAGT
* * * * * ** ** * * **
4050018 AAGATTCGCTGTTGTGGCTTCAATCTATTTAACTGTAATGTCGGGGAAAC
1 AAGATTCGCCGTCGTAGCTTCAATCTGTTTCACTACACCGCCAGGGAAGT
* * * *
4050068 AAGATTCGCCATCCTAGCTTCAATCTGTTCCACTACACCACCAGGGAAGT
1 AAGATTCGCCGTCGTAGCTTCAATCTGTTTCACTACACCGCCAGGGAAGT
* * * * * ** * * **
4050118 AAGATTCGTCGTTGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAAC
1 AAGATTCGCCGTCGTAGCTTCAATCTGTTTCACTACACCGCCAGGGAAGT
* * *
4050168 AAGATTCGTCGTCGTAGCTTCAATCTGTTTCACTACACCGCTAGAGAAGT
1 AAGATTCGCCGTCGTAGCTTCAATCTGTTTCACTACACCGCCAGGGAAGT
* * * * * ** * * **
4050218 AAGATTCGCCGTTGTGGCTTCAATTTATTTAACTACAATGTCGGGGAAAC
1 AAGATTCGCCGTCGTAGCTTCAATCTGTTTCACTACACCGCCAGGGAAGT
* *
4050268 AAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTACACCGCCAGAGAAGT
1 AAGATTCGCCGTCGTAGCTTCAATCTGTTTCACTACACCGCCAGGGAAGT
* * * * * * ** * * **
4050318 AAGATTCGTCGTTGTGGCTTCAATCTTTTTAACTGCAATGTCGGGGAAAC
1 AAGATTCGCCGTCGTAGCTTCAATCTGTTTCACTACACCGCCAGGGAAGT
* * *
4050368 AAGATTCGCCATCGTAGCTTCAATCTGTTCCATTACACCGCCAGGGAAGT
1 AAGATTCGCCGTCGTAGCTTCAATCTGTTTCACTACACCGCCAGGGAAGT
* * * * * * ** ** * * **
4050418 AAGATTCGCCATTGTGGCTTCAACCTTTTTAACTGTAATGTCGGGGAAAC
1 AAGATTCGCCGTCGTAGCTTCAATCTGTTTCACTACACCGCCAGGGAAGT
* * * * *
4050468 AAGATTCGCCGTCGTAGATTCAATCTATTCCACTACACTGCTAGGGAAGT
1 AAGATTCGCCGTCGTAGCTTCAATCTGTTTCACTACACCGCCAGGGAAGT
* * * *
4050518 AAGATTCACCGTTGTGGTTTCAATCT
1 AAGATTCGCCGTCGTAGCTTCAATCT
4050544 ATTCCATTGT
Statistics
Matches: 374, Mismatches: 152, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
50 374 1.00
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (50 bp):
AAGATTCGCCGTCGTAGCTTCAATCTGTTTCACTACACCGCCAGGGAAGT
Found at i:4050574 original size:100 final size:100
Alignment explanation
Indices: 4049939--4050546 Score: 910
Period size: 100 Copynumber: 6.1 Consensus size: 100
4049929 TGCCATCTTT
* * * *
4049939 AATCTGTTTAATTGCAATATCGGGGAAACAAGATTCACCGTCGTAGCTTCAATCTGTTCCACTAC
1 AATCTATTTAACTGCAATGTCGGGGAAACAAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTAC
* *
4050004 ACCACCAGAGAAGTAAGATTCGCTGTTGTGGCTTC
66 ACCGCCAGAGAAGTAAGATTCGCCGTTGTGGCTTC
* * *
4050039 AATCTATTTAACTGTAATGTCGGGGAAACAAGATTCGCCATCCTAGCTTCAATCTGTTCCACTAC
1 AATCTATTTAACTGCAATGTCGGGGAAACAAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTAC
* * * *
4050104 ACCACCAGGGAAGTAAGATTCGTCGTTGTAGCTTC
66 ACCGCCAGAGAAGTAAGATTCGCCGTTGTGGCTTC
* *
4050139 AATCTATTTAACTGCAATGTCGGGGAAACAAGATTCGTCGTCGTAGCTTCAATCTGTTTCACTAC
1 AATCTATTTAACTGCAATGTCGGGGAAACAAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTAC
*
4050204 ACCGCTAGAGAAGTAAGATTCGCCGTTGTGGCTTC
66 ACCGCCAGAGAAGTAAGATTCGCCGTTGTGGCTTC
* *
4050239 AATTTATTTAACTACAATGTCGGGGAAACAAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTAC
1 AATCTATTTAACTGCAATGTCGGGGAAACAAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTAC
*
4050304 ACCGCCAGAGAAGTAAGATTCGTCGTTGTGGCTTC
66 ACCGCCAGAGAAGTAAGATTCGCCGTTGTGGCTTC
* * *
4050339 AATCTTTTTAACTGCAATGTCGGGGAAACAAGATTCGCCATCGTAGCTTCAATCTGTTCCATTAC
1 AATCTATTTAACTGCAATGTCGGGGAAACAAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTAC
* *
4050404 ACCGCCAGGGAAGTAAGATTCGCCATTGTGGCTTC
66 ACCGCCAGAGAAGTAAGATTCGCCGTTGTGGCTTC
* * * * *
4050439 AACCTTTTTAACTGTAATGTCGGGGAAACAAGATTCGCCGTCGTAGATTCAATCTATTCCACTAC
1 AATCTATTTAACTGCAATGTCGGGGAAACAAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTAC
* * * * *
4050504 ACTGCTAGGGAAGTAAGATTCACCGTTGTGGTTTC
66 ACCGCCAGAGAAGTAAGATTCGCCGTTGTGGCTTC
4050539 AATCTATT
1 AATCTATT
4050547 CCATTGTAAT
Statistics
Matches: 460, Mismatches: 48, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
100 460 1.00
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (100 bp):
AATCTATTTAACTGCAATGTCGGGGAAACAAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTAC
ACCGCCAGAGAAGTAAGATTCGCCGTTGTGGCTTC
Found at i:4050897 original size:88 final size:87
Alignment explanation
Indices: 4050744--4051081 Score: 447
Period size: 88 Copynumber: 3.9 Consensus size: 87
4050734 TAATACTGGT
* * * *
4050744 GTCTTCGATCTACTTCACTGCCAGTA-A-G--G-CAAGATCTGCCATTTTTCAACCTACTCCACT
1 GTCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTTCTA-TTTTCAACCTACTCCACT
4050804 ACTGCTCAGGGAGACAATGCT-AG
65 ACTGCTCAGGGAGACAA-GCTAAG
* * *
4050827 TATCTTCAATCTACTTCGCTGCCAATACAGGAAAACAAGATCTTCTATTTTCAACCTACTCCACT
1 -GTCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTTCTATTTTCAACCTACTCCACT
* *
4050892 GCTGCTCAGGGAGATAAGGCTAAG
65 ACTGCTCAGGGAGACAA-GCTAAG
* *
4050916 GTCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTA
1 GTCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTTCTATTTTCAACCTACTCCACTA
*
4050981 CTGCTCAGGGAGACAAGACTGAG
66 CTGCTCAGGGAGACAAG-CTAAG
*
4051004 GTCTTCGATCTACTTCGCTGCCAATACATGAAGACAAGAT-TTGCTATTTTCAACCTACTCCACT
1 GTCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTT-CTATTTTCAACCTACTCCACT
*
4051068 ACTGCTTAGGGAGA
65 ACTGCTCAGGGAGA
4051082 TCGAATTTAT
Statistics
Matches: 224, Mismatches: 22, Indels: 12
0.87 0.09 0.05
Matches are distributed among these distances:
84 22 0.10
85 1 0.00
86 1 0.00
87 2 0.01
88 186 0.83
89 12 0.05
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.28
Consensus pattern (87 bp):
GTCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTTCTATTTTCAACCTACTCCACTA
CTGCTCAGGGAGACAAGCTAAG
Found at i:4050984 original size:176 final size:172
Alignment explanation
Indices: 4050744--4051082 Score: 506
Period size: 176 Copynumber: 1.9 Consensus size: 172
4050734 TAATACTGGT
*
4050744 GTCTTCGATCTACTTCACTGCCAGTAAGGCAAGATCTGCCATTTTTCAACCTACTCCACTACTGC
1 GTCTTCGATCTACTTCACTGCCAATAAGGCAAGATCTGCCATTTTTCAACCTACTCCACTACTGC
4050809 TCAGGGAGACAATG-CT-AGTATCTTCAATCTACTTCGCTGCCAATACAGGAAAACAAGATCTT-
66 TCAGGGAGACAA-GACTGAG-ATCTTCAATCTACTTCGCTGCCAATACAGGAAAACAAGAT-TTG
*
4050871 CTATTTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTAAG
128 CTATTTTCAACCTACTCCACTACTGCTCAGGGAGATAAGGCTAAG
*
4050916 GTCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTA-TTTTCAACCTACTCCACT
1 GTCTTCGATCTACTTCACTGCCAATA-A-G--G-CAAGATCTGCCATTTTTCAACCTACTCCACT
* * * *
4050980 ACTGCTCAGGGAGACAAGACTGAGGTCTTCGATCTACTTCGCTGCCAATACATGAAGACAAGATT
61 ACTGCTCAGGGAGACAAGACTGAGATCTTCAATCTACTTCGCTGCCAATACAGGAAAACAAGATT
*
4051045 TGCTATTTTCAACCTACTCCACTACTGCTTAGGGAGAT
126 TGCTATTTTCAACCTACTCCACTACTGCTCAGGGAGAT
4051083 CGAATTTATG
Statistics
Matches: 151, Mismatches: 8, Indels: 12
0.88 0.05 0.07
Matches are distributed among these distances:
172 25 0.17
173 1 0.01
174 1 0.01
175 3 0.02
176 108 0.72
177 13 0.09
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.28
Consensus pattern (172 bp):
GTCTTCGATCTACTTCACTGCCAATAAGGCAAGATCTGCCATTTTTCAACCTACTCCACTACTGC
TCAGGGAGACAAGACTGAGATCTTCAATCTACTTCGCTGCCAATACAGGAAAACAAGATTTGCTA
TTTTCAACCTACTCCACTACTGCTCAGGGAGATAAGGCTAAG
Found at i:4050995 original size:44 final size:44
Alignment explanation
Indices: 4050773--4051081 Score: 142
Period size: 45 Copynumber: 7.0 Consensus size: 44
4050763 GCCAGTAAGG
* *
4050773 CAAGATCTGCCATTTTTCAACCTACTCCACTACTGCTCAGGGAGA
1 CAAGATCTGCTA-TTTTCAACCTACTCCACTGCTGCTCAGGGAGA
* * * * *** * *
4050818 C-A-ATGCTAG-TATCTTCAATCTACTTCGCTGCCAATACAGGAAAA
1 CAAGAT-CT-GCTATTTTCAACCTACTCCACTGCTGCT-CAGGGAGA
*
4050862 CAAGATCTTCTATTTTCAACCTACTCCACTGCTGCTCAGGGAGA
1 CAAGATCTGCTATTTTCAACCTACTCCACTGCTGCTCAGGGAGA
* * **** * * * * *** *
4050906 TAAG-GCTAAGGTCTTCGATCTACTTCACTGCCAATACAGGAAGA
1 CAAGATCTGCTATTTTCAACCTACTCCACTGCTGCT-CAGGGAGA
*
4050950 CAAGATCTGCTATTTTCAACCTACTCCACTACTGCTCAGGGAGA
1 CAAGATCTGCTATTTTCAACCTACTCCACTGCTGCTCAGGGAGA
*** * * * * * *** * *
4050994 CAAGA-CTGAGGTCTTCGATCTACTTCGCTGCCAATACATGAAGA
1 CAAGATCTGCTATTTTCAACCTACTCCACTGCTGCT-CAGGGAGA
* * *
4051038 CAAGATTTGCTATTTTCAACCTACTCCACTACTGCTTAGGGAGA
1 CAAGATCTGCTATTTTCAACCTACTCCACTGCTGCTCAGGGAGA
4051082 TCGAATTTAT
Statistics
Matches: 174, Mismatches: 80, Indels: 21
0.63 0.29 0.08
Matches are distributed among these distances:
43 55 0.32
44 58 0.33
45 59 0.34
46 2 0.01
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.28
Consensus pattern (44 bp):
CAAGATCTGCTATTTTCAACCTACTCCACTGCTGCTCAGGGAGA
Found at i:4054136 original size:22 final size:23
Alignment explanation
Indices: 4054098--4054140 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 23
4054088 AAAGAATCAT
4054098 AAAAATTATAGACAAAATTTATG
1 AAAAATTATAGACAAAATTTATG
4054121 AAAAAGTTATA-A-AAAATTTA
1 AAAAA-TTATAGACAAAATTTA
4054141 AAATTATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 8 0.42
23 6 0.32
24 5 0.26
ACGTcount: A:0.60, C:0.02, G:0.07, T:0.30
Consensus pattern (23 bp):
AAAAATTATAGACAAAATTTATG
Found at i:4054299 original size:11 final size:12
Alignment explanation
Indices: 4054278--4054314 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
4054268 TAAATTTAAA
4054278 TTTTTATAACTT
1 TTTTTATAACTT
4054290 TTTTTA-AACTT
1 TTTTTATAACTT
*
4054301 TGTTTATAA-TT
1 TTTTTATAACTT
4054312 TTT
1 TTT
4054315 ATGATTTTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
11 14 0.64
12 8 0.36
ACGTcount: A:0.24, C:0.05, G:0.03, T:0.68
Consensus pattern (12 bp):
TTTTTATAACTT
Found at i:4056022 original size:44 final size:44
Alignment explanation
Indices: 4055963--4056047 Score: 118
Period size: 44 Copynumber: 1.9 Consensus size: 44
4055953 CCTCATAGAT
* *
4055963 ACGGCACAGGATTCTGCTCAAACAGACTGCGGATGGTGTCATAC
1 ACGGCACAGGATTCTGCTCAAACAGACTGCGAATAGTGTCATAC
* *
4056007 ACGGCACA-GATTTCTGTTCAAACAGGCTGCGAATAGTGTCA
1 ACGGCACAGGA-TTCTGCTCAAACAGACTGCGAATAGTGTCA
4056048 GCTATCGGGT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
43 2 0.06
44 34 0.94
ACGTcount: A:0.28, C:0.24, G:0.26, T:0.22
Consensus pattern (44 bp):
ACGGCACAGGATTCTGCTCAAACAGACTGCGAATAGTGTCATAC
Found at i:4056607 original size:20 final size:19
Alignment explanation
Indices: 4056584--4056627 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
4056574 TAATATAAAA
4056584 TTTGAAATTTTTATAAATAT
1 TTTGAAATTTTTATAAAT-T
** *
4056604 TTTGATTTTTTTTTAAATT
1 TTTGAAATTTTTATAAATT
4056623 TTTGA
1 TTTGA
4056628 GAGAGAGTGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.64
Consensus pattern (19 bp):
TTTGAAATTTTTATAAATT
Found at i:4067882 original size:19 final size:19
Alignment explanation
Indices: 4067858--4067895 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
4067848 AGCCTTACCC
4067858 ATATCAACAATACTATGAA
1 ATATCAACAATACTATGAA
4067877 ATATCAACAATACTATGAA
1 ATATCAACAATACTATGAA
4067896 TCTTGCATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.53, C:0.16, G:0.05, T:0.26
Consensus pattern (19 bp):
ATATCAACAATACTATGAA
Found at i:4068768 original size:37 final size:38
Alignment explanation
Indices: 4068700--4068779 Score: 94
Period size: 37 Copynumber: 2.1 Consensus size: 38
4068690 AAATAGTCCC
* * *
4068700 TAAAATTTTAATTTTATAGTTTTTACGATTTAA-TCTT
1 TAAAATTTTAATTTTATAGTTCTTACAATTTAATTCCT
4068737 TAAAATTTTAATTTTTACTA-TTCTT-CAATTTAATTCCT
1 TAAAATTTTAA-TTTTA-TAGTTCTTACAATTTAATTCCT
4068775 TAAAA
1 TAAAA
4068780 ACAGATTTTC
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
37 18 0.49
38 17 0.46
39 2 0.05
ACGTcount: A:0.35, C:0.09, G:0.03, T:0.54
Consensus pattern (38 bp):
TAAAATTTTAATTTTATAGTTCTTACAATTTAATTCCT
Found at i:4069829 original size:21 final size:21
Alignment explanation
Indices: 4069777--4069830 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 21
4069767 TCTAGTAAAA
*
4069777 TAAATAAATAATTCATGAAGT
1 TAAAAAAATAATTCATGAAGT
* *
4069798 TAAAAATAATAATTC-TTAATT
1 TAAAAA-AATAATTCATGAAGT
4069819 TAAAGAAAATAA
1 TAAA-AAAATAA
4069831 ATGTAATTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
21 18 0.64
22 10 0.36
ACGTcount: A:0.57, C:0.04, G:0.06, T:0.33
Consensus pattern (21 bp):
TAAAAAAATAATTCATGAAGT
Found at i:4089886 original size:11 final size:11
Alignment explanation
Indices: 4089870--4089939 Score: 65
Period size: 11 Copynumber: 6.5 Consensus size: 11
4089860 ATTTTAAAAA
4089870 TTAAAAATATT
1 TTAAAAATATT
4089881 TTAAAAATATT
1 TTAAAAATATT
4089892 TT--AAA-ATT
1 TTAAAAATATT
** * **
4089900 AAAAAAAAAAG
1 TTAAAAATATT
4089911 TTAAAAAGTATT
1 TTAAAAA-TATT
4089923 TTAAAAATATT
1 TTAAAAATATT
4089934 TTAAAA
1 TTAAAA
4089940 TTAAAACAAA
Statistics
Matches: 46, Mismatches: 9, Indels: 8
0.73 0.14 0.13
Matches are distributed among these distances:
8 3 0.07
9 3 0.07
10 3 0.07
11 29 0.63
12 8 0.17
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (11 bp):
TTAAAAATATT
Found at i:4089945 original size:17 final size:17
Alignment explanation
Indices: 4089923--4089970 Score: 51
Period size: 18 Copynumber: 2.8 Consensus size: 17
4089913 AAAAAGTATT
*
4089923 TTAAAAATATTTTAAAA
1 TTAAAAATATTTAAAAA
*
4089940 TTAAAACAAATTTAAAAA
1 TTAAAA-ATATTTAAAAA
* *
4089958 ATAAATATATTTA
1 TTAAAAATATTTA
4089971 TTATATCAGG
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
17 12 0.48
18 13 0.52
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (17 bp):
TTAAAAATATTTAAAAA
Found at i:4090577 original size:11 final size:11
Alignment explanation
Indices: 4090561--4090591 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
4090551 TCAATTATTT
4090561 TCTCAATTTCC
1 TCTCAATTTCC
*
4090572 TCTCAATTTGC
1 TCTCAATTTCC
4090583 TCTCAATTT
1 TCTCAATTT
4090592 TCTTCCAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.19, C:0.29, G:0.03, T:0.48
Consensus pattern (11 bp):
TCTCAATTTCC
Found at i:4090611 original size:11 final size:11
Alignment explanation
Indices: 4090547--4090612 Score: 50
Period size: 11 Copynumber: 5.9 Consensus size: 11
4090537 AAACTAATCA
4090547 TCTCTCAATTATT
1 TCTCTCAA--ATT
4090560 T-TCTC-AATT
1 TCTCTCAAATT
4090569 TCCTCTC-AATT
1 T-CTCTCAAATT
*
4090580 TGCTCTCAATTT
1 T-CTCTCAAATT
4090592 TCT-TCCAAATT
1 TCTCT-CAAATT
4090603 TCTCTCAAAT
1 TCTCTCAAAT
4090613 CCATATTTAA
Statistics
Matches: 45, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
9 4 0.09
10 1 0.02
11 30 0.67
12 9 0.20
13 1 0.02
ACGTcount: A:0.23, C:0.27, G:0.02, T:0.48
Consensus pattern (11 bp):
TCTCTCAAATT
Found at i:4090648 original size:29 final size:28
Alignment explanation
Indices: 4090599--4090654 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 28
4090589 TTTTCTTCCA
*
4090599 AATTTCTCTCAAATCCATATTTAATTTT
1 AATTTCTCTCAAATCCATATTAAATTTT
*
4090627 AATTTGCTCTCAATTTCC-TATTAAATTT
1 AATTT-CTCTCAA-ATCCATATTAAATTT
4090655 CTCTTAAATC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 5 0.21
29 16 0.67
30 3 0.12
ACGTcount: A:0.30, C:0.18, G:0.02, T:0.50
Consensus pattern (28 bp):
AATTTCTCTCAAATCCATATTAAATTTT
Found at i:4092784 original size:21 final size:21
Alignment explanation
Indices: 4092758--4092805 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
4092748 CGAACACCGA
*
4092758 CAACCAG-ATGCCCTATCGGAG
1 CAACCAGAAT-CCCCATCGGAG
*
4092779 CAACCAGAATCCCCGTCGGAG
1 CAACCAGAATCCCCATCGGAG
4092800 CAACCA
1 CAACCA
4092806 CAACCCCCGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 22 0.92
22 2 0.08
ACGTcount: A:0.31, C:0.38, G:0.21, T:0.10
Consensus pattern (21 bp):
CAACCAGAATCCCCATCGGAG
Found at i:4092813 original size:21 final size:21
Alignment explanation
Indices: 4092773--4092815 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
4092763 AGATGCCCTA
* *
4092773 TCGGAGCAACCAGAATCCCCG
1 TCGGAGCAACCACAACCCCCG
4092794 TCGGAGCAACCACAACCCCCG
1 TCGGAGCAACCACAACCCCCG
4092815 T
1 T
4092816 TGGAAGCTGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.28, C:0.42, G:0.21, T:0.09
Consensus pattern (21 bp):
TCGGAGCAACCACAACCCCCG
Found at i:4093088 original size:27 final size:26
Alignment explanation
Indices: 4093056--4093136 Score: 82
Period size: 27 Copynumber: 3.2 Consensus size: 26
4093046 AAACCCTAAC
4093056 AAAAACCCTAACCCTAACCCTTAACTT
1 AAAAA-CCTAACCCTAACCCTTAACTT
4093083 --AAA---AACCCTAACCCTTAACTT
1 AAAAACCTAACCCTAACCCTTAACTT
** *
4093104 AAAAACCATAACTGTAACTCTTAACTT
1 AAAAACC-TAACCCTAACCCTTAACTT
4093131 AAAAAC
1 AAAAAC
4093137 ACCAAAACCT
Statistics
Matches: 45, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
21 18 0.40
23 3 0.07
25 3 0.07
27 21 0.47
ACGTcount: A:0.46, C:0.30, G:0.01, T:0.23
Consensus pattern (26 bp):
AAAAACCTAACCCTAACCCTTAACTT
Found at i:4093091 original size:21 final size:21
Alignment explanation
Indices: 4093065--4093115 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
4093055 CAAAAACCCT
4093065 AACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
4093086 AACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
*
4093107 AACCATAAC
1 AACCCTAAC
4093116 TGTAACTCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.45, C:0.33, G:0.00, T:0.22
Consensus pattern (21 bp):
AACCCTAACCCTTAACTTAAA
Found at i:4093127 original size:48 final size:50
Alignment explanation
Indices: 4093056--4093158 Score: 138
Period size: 48 Copynumber: 2.1 Consensus size: 50
4093046 AAACCCTAAC
* * *
4093056 AAAAACCCTAACCCTAACCCTTAACTTAAAAAC-CCTAACCCTTAA-CTT
1 AAAAACCATAACCCTAACCCTTAACTTAAAAACACCAAAACCTTAATCTT
** *
4093104 AAAAACCATAACTGTAACTCTTAACTTAAAAACACCAAAACCTTAATCTT
1 AAAAACCATAACCCTAACCCTTAACTTAAAAACACCAAAACCTTAATCTT
4093154 AAAAA
1 AAAAA
4093159 AAACCCTAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
48 29 0.62
49 10 0.21
50 8 0.17
ACGTcount: A:0.48, C:0.28, G:0.01, T:0.23
Consensus pattern (50 bp):
AAAAACCATAACCCTAACCCTTAACTTAAAAACACCAAAACCTTAATCTT
Found at i:4093352 original size:19 final size:19
Alignment explanation
Indices: 4093304--4093353 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 19
4093294 ATAATTTGAT
4093304 ATAATTTTACTAACAATTA
1 ATAATTTTACTAACAATTA
*
4093323 ATACA----ATTAACAATTA
1 ATA-ATTTTACTAACAATTA
4093339 ATAATTTTACTAACA
1 ATAATTTTACTAACA
4093354 TTCAGCCATA
Statistics
Matches: 24, Mismatches: 2, Indels: 10
0.67 0.06 0.28
Matches are distributed among these distances:
15 1 0.04
16 13 0.54
19 9 0.38
20 1 0.04
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (19 bp):
ATAATTTTACTAACAATTA
Found at i:4093385 original size:104 final size:102
Alignment explanation
Indices: 4093192--4093388 Score: 279
Period size: 104 Copynumber: 1.9 Consensus size: 102
4093182 CTAATATGAT
* ***
4093192 ATAATTTGATAAATTTACTAACAATTAATACAATTAACAATTAATAATTTGAGTAACAAAATTTT
1 ATAATTTGATAAATTTACTAACAATTAATACAATTAACAATTAATAATTTGACTAACAAAATGCC
4093257 AGATTTTACAAAATATTTTGACTGGTACTAACAATTA
66 AGATTTTACAAAATATTTTGACTGGTACTAACAATTA
* **
4093294 ATAATTTGATATAATTTTACTAACAATTAATACAATTAACAATTAATAATTTTACTAACATTCA-
1 ATAATTTGATA-AA-TTTACTAACAATTAATACAATTAACAATTAATAATTTGACTAACA-AAAT
* *
4093358 GCCATATTTTACAAAATGTTTTGACTGGTAC
63 GCCAGATTTTACAAAATATTTTGACTGGTAC
4093389 AAAAAAATAT
Statistics
Matches: 83, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
102 11 0.13
103 2 0.02
104 69 0.83
105 1 0.01
ACGTcount: A:0.44, C:0.11, G:0.07, T:0.39
Consensus pattern (102 bp):
ATAATTTGATAAATTTACTAACAATTAATACAATTAACAATTAATAATTTGACTAACAAAATGCC
AGATTTTACAAAATATTTTGACTGGTACTAACAATTA
Found at i:4096611 original size:125 final size:124
Alignment explanation
Indices: 4096389--4096705 Score: 510
Period size: 125 Copynumber: 2.5 Consensus size: 124
4096379 CCCAAACATT
* *
4096389 CTACTGTAGCAAAAACGCGTCCACGATGGCGCGATTTCATAAATTCTTCTGATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACG-TGGCGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGC
* *
4096454 TTGAAGCGTTTTTTATACTATTTGCTTAGAAACGTCAACTCGAAATTATTTTTTCAAG-AC
65 TTGAAGCATTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTC-AGTAC
* *
4096514 CTACTGTAGCAAAAGCACGTCCACGTGTGCGCGATTTCAGAAATTCTTTTGATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTG-GCGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGC
*
4096579 TTGAAGCATTTTTTATACTATTTTCTCAGAAACGTCAACTCGAAATTATTTTTTCAGTAC
65 TTGAAGCATTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGTAC
* *
4096639 CTACTGTAGCAAAAGCGCGTCTACGTGGGCGCGATTTCAGAAATTCTTCTGATAAAGTATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGT-GGCGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGC
4096704 TT
65 TT
4096706 TGATTTTATC
Statistics
Matches: 178, Mismatches: 11, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
124 4 0.02
125 173 0.97
126 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.33
Consensus pattern (124 bp):
CTACTGTAGCAAAAGCGCGTCCACGTGGCGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGCT
TGAAGCATTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGTAC
Found at i:4096987 original size:40 final size:40
Alignment explanation
Indices: 4096916--4096993 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
4096906 AGGAGCGCGC
*
4096916 TACGTGGCAACAAAACGCATCCACGTCAGCGCGCTTTGGT
1 TACGTGGCAACAAAACGCATCCACGTAAGCGCGCTTTGGT
* * * * *
4096956 TACGTTGCAACAAACCTCGTCCTCGTAAGCGCGCTTTG
1 TACGTGGCAACAAAACGCATCCACGTAAGCGCGCTTTG
4096994 TGTCCATGTA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.23, C:0.31, G:0.23, T:0.23
Consensus pattern (40 bp):
TACGTGGCAACAAAACGCATCCACGTAAGCGCGCTTTGGT
Found at i:4098670 original size:7 final size:8
Alignment explanation
Indices: 4098654--4098680 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
4098644 AGTTTCCTTC
4098654 TTTTATTT
1 TTTTATTT
4098662 TTTTATTT
1 TTTTATTT
4098670 TTTTATTT
1 TTTTATTT
4098678 TTT
1 TTT
4098681 CGCTTAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (8 bp):
TTTTATTT
Found at i:4099270 original size:3 final size:3
Alignment explanation
Indices: 4099264--4099328 Score: 62
Period size: 3 Copynumber: 21.3 Consensus size: 3
4099254 ATTAAATTGC
* *
4099264 ATT ATT ATT ATT -GT ATT ATT -GT ATT ATCT ATT ATTT ATT ATAT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT A-TT ATT AT-T ATT
*
4099310 ATT ATT ATT AGT ATT ATT A
1 ATT ATT ATT ATT ATT ATT A
4099329 CTTCCATACG
Statistics
Matches: 51, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
2 2 0.04
3 40 0.78
4 9 0.18
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:4099281 original size:14 final size:14
Alignment explanation
Indices: 4099259--4099328 Score: 63
Period size: 14 Copynumber: 4.9 Consensus size: 14
4099249 TTTTGATTAA
*
4099259 ATTGCATTATTATT
1 ATTGTATTATTATT
4099273 ATTGTATTATTGTATT
1 ATTGTATTA-T-TATT
*
4099289 A-TCTATTATTTATT
1 ATTGTATTA-TTATT
*
4099303 A-TATATTATTATT
1 ATTGTATTATTATT
4099316 ATTAGTATTATTA
1 ATT-GTATTATTA
4099329 CTTCCATACG
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
13 6 0.12
14 20 0.42
15 17 0.35
16 5 0.10
ACGTcount: A:0.31, C:0.03, G:0.06, T:0.60
Consensus pattern (14 bp):
ATTGTATTATTATT
Found at i:4100880 original size:3 final size:3
Alignment explanation
Indices: 4100855--4100921 Score: 79
Period size: 3 Copynumber: 23.3 Consensus size: 3
4100845 AGTTTTTAGT
*
4100855 TTA TT- TTA TTA ATA -TA GTTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
4100899 CTA TTA TTA TTA TT- TT- TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
4100922 ACTTACATAC
Statistics
Matches: 57, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
2 8 0.14
3 47 0.82
4 2 0.04
ACGTcount: A:0.31, C:0.01, G:0.01, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:4101060 original size:13 final size:13
Alignment explanation
Indices: 4101029--4101053 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4101019 CCATATTTTT
4101029 TTTATATATATAG
1 TTTATATATATAG
4101042 TTTATATATATA
1 TTTATATATATA
4101054 TTATATACAT
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:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (13 bp):
TTTATATATATAG
Found at i:4108447 original size:109 final size:108
Alignment explanation
Indices: 4108261--4108457 Score: 313
Period size: 109 Copynumber: 1.8 Consensus size: 108
4108251 TCTGTACTTT
* *
4108261 AGCAAAATTTGCTATCTTGATTAATTTGTTCATTTAGAGCTTTGCTCTCAACAAATTTTCGTCTT
1 AGCAAAATTTGCTATCTTGATTAATTTGTTCATTTAGAGCTTTGCTCTCAACAAAATTTCATCTT
4108326 ATCCATTGTGATAATCTTTTTCATCTTATTCATCTCGTATCTC
66 ATCCATTGTGATAATCTTTTTCATCTTATTCATCTCGTATCTC
* ** *
4108369 AGCAAAATTTGCTATCTTGATTGATTTGTTTGTTTAAGAGCTTTGCTCTCAACAAAATTTCATTT
1 AGCAAAATTTGCTATCTTGATTAATTTGTTCATTT-AGAGCTTTGCTCTCAACAAAATTTCATCT
* *
4108434 TGTCCATTTTGATAATCTTTTTCA
65 TATCCATTGTGATAATCTTTTTCA
4108458 AGCATTTTTC
Statistics
Matches: 80, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
108 32 0.40
109 48 0.60
ACGTcount: A:0.25, C:0.17, G:0.11, T:0.47
Consensus pattern (108 bp):
AGCAAAATTTGCTATCTTGATTAATTTGTTCATTTAGAGCTTTGCTCTCAACAAAATTTCATCTT
ATCCATTGTGATAATCTTTTTCATCTTATTCATCTCGTATCTC
Found at i:4109080 original size:95 final size:96
Alignment explanation
Indices: 4108967--4109162 Score: 340
Period size: 97 Copynumber: 2.0 Consensus size: 96
4108957 GCAGCGAAGC
* *
4108967 AGATCAAAGATGGCAGATTTTACCTCC-CTGATTACAGTGGAGTATATTGAAGCCGATAACTCTA
1 AGATCAAAGATGGCAGATTTTACCTCCACTGACTACAGTGGAGTACATTGAAGCCGATAACTCTA
4109031 TCTCCCTGCATTTGGCAGTGGAATAGATTGA
66 TCTCCCTGCATTTGGCAGTGGAATAGATTGA
*
4109062 AGATCAAAGATGGCAGATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
1 AGATCAAAGATGGCAGATTTTACCTCCA-CTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
*
4109127 ATCTCCCTGTATTTGGCAGTGGAATAGATTGA
65 ATCTCCCTGCATTTGGCAGTGGAATAGATTGA
4109159 AGAT
1 AGAT
4109163 TGCAGATCTT
Statistics
Matches: 95, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
95 27 0.28
97 68 0.72
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.29
Consensus pattern (96 bp):
AGATCAAAGATGGCAGATTTTACCTCCACTGACTACAGTGGAGTACATTGAAGCCGATAACTCTA
TCTCCCTGCATTTGGCAGTGGAATAGATTGA
Found at i:4109360 original size:44 final size:44
Alignment explanation
Indices: 4109277--4110619 Score: 793
Period size: 44 Copynumber: 30.5 Consensus size: 44
4109267 CCCGGGACAA
* * * * *
4109277 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGACGT
1 GAAGTAGGTCGAAGATAGCAGATCTTGTCTTCCTATATTGTCGT
* ** * *
4109321 GAAGTAGGTCGAAGATAGCTGATCCGGTTTTCCTATATTGGTAG-
1 GAAGTAGGTCGAAGATAGCAGATCTTGTCTTCCTATATT-GTCGT
* * * *
4109365 GAAGT-GGATCGAAGAT-GCAGATATTGTCTTCCCATATTGGTGGC
1 GAAGTAGG-TCGAAGATAGCAGATCTTGTCTTCCTATATT-GTCGT
* * * *
4109409 GAAGTAGATCGAAGAT-GCAGATCTTGTCTTCCCATATTGGTGGC
1 GAAGTAGGTCGAAGATAGCAGATCTTGTCTTCCTATATT-GTCGT
* * * * *
4109453 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGT
1 GAAGTAGGTCGAAGATAGCAGATCTTGTCTTCCTATATTGTCGT
* ** * *
4109497 GAAGTAGGTCGAAGATAGCTGATCCGGTTTTCCTATATTGGTAG-
1 GAAGTAGGTCGAAGATAGCAGATCTTGTCTTCCTATATT-GTCGT
* * *
4109541 GAAGT-GGATCGAAGAT-GCAGATCTTGTCTTCCCATATTGGTGGC
1 GAAGTAGG-TCGAAGATAGCAGATCTTGTCTTCCTATATT-GTCGT
* * * *
4109585 GAAGTAGATCGAAGAT-GCAGATCTTGTCTTCCCATATTGGTGGC
1 GAAGTAGGTCGAAGATAGCAGATCTTGTCTTCCTATATT-GTCGT
* * * * *
4109629 GAAGTAGATCGAAGAT-GCAAATCTTGTCTTCCCATATTGGTGGC
1 GAAGTAGGTCGAAGATAGCAGATCTTGTCTTCCTATATT-GTCGT
* * * * *
4109673 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGT
1 GAAGTAGGTCGAAGATAGCAGATCTTGTCTTCCTATATTGTCGT
* * * * *
4109717 GAAGTAGATCGAA-AGTAGCAGGTCCTATCTTCCTATATTGGTAG-
1 GAAGTAGGTCGAAGA-TAGCAGATCTTGTCTTCCTATATT-GTCGT
* * *
4109761 GAAGT-GGATCGAAGAT-GCAGATCTTGTCTTCCCATATTGGTGGC
1 GAAGTAGG-TCGAAGATAGCAGATCTTGTCTTCCTATATT-GTCGT
* * * * * *
4109805 GAAGTAGATCGAAGAAAGCAAATCTTGTCTTCATGTATTGGCGT
1 GAAGTAGGTCGAAGATAGCAGATCTTGTCTTCCTATATTGTCGT
* * * * * *
4109849 GAAGTAGATCGAAGGTAGCAGGTCCTATCTTCCTATATTGATAG-
1 GAAGTAGGTCGAAGATAGCAGATCTTGTCTTCCTATATTG-TCGT
* * * * *
4109893 GAAGT-GGATCCAAGAT-GCAGATCTTGTTTTCCCATATTGGTGGC
1 GAAGTAGG-TCGAAGATAGCAGATCTTGTCTTCCTATATT-GTCGT
* * * * * *
4109937 GAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGT
1 GAAGTAGGTCGAAGATAGCAGATCTTGTCTTCCTATATTGTCGT
* * * * * * * *
4109981 GAAGTAGATCAAAGATAACAGGTCCTATCTTCCTATAATGATTG-
1 GAAGTAGGTCGAAGATAGCAGATCTTGTCTTCCTATATTG-TCGT
* * * * *
4110025 GAAGT-GGATCGACGACA-CAGATCTTGTCTTCCCATATTGGTGGC
1 GAAGTAGG-TCGAAGATAGCAGATCTTGTCTTCCTATATT-GTCGT
* * * * * * *
4110069 GAAGTAGATCGCAGAAAGTAGATCTTGTCTTCATGTATTGGCGT
1 GAAGTAGGTCGAAGATAGCAGATCTTGTCTTCCTATATTGTCGT
* * * * * *
4110113 GAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATAATGATTG-
1 GAAGTAGGTCGAAGATAGCAGATCTTGTCTTCCTATATTG-TCGT
* * * * *
4110157 GAAGT-GGATCGACGA-CGCAGATCTTGTCTTCCCATATTGGTGGC
1 GAAGTAGG-TCGAAGATAGCAGATCTTGTCTTCCTATATT-GTCGT
* * * * * *
4110201 GAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGT
1 GAAGTAGGTCGAAGATAGCAGATCTTGTCTTCCTATATTGTCGT
* * * * * *
4110245 GAAGTAGATCGAAGATAGCAGGTCCTATCTTCTTATATTGATAG-
1 GAAGTAGGTCGAAGATAGCAGATCTTGTCTTCCTATATTG-TCGT
* * * *
4110289 GAAGT-GGATCCAAGAT-GCAGATCTTGTCTTCCCATATTGGTGGC
1 GAAGTAGG-TCGAAGATAGCAGATCTTGTCTTCCTATATT-GTCGT
* * * * * *
4110333 GAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGT
1 GAAGTAGGTCGAAGATAGCAGATCTTGTCTTCCTATATTGTCGT
* * * * *
4110377 GAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAG-
1 GAAGTAGGTCGAAGATAGCAGATCTTGTCTTCCTATATTG-TCGT
* * * *
4110421 GAAGTGGGTCGAAGAT-GCAGATCTTGTCTTCCCATATTGGTGGC
1 GAAGTAGGTCGAAGATAGCAGATCTTGTCTTCCTATATT-GTCGT
* * * * * *
4110465 GAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGT
1 GAAGTAGGTCGAAGATAGCAGATCTTGTCTTCCTATATTGTCGT
* * * * * *
4110509 GAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATGTTGATAG-
1 GAAGTAGGTCGAAGATAGCAGATCTTGTCTTCCTATATTG-TCGT
* * * *
4110553 GAAGT-GGATCCAAGATA-CAGATCTTGTCTTCCCATACTGGTGGT
1 GAAGTAGG-TCGAAGATAGCAGATCTTGTCTTCCTATA-TTGTCGT
* * *
4110597 GGAGTAGATCGAAGATGGCAGAT
1 GAAGTAGGTCGAAGATAGCAGAT
4110620 TTTACCTTCT
Statistics
Matches: 1004, Mismatches: 244, Indels: 101
0.74 0.18 0.07
Matches are distributed among these distances:
43 185 0.18
44 646 0.64
45 173 0.17
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (44 bp):
GAAGTAGGTCGAAGATAGCAGATCTTGTCTTCCTATATTGTCGT
Found at i:4110619 original size:132 final size:132
Alignment explanation
Indices: 4109277--4110611 Score: 1883
Period size: 132 Copynumber: 10.1 Consensus size: 132
4109267 CCCGGGACAA
* * *
4109277 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGACGTGAAGTAGGTCGAAGATAGCTG
1 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAG
* ** * * *
4109342 ATCCGGTTTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATATTGTCTTCCCATATTGGTG
66 GTCCTATCTTCCTATATTGATAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTG
4109407 GC
131 GC
* *** * * *
4109409 GAAGTAGATCGAAG-ATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCA
1 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAGCA
* * * * * ** * ** * *
4109473 GATCTTGTCTTCATGTATTG-GCGTGAAGTAGG-TCGAAGATAGCTGATCCGGTTTTCCTATATT
65 GGTCCTATCTTCCTATATTGATAG-GAAGT-GGATCGAAGAT-GCAGATCTTGTCTTCCCATATT
*
4109536 GGTAG-
127 GGTGGC
* * *** * *
4109541 GAAGTGGATCGAAG-ATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAT-GCA
1 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAGCA
* * * * * * * *
4109604 GATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGATGCAAATCTTGTCTTCCCATATTGG
65 GGTCCTATCTTCCTATATTGATAG-GAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGG
4109669 TGGC
129 TGGC
4109673 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAA-AGTAGCA
1 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGA-TAGCA
*
4109737 GGTCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGT
65 GGTCCTATCTTCCTATATTGATAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGT
4109802 GGC
130 GGC
* *
4109805 GAAGTAGATCGAAGAAAGCAAATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTAGCAG
1 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAG
* *
4109870 GTCCTATCTTCCTATATTGATAGGAAGTGGATCCAAGATGCAGATCTTGTTTTCCCATATTGGTG
66 GTCCTATCTTCCTATATTGATAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTG
4109935 GC
131 GC
* * *
4109937 GAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAACAG
1 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAG
* * * **
4110002 GTCCTATCTTCCTATAATGATTGGAAGTGGATCGACGACACAGATCTTGTCTTCCCATATTGGTG
66 GTCCTATCTTCCTATATTGATAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTG
4110067 GC
131 GC
* *
4110069 GAAGTAGATCGCAGAAAGTAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAG
1 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAG
* * * *
4110134 GTCCTATCTTCCTATAATGATTGGAAGTGGATCGACGACGCAGATCTTGTCTTCCCATATTGGTG
66 GTCCTATCTTCCTATATTGATAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTG
4110199 GC
131 GC
*
4110201 GAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAG
1 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAG
* *
4110266 GTCCTATCTTCTTATATTGATAGGAAGTGGATCCAAGATGCAGATCTTGTCTTCCCATATTGGTG
66 GTCCTATCTTCCTATATTGATAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTG
4110331 GC
131 GC
*
4110333 GAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAG
1 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAG
*
4110398 GTCCTATCTTCCTATATTGATAGGAAGTGGGTCGAAGATGCAGATCTTGTCTTCCCATATTGGTG
66 GTCCTATCTTCCTATATTGATAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTG
4110463 GC
131 GC
*
4110465 GAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAG
1 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAG
* * * *
4110530 GTCCTATCTTCCTATGTTGATAGGAAGTGGATCCAAGATACAGATCTTGTCTTCCCATACTGGTG
66 GTCCTATCTTCCTATATTGATAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTG
*
4110595 GT
131 GC
*
4110597 GGAGTAGATCGAAGA
1 GAAGTAGATCGAAGA
4110612 TGGCAGATTT
Statistics
Matches: 1099, Mismatches: 93, Indels: 22
0.91 0.08 0.02
Matches are distributed among these distances:
131 64 0.06
132 969 0.88
133 66 0.06
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (132 bp):
GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAG
GTCCTATCTTCCTATATTGATAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTG
GC
Found at i:4112138 original size:3 final size:3
Alignment explanation
Indices: 4112113--4112171 Score: 61
Period size: 3 Copynumber: 20.3 Consensus size: 3
4112103 AGTTTTTAGT
* *
4112113 TTA TT- TTA TTA ATA -TA GTTA TTA TTA TTA TTA TTA TTA CTA TTA
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
4112157 TTA TT- TTT TTA TTA T
1 TTA TTA TTA TTA TTA T
4112172 ACTTACATAC
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
2 6 0.12
3 40 0.83
4 2 0.04
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:4112309 original size:13 final size:13
Alignment explanation
Indices: 4112278--4112302 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4112268 ACCATATTTT
4112278 TTTATATATATAG
1 TTTATATATATAG
4112291 TTTATATATATA
1 TTTATATATATA
4112303 TTATATACAT
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:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (13 bp):
TTTATATATATAG
Found at i:4120658 original size:16 final size:16
Alignment explanation
Indices: 4120637--4120667 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
4120627 AACATATATA
4120637 ATTAAAACATTTAATG
1 ATTAAAACATTTAATG
4120653 ATTAAAACATTTAAT
1 ATTAAAACATTTAAT
4120668 AAATTCTCCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.06, G:0.03, T:0.39
Consensus pattern (16 bp):
ATTAAAACATTTAATG
Found at i:4131914 original size:88 final size:88
Alignment explanation
Indices: 4131765--4131940 Score: 334
Period size: 88 Copynumber: 2.0 Consensus size: 88
4131755 TTGAAACATC
4131765 CCATGCATGTTCATATCAAAAGTAGAGAGCAATGATCAGCAATTATTGCTCAACGCCAATGGTAA
1 CCATGCATGTTCATATCAAAAGTAGAGAGCAATGATCAGCAATTATTGCTCAACGCCAATGGTAA
*
4131830 CAGAAAATCGGGAAGAAAGCCAT
66 CAGAAAATCCGGAAGAAAGCCAT
*
4131853 CCATGCATGTTCATATCAAAAGTAGAGAGTAATGATCAGCAATTATTGCTCAACGCCAATGGTAA
1 CCATGCATGTTCATATCAAAAGTAGAGAGCAATGATCAGCAATTATTGCTCAACGCCAATGGTAA
4131918 CAGAAAATCCGGAAGAAAGCCAT
66 CAGAAAATCCGGAAGAAAGCCAT
4131941 TACAACCCAA
Statistics
Matches: 86, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
88 86 1.00
ACGTcount: A:0.40, C:0.19, G:0.20, T:0.21
Consensus pattern (88 bp):
CCATGCATGTTCATATCAAAAGTAGAGAGCAATGATCAGCAATTATTGCTCAACGCCAATGGTAA
CAGAAAATCCGGAAGAAAGCCAT
Found at i:4134509 original size:6 final size:6
Alignment explanation
Indices: 4134498--4134528 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
4134488 TGAAAACAAT
4134498 ATTAAA ATTAAA ATTAAA ATTAAA ATTAAA A
1 ATTAAA ATTAAA ATTAAA ATTAAA ATTAAA A
4134529 ATTTGGGTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
ATTAAA
Found at i:4144178 original size:17 final size:16
Alignment explanation
Indices: 4144157--4144188 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
4144147 CCGACTGCTT
*
4144157 TTTTTTTAGAATTTAA
1 TTTTTTTAAAATTTAA
4144173 TTTTTTTAAAATTTAA
1 TTTTTTTAAAATTTAA
4144189 AATGCAAACC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (16 bp):
TTTTTTTAAAATTTAA
Found at i:4145717 original size:22 final size:21
Alignment explanation
Indices: 4145680--4145726 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 21
4145670 TCAAATTAAC
4145680 TTTATATTAATATTAACAT-AT
1 TTTATATTAATATTAA-ATAAT
4145701 TTTATAATT-ATATTTAAATAAT
1 TTTAT-ATTAATA-TTAAATAAT
4145723 TTTA
1 TTTA
4145727 AATAGTAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
21 10 0.43
22 13 0.57
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (21 bp):
TTTATATTAATATTAAATAAT
Found at i:4151050 original size:19 final size:20
Alignment explanation
Indices: 4151017--4151054 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
4151007 TTATTTGCTT
4151017 AAATTATAACATATAATATA
1 AAATTATAACATATAATATA
*
4151037 AAATTATAA-TTATAATAT
1 AAATTATAACATATAATAT
4151055 TAACATATTT
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:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (20 bp):
AAATTATAACATATAATATA
Found at i:4152476 original size:27 final size:28
Alignment explanation
Indices: 4152445--4152505 Score: 74
Period size: 26 Copynumber: 2.2 Consensus size: 28
4152435 AATATATTAC
*
4152445 TTAAAAATTTAATTATATCAAA-TA-ATA
1 TTAAAAATATAA-TATATCAAACTATATA
*
4152472 TT-AAAATATAATATATTAAACTATATA
1 TTAAAAATATAATATATCAAACTATATA
4152499 TTAAAAA
1 TTAAAAA
4152506 ATTATTAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
25 8 0.28
26 10 0.34
27 7 0.24
28 4 0.14
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.39
Consensus pattern (28 bp):
TTAAAAATATAATATATCAAACTATATA
Found at i:4154575 original size:22 final size:23
Alignment explanation
Indices: 4154548--4154590 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
4154538 ATTGGAAATA
4154548 GAAATTTCAAA-TTTTGTTTTCC
1 GAAATTTCAAAGTTTTGTTTTCC
*
4154570 GAAATTTCAAAGTTTTTTTTT
1 GAAATTTCAAAGTTTTGTTTT
4154591 AAAGCTGCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.28, C:0.09, G:0.09, T:0.53
Consensus pattern (23 bp):
GAAATTTCAAAGTTTTGTTTTCC
Found at i:4155047 original size:31 final size:31
Alignment explanation
Indices: 4154998--4155063 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
4154988 AGTCTTAATG
** *
4154998 TTTTAATTTGATTCATTTTAGTTCTTGTATT
1 TTTTAATTTGATAAATTTTAGTCCTTGTATT
* * *
4155029 TTTTGATTTGATAAATTTTCGTCCTTGTGTT
1 TTTTAATTTGATAAATTTTAGTCCTTGTATT
4155060 TTTT
1 TTTT
4155064 CGAATATTGA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.17, C:0.08, G:0.12, T:0.64
Consensus pattern (31 bp):
TTTTAATTTGATAAATTTTAGTCCTTGTATT
Found at i:4156973 original size:146 final size:145
Alignment explanation
Indices: 4156698--4157198 Score: 717
Period size: 146 Copynumber: 3.4 Consensus size: 145
4156688 GTAGAACTCT
*
4156698 AAATTAAAAAAATAGTATATTTTTTAAAAGTAATAAAATCCGGGAAAATAAATACGAACATAGGG
1 AAATT-AAAAAATAGTATATTTTTTAAAAGTAATAAAATCCGAGAAAA-AAATACGAACATAGGG
* *
4156763 CCAAAATAAGGG-TTTTTT-AAATTTATTTAAAAAGCACACTAAATTAATACATTTCAAATATAA
64 CCGAAATAAGGGTTTTTTTAAAATTTATTTAAAAAACACACTAAATTAATACATTTCAAATATAA
4156826 TATACTAAAATAATGTA
129 TATACTAAAATAATGTA
4156843 AAATTAAAAAATAGTATATTTTTTAAAAGTAATAAAATCCGAGAAAAAAATACGAACATAGGGCC
1 AAATTAAAAAATAGTATATTTTTTAAAAGTAATAAAATCCGAGAAAAAAATACGAACATAGGGCC
*
4156908 GAAATAAGGGTTTTTTTAAAAATTTATTTAAAAAACACACTAAATTAATACATTTCAAATGTAAT
66 GAAATAAGGGTTTTTTT-AAAATTTATTTAAAAAACACACTAAATTAATACATTTCAAATATAAT
*
4156973 ATACTAAAATAATATA
130 ATACTAAAATAATGTA
* * ** *
4156989 AAATTAAAAAATAATATATTTTTTAAAAGTAATAAAAT-CGGGGGAAAAATATGAACATAGGGCC
1 AAATTAAAAAATAGTATATTTTTTAAAAGTAATAAAATCCGAGAAAAAAATACGAACATAGGGCC
* * *
4157053 GAAATAAGGGTTTTTTTAAAATTTATTT-AAAAACTCATTAAATTAATACATTTCAAATATAATG
66 GAAATAAGGGTTTTTTTAAAATTTATTTAAAAAACACACTAAATTAATACATTTCAAATATAATA
*
4157117 TATTAAAATAATGTA
131 TACTAAAATAATGTA
* ** *
4157132 AAA-TAAAAAATAAAAAAGTATATTTTTTAAAAATAATAAAATTTGA-AGAAAAAATACGAACAA
1 AAATTAAAAAAT-----AGTATATTTTTTAAAAGTAATAAAATCCGAGA-AAAAAATACGAACAT
4157195 AGGG
60 AGGG
4157199 GGTGCCGCCT
Statistics
Matches: 322, Mismatches: 24, Indels: 17
0.89 0.07 0.05
Matches are distributed among these distances:
142 8 0.02
143 75 0.23
144 58 0.18
145 44 0.14
146 96 0.30
147 24 0.07
148 17 0.05
ACGTcount: A:0.52, C:0.07, G:0.10, T:0.31
Consensus pattern (145 bp):
AAATTAAAAAATAGTATATTTTTTAAAAGTAATAAAATCCGAGAAAAAAATACGAACATAGGGCC
GAAATAAGGGTTTTTTTAAAATTTATTTAAAAAACACACTAAATTAATACATTTCAAATATAATA
TACTAAAATAATGTA
Found at i:4163342 original size:30 final size:31
Alignment explanation
Indices: 4163306--4163373 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 31
4163296 TTTTTTTTTT
*
4163306 AAAAATTAA-AAAGCATAA-TGAAAATTTTCA
1 AAAAATTAAGAAAACATAACT-AAAATTTTCA
* *
4163336 AAAAATTAAGAAAACTTAACTAAAGTTTTCA
1 AAAAATTAAGAAAACATAACTAAAATTTTCA
4163367 AAAAATT
1 AAAAATT
4163374 TAGAGGGCCC
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
30 9 0.27
31 23 0.70
32 1 0.03
ACGTcount: A:0.59, C:0.07, G:0.06, T:0.28
Consensus pattern (31 bp):
AAAAATTAAGAAAACATAACTAAAATTTTCA
Found at i:4167635 original size:20 final size:20
Alignment explanation
Indices: 4167598--4167635 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
4167588 ATTTTAAGAA
*
4167598 TTTAATTTTTTTTACTTTAT
1 TTTAATTTTCTTTACTTTAT
4167618 TTTAATTTGTCTTT-CTTT
1 TTTAATTT-TCTTTACTTT
4167636 TAAAAATTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.16, C:0.08, G:0.03, T:0.74
Consensus pattern (20 bp):
TTTAATTTTCTTTACTTTAT
Found at i:4175494 original size:18 final size:19
Alignment explanation
Indices: 4175452--4175498 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
4175442 TTTTGTGAAT
* *
4175452 TATATATTTATGAATTATC
1 TATATATTAATGAATTAAC
4175471 TATATATTAAT-AATTAAC
1 TATATATTAATGAATTAAC
*
4175489 TTTATATTAA
1 TATATATTAA
4175499 GCTTTTGATG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
18 15 0.60
19 10 0.40
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.51
Consensus pattern (19 bp):
TATATATTAATGAATTAAC
Found at i:4176065 original size:30 final size:31
Alignment explanation
Indices: 4176029--4176096 Score: 79
Period size: 30 Copynumber: 2.2 Consensus size: 31
4176019 GTTAGTGATT
4176029 TAATATAAATATATATAATTAT-TATT-TAACA
1 TAATATAAATA-ATATAATTATCT-TTATAACA
* *
4176060 T-ATATAATTAATCTAATTATCTTTATAACA
1 TAATATAAATAATATAATTATCTTTATAACA
4176090 TAATATA
1 TAATATA
4176097 TTTGGGTTAG
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
29 11 0.34
30 15 0.47
31 6 0.19
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.46
Consensus pattern (31 bp):
TAATATAAATAATATAATTATCTTTATAACA
Found at i:4192963 original size:5 final size:5
Alignment explanation
Indices: 4192953--4192983 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
4192943 GTTAACAATA
4192953 ATAAT ATAAT ATAAT ATAAT ATAAT A-AAT AT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT AT
4192984 CTATTTACTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.16
5 21 0.84
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATAAT
Found at i:4194951 original size:94 final size:94
Alignment explanation
Indices: 4194689--4195039 Score: 275
Period size: 94 Copynumber: 3.7 Consensus size: 94
4194679 AAGTAATATC
* * * * * * * * *
4194689 CACTTTGGGGTGTCTACTTTATAACTTTGTAAAATTTAACTGAGTGCATTGAGAGGCTAGTAGTT
1 CACTTTGAGGTGTTTACTTTATAACTTTGTAAAATTTAGCTAAGTGCCTTAAGAGGTTAGCAATT
** *
4194754 TTTCT-GCTATTG-AC-T-TGATG-AATAGTTT
66 TTT-TAGCTA-TGAACGTAACAAGCAAT--TTT
* * * *
4194782 CTACTTT-AGAGTGTTTGCTTTATAACTTTGTAAAATTTAGCTAAGTGCCTTAAAAGGCTAGTAA
1 C-ACTTTGAG-GTGTTTACTTTATAACTTTGTAAAATTTAGCTAAGTGCCTTAAGAGGTTAGCAA
* * * *
4194846 TGTTTTAGCTATGGACTTAGCGAA-CAATTTT
64 TTTTTTAGCTATGAACGTAAC-AAGCAATTTT
* * * * *
4194877 CACTTTGAGGTGTTTACTTTATAACTTTGTAAATTTTAGCTAAGTACCTCAAGTGGTTAACAATT
1 CACTTTGAGGTGTTTACTTTATAACTTTGTAAAATTTAGCTAAGTGCCTTAAGAGGTTAGCAATT
* *
4194942 TTTTTGCTATTAACGTAACAAGCAATTTT
66 TTTTAGCTATGAACGTAACAAGCAATTTT
* * ** **
4194971 CACTTTGGAATGTCTTTTTTTTATAACTTTGTAAAACATAGCTAAGTGCCTTAAGAGGTTAGCAA
1 CACTTT-G-AGGTGTTTACTTTATAACTTTGTAAAATTTAGCTAAGTGCCTTAAGAGGTTAGCAA
4195036 TTTT
64 TTTT
4195040 CTACTATTAA
Statistics
Matches: 207, Mismatches: 39, Indels: 21
0.78 0.15 0.08
Matches are distributed among these distances:
93 7 0.03
94 139 0.67
95 8 0.04
96 49 0.24
97 4 0.02
ACGTcount: A:0.28, C:0.13, G:0.17, T:0.42
Consensus pattern (94 bp):
CACTTTGAGGTGTTTACTTTATAACTTTGTAAAATTTAGCTAAGTGCCTTAAGAGGTTAGCAATT
TTTTAGCTATGAACGTAACAAGCAATTTT
Found at i:4212080 original size:90 final size:90
Alignment explanation
Indices: 4211923--4212195 Score: 465
Period size: 90 Copynumber: 3.0 Consensus size: 90
4211913 TTTAGGGATA
* * *
4211923 AAAAACAGGTCACCAGGAAAGAGGGCTCAGCTATGATGTCAAAGGAGATGAATGTGAAGTCTGCA
1 AAAAACAGGTCACCAGGAAAGAGGGCTCAGCTATGATCTCAAAGGAGATAAATGTGAAGTCTACA
* *
4211988 TCATTCAGCAAGGAGAATAGCAACC
66 TCATTCAGCAAGGGGAATAGCAGCC
*
4212013 AAAAACAGGTCACCCGGAAAGAGGGCTCAGCTATGATCTCAAAGGAGATAAATGTGAAGTCTACA
1 AAAAACAGGTCACCAGGAAAGAGGGCTCAGCTATGATCTCAAAGGAGATAAATGTGAAGTCTACA
* *
4212078 TCATCCAGCAAGGGGAATAGCTGCC
66 TCATTCAGCAAGGGGAATAGCAGCC
*
4212103 AAAAACAGGTCACCAGGAAAGAGGGCTCAGCTATGAGCTCAAAGGAGATAAATGTGAAGTCTACA
1 AAAAACAGGTCACCAGGAAAGAGGGCTCAGCTATGATCTCAAAGGAGATAAATGTGAAGTCTACA
4212168 TCATTCAGCAAGGGGAATAGCAGCC
66 TCATTCAGCAAGGGGAATAGCAGCC
4212193 AAA
1 AAA
4212196 GACCTGGAGA
Statistics
Matches: 171, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
90 171 1.00
ACGTcount: A:0.39, C:0.19, G:0.26, T:0.16
Consensus pattern (90 bp):
AAAAACAGGTCACCAGGAAAGAGGGCTCAGCTATGATCTCAAAGGAGATAAATGTGAAGTCTACA
TCATTCAGCAAGGGGAATAGCAGCC
Found at i:4218550 original size:18 final size:20
Alignment explanation
Indices: 4218529--4218570 Score: 61
Period size: 18 Copynumber: 2.2 Consensus size: 20
4218519 ATTAAGAAAT
*
4218529 TTTTATAAA-TATTTTG-AA
1 TTTTAAAAATTATTTTGTAA
4218547 TTTTAAAAATTATTTTGTAA
1 TTTTAAAAATTATTTTGTAA
4218567 TTTT
1 TTTT
4218571 TGTTGAGGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 8 0.38
19 7 0.33
20 6 0.29
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.60
Consensus pattern (20 bp):
TTTTAAAAATTATTTTGTAA
Found at i:4218550 original size:19 final size:21
Alignment explanation
Indices: 4218526--4218571 Score: 62
Period size: 19 Copynumber: 2.3 Consensus size: 21
4218516 TAAATTAAGA
*
4218526 AATTTTTATAAA-TATTTTG-
1 AATTTTTAAAAATTATTTTGT
4218545 AA-TTTTAAAAATTATTTTGT
1 AATTTTTAAAAATTATTTTGT
4218565 AATTTTT
1 AATTTTT
4218572 GTTGAGGGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 8 0.35
19 9 0.39
20 2 0.09
21 4 0.17
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (21 bp):
AATTTTTAAAAATTATTTTGT
Found at i:4223913 original size:14 final size:14
Alignment explanation
Indices: 4223896--4223941 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
4223886 AATAAAATTT
4223896 TAAATTTTAAATAA
1 TAAATTTTAAATAA
* * *
4223910 TAAATCTTAGATCA
1 TAAATTTTAAATAA
*
4223924 TAAATTTTAAATAG
1 TAAATTTTAAATAA
4223938 TAAA
1 TAAA
4223942 CTTAAATTTT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.39
Consensus pattern (14 bp):
TAAATTTTAAATAA
Found at i:4231238 original size:165 final size:163
Alignment explanation
Indices: 4230921--4231416 Score: 771
Period size: 165 Copynumber: 3.0 Consensus size: 163
4230911 GCTTGTCATT
4230921 AGTAGCCGTCTTAGCTCAGCCGGTAGAGCGCGTGGCTTTTAACCACGTGGTCGTGGGTTCGATTC
1 AGTAGCCGTCTTAGCTCAGCCGGTAGAGCGCGTGGCTTTTAACCACGTGGTCGTGGGTTCGATTC
* * *** *
4230986 CCACAGACGGCGTCGATTTTTGTAACCTCTACTTTTACATTTTTGTTTACCGAAGAGAAGATGGA
66 CCACAGACGGCGTTGAGTTTTGT-TGTTCTA-TTTTACATTTTTGTTTACCGAAGAGAAGAGGGA
*
4231051 GAATC-CGATGATCCACCACTATGTCACTGTCCATC
129 GAA-CACGATGATCCACCACTATGCCACTGTCCATC
4231086 AGTAGCCGTCTTAGCTCAGCCGGTAGAGCGCGTGGCTTTTAACCACGTGGTCGTGGGTTCGATTC
1 AGTAGCCGTCTTAGCTCAGCCGGTAGAGCGCGTGGCTTTTAACCACGTGGTCGTGGGTTCGATTC
4231151 CCACAGACGGCGTTGAGTTTTGTTGTTACTATTTTACATTTTTGTTTACCGAAGAGAAGAGGGAG
66 CCACAGACGGCGTTGAGTTTTGTTGTT-CTATTTTACATTTTTGTTTACCGAAGAGAAGAGGGAG
* *
4231216 AACACTGATGAGT-CAGCACTATGCCACTGTCTATC
130 AACAC-GATGA-TCCACCACTATGCCACTGTCCATC
*
4231251 AATAGCCGTCTTAGCTCAGCCGGTAGAGCGCGTGGCTTTTAACCACGTGGTCGTGGGTTCGATTC
1 AGTAGCCGTCTTAGCTCAGCCGGTAGAGCGCGTGGCTTTTAACCACGTGGTCGTGGGTTCGATTC
4231316 CCACAGACGGCGTTGAGTTTTGTTGTTTCTATTTTACATTTTTGTTTACCGAAGAGAAGAGGGAG
66 CCACAGACGGCGTTGAGTTTTGTTG-TTCTATTTTACATTTTTGTTTACCGAAGAGAAGAGGGAG
* * * * *
4231381 AACACCGGTGATCCACCGCTATACTACTGTGCATC
130 AACA-CGATGATCCACCACTATGCCACTGTCCATC
4231416 A
1 A
4231417 TTAATCCGGC
Statistics
Matches: 307, Mismatches: 17, Indels: 14
0.91 0.05 0.04
Matches are distributed among these distances:
163 1 0.00
164 38 0.12
165 264 0.86
166 4 0.01
ACGTcount: A:0.22, C:0.23, G:0.25, T:0.30
Consensus pattern (163 bp):
AGTAGCCGTCTTAGCTCAGCCGGTAGAGCGCGTGGCTTTTAACCACGTGGTCGTGGGTTCGATTC
CCACAGACGGCGTTGAGTTTTGTTGTTCTATTTTACATTTTTGTTTACCGAAGAGAAGAGGGAGA
ACACGATGATCCACCACTATGCCACTGTCCATC
Found at i:4238927 original size:16 final size:16
Alignment explanation
Indices: 4238906--4238939 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
4238896 TACTTAAAAG
4238906 TTAAAACTAATTGTTA
1 TTAAAACTAATTGTTA
*
4238922 TTAAAAGTAATTGTTA
1 TTAAAACTAATTGTTA
4238938 TT
1 TT
4238940 GAATTTATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.41, C:0.03, G:0.09, T:0.47
Consensus pattern (16 bp):
TTAAAACTAATTGTTA
Found at i:4239043 original size:25 final size:25
Alignment explanation
Indices: 4239010--4239057 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
4239000 AAGATTACTT
*
4239010 ATTTGAATTTAATTACAAACAATTA
1 ATTTAAATTTAATTACAAACAATTA
4239035 ATTTAAATTTAATTACAAACAAT
1 ATTTAAATTTAATTACAAACAAT
4239058 CAAATCTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.50, C:0.08, G:0.02, T:0.40
Consensus pattern (25 bp):
ATTTAAATTTAATTACAAACAATTA
Found at i:4239267 original size:27 final size:27
Alignment explanation
Indices: 4239237--4239348 Score: 126
Period size: 27 Copynumber: 4.3 Consensus size: 27
4239227 GTTAAAAAAT
4239237 TATATTAAAACAATATAATTATAACAG
1 TATATTAAAACAATATAATTATAACAG
* *
4239264 TATATTAAAACAATATATTTATAATAG
1 TATATTAAAACAATATAATTATAACAG
*
4239291 TATATTAAAACATTAT-ATTATAA-A-
1 TATATTAAAACAATATAATTATAACAG
* *
4239315 T-T-TTATAACAATATATTATTAAAACAG
1 TATATTAAAACAATATA--ATTATAACAG
4239342 TATATTA
1 TATATTA
4239349 CATTAAAAAT
Statistics
Matches: 71, Mismatches: 7, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
22 10 0.14
23 1 0.01
24 1 0.01
25 7 0.10
26 7 0.10
27 41 0.58
28 1 0.01
29 3 0.04
ACGTcount: A:0.52, C:0.05, G:0.03, T:0.40
Consensus pattern (27 bp):
TATATTAAAACAATATAATTATAACAG
Found at i:4239480 original size:15 final size:15
Alignment explanation
Indices: 4239460--4239493 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
4239450 AAACTAAAAT
*
4239460 TTAATGTGTTAGAAA
1 TTAATGTGTTACAAA
4239475 TTAATGTGTTACAAA
1 TTAATGTGTTACAAA
4239490 TTAA
1 TTAA
4239494 ATGTATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.41, C:0.03, G:0.15, T:0.41
Consensus pattern (15 bp):
TTAATGTGTTACAAA
Found at i:4239547 original size:13 final size:13
Alignment explanation
Indices: 4239529--4239620 Score: 132
Period size: 13 Copynumber: 7.0 Consensus size: 13
4239519 AATTTAAAAG
*
4239529 TTAAAACATTATA
1 TTAAAACAATATA
4239542 TTAAAACAATATAA
1 TTAAAACAATAT-A
* *
4239556 TTATAACAGTATA
1 TTAAAACAATATA
4239569 TTAAAACAATATA
1 TTAAAACAATATA
4239582 TTAAAACAATATA
1 TTAAAACAATATA
4239595 TTAAAA-AAGTATA
1 TTAAAACAA-TATA
4239608 TTAAAACAATATA
1 TTAAAACAATATA
4239621 ACCGAACTCA
Statistics
Matches: 71, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
12 2 0.03
13 56 0.79
14 13 0.18
ACGTcount: A:0.59, C:0.07, G:0.02, T:0.33
Consensus pattern (13 bp):
TTAAAACAATATA
Found at i:4239574 original size:40 final size:39
Alignment explanation
Indices: 4239529--4239620 Score: 148
Period size: 39 Copynumber: 2.3 Consensus size: 39
4239519 AATTTAAAAG
* * *
4239529 TTAAAACATTATATTAAAACAATATAATTATAACAGTATA
1 TTAAAACAATATATTAAAACAATAT-ATTAAAAAAGTATA
4239569 TTAAAACAATATATTAAAACAATATATTAAAAAAGTATA
1 TTAAAACAATATATTAAAACAATATATTAAAAAAGTATA
4239608 TTAAAACAATATA
1 TTAAAACAATATA
4239621 ACCGAACTCA
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
39 25 0.51
40 24 0.49
ACGTcount: A:0.59, C:0.07, G:0.02, T:0.33
Consensus pattern (39 bp):
TTAAAACAATATATTAAAACAATATATTAAAAAAGTATA
Found at i:4241375 original size:18 final size:18
Alignment explanation
Indices: 4241352--4241388 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
4241342 TATAGTTTGA
4241352 TATTCGA-TTTATTCGAAT
1 TATTCGAGTTT-TTCGAAT
4241370 TATTCGAGTTTTTCGAAT
1 TATTCGAGTTTTTCGAAT
4241388 T
1 T
4241389 CGAAAACTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 15 0.83
19 3 0.17
ACGTcount: A:0.24, C:0.11, G:0.14, T:0.51
Consensus pattern (18 bp):
TATTCGAGTTTTTCGAAT
Found at i:4261523 original size:4 final size:4
Alignment explanation
Indices: 4261514--4261602 Score: 60
Period size: 5 Copynumber: 20.8 Consensus size: 4
4261504 GGGAAAGGAG
4261514 AAGA AAGA AAGA AAG- AA-A AAGA AAGAA AAGGA AAGGA GAAGA AAGA
1 AAGA AAGA AAGA AAGA AAGA AAGA AAG-A AA-GA AA-GA -AAGA AAGA
4261560 AAGAA AAGTA AAGGA GAAGA AAG- AA-A AAGA AAGGA AAGGA AAG
1 AAG-A AAG-A AA-GA -AAGA AAGA AAGA AAGA AA-GA AA-GA AAG
4261603 GAGAAGAAGA
Statistics
Matches: 73, Mismatches: 1, Indels: 22
0.76 0.01 0.23
Matches are distributed among these distances:
3 8 0.11
4 29 0.40
5 30 0.41
6 6 0.08
ACGTcount: A:0.70, C:0.00, G:0.29, T:0.01
Consensus pattern (4 bp):
AAGA
Found at i:4261531 original size:34 final size:33
Alignment explanation
Indices: 4261492--4261606 Score: 99
Period size: 34 Copynumber: 3.4 Consensus size: 33
4261482 GTGGATGGAG
4261492 AAGAAAAGGAGAGGGAAAGGAGAAGAAAGAAAGA
1 AAGAAAAGGAGA-GGAAAGGAGAAGAAAGAAAGA
* * *
4261526 AAGAAAAAGAAAGAAAAGGA-AAGGAGAAGAAAGA
1 AAGAAAAGGAGAGGAAAGGAGAA-GA-AAGAAAGA
* * *
4261560 AAGAAAAGTAAAGGAGAAGAAAGAA-AAAGAAAGGA
1 AAGAAAAGGAGAGGA-AAG-GAGAAGAAAGAAA-GA
*
4261595 AAGGAAAGGAGA
1 AAGAAAAGGAGA
4261607 AGAAGAAGAC
Statistics
Matches: 65, Mismatches: 10, Indels: 11
0.76 0.12 0.13
Matches are distributed among these distances:
32 2 0.03
33 9 0.14
34 36 0.55
35 15 0.23
36 1 0.02
37 2 0.03
ACGTcount: A:0.66, C:0.00, G:0.33, T:0.01
Consensus pattern (33 bp):
AAGAAAAGGAGAGGAAAGGAGAAGAAAGAAAGA
Found at i:4261534 original size:10 final size:10
Alignment explanation
Indices: 4261521--4261641 Score: 75
Period size: 10 Copynumber: 11.3 Consensus size: 10
4261511 GAGAAGAAAG
4261521 AAAGAAAGAA
1 AAAGAAAGAA
4261531 AAAGAAAGAA
1 AAAGAAAGAA
*
4261541 AAGGAAAGGAGAA
1 AAAG-AA--AGAA
4261554 GAAAGAAAG-A
1 -AAAGAAAGAA
*
4261564 AAAGTAAAGGA
1 AAAG-AAAGAA
*
4261575 GAAGAAAGAA
1 AAAGAAAGAA
*
4261585 AAAGAAAGGA
1 AAAGAAAGAA
*
4261595 AAGGAAAGGAGA
1 AAAGAAA-GA-A
4261607 AGAAG-AAGACCA
1 A-AAGAAAGA--A
* *
4261619 AAGGAAGGAA
1 AAAGAAAGAA
4261629 AAAGAAAGAA
1 AAAGAAAGAA
4261639 AAA
1 AAA
4261642 TAGAAGTAAA
Statistics
Matches: 86, Mismatches: 14, Indels: 22
0.70 0.11 0.18
Matches are distributed among these distances:
9 4 0.05
10 49 0.57
11 13 0.15
12 9 0.10
13 8 0.09
14 3 0.03
ACGTcount: A:0.69, C:0.02, G:0.29, T:0.01
Consensus pattern (10 bp):
AAAGAAAGAA
Found at i:4261547 original size:24 final size:24
Alignment explanation
Indices: 4261520--4261602 Score: 94
Period size: 25 Copynumber: 3.2 Consensus size: 24
4261510 GGAGAAGAAA
4261520 GAAAGAAAGAAAAAGAAAGAAAAG
1 GAAAGAAAGAAAAAGAAAGAAAAG
*
4261544 GAAAGGAGAAGAAAGAAAGAAAAGTAAAG
1 GAAA-GA-AAG-AA-AAAG-AAAGAAAAG
*
4261573 GAGAAGAAAGAAAAAGAAAGGAAAG
1 GA-AAGAAAGAAAAAGAAAGAAAAG
4261598 GAAAG
1 GAAAG
4261603 GAGAAGAAGA
Statistics
Matches: 51, Mismatches: 2, Indels: 12
0.78 0.03 0.18
Matches are distributed among these distances:
24 7 0.14
25 12 0.24
26 7 0.14
27 4 0.08
28 7 0.14
29 12 0.24
30 2 0.04
ACGTcount: A:0.69, C:0.00, G:0.30, T:0.01
Consensus pattern (24 bp):
GAAAGAAAGAAAAAGAAAGAAAAG
Found at i:4261634 original size:54 final size:54
Alignment explanation
Indices: 4261521--4261641 Score: 167
Period size: 54 Copynumber: 2.2 Consensus size: 54
4261511 GAGAAGAAAG
4261521 AAAGAAAGAAAAAGAAAGAAAAGGAAAGGAGAAGAAAGAAAGAAAAGTAAAGGA
1 AAAGAAAGAAAAAGAAAGAAAAGGAAAGGAGAAGAAAGAAAGAAAAGTAAAGGA
* * *
4261575 GAAGAAAGAAAAAGAAAGGAAAGGAAAGGAGAAG-AAG-AAGACCAAAG-GAAGGAA
1 AAAGAAAGAAAAAGAAAGAAAAGGAAAGGAGAAGAAAGAAAGA--AAAGTAAAGG-A
4261629 AAAGAAAGAAAAA
1 AAAGAAAGAAAAA
4261642 TAGAAGTAAA
Statistics
Matches: 60, Mismatches: 4, Indels: 6
0.86 0.06 0.09
Matches are distributed among these distances:
52 4 0.07
53 7 0.12
54 49 0.82
ACGTcount: A:0.69, C:0.02, G:0.29, T:0.01
Consensus pattern (54 bp):
AAAGAAAGAAAAAGAAAGAAAAGGAAAGGAGAAGAAAGAAAGAAAAGTAAAGGA
Found at i:4262166 original size:156 final size:157
Alignment explanation
Indices: 4261959--4262624 Score: 901
Period size: 156 Copynumber: 4.3 Consensus size: 157
4261949 CGAAAGTAAT
* *
4261959 AAAATACGA-ACAAAGGGCCGAAATAAGGG-TA-TTTACTAAATATT-TTAAAAAAACAGAATTA
1 AAAATACGAGA-AAAGGGCCGAAATAAGGGTTATTTTACTAAAT-TTATTTAAAAAACACAATTA
**
4262020 ATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATACAAAAATAATATAT
64 ATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATATGAAAATAATATAT
4262085 TTTTATTGAAAGTAATAAAATCCGGG-AA
129 TTTTATTGAAAGTAATAAAATCCGGGAAA
** * * *
4262113 AAAGCACGAGAAAAGGGCCAAAATAAGGGTTATTTTTCTAAATTTATTT-AAAAACAAAATTAAT
1 AAAATACGAGAAAAGGGCCGAAATAAGGGTTATTTTACTAAATTTATTTAAAAAACACAATTAAT
*
4262177 TAATACATTTCAAACATAATGTACTAAAATAATATAAAATAATAAAATATGAAAATAATATATTT
66 TAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATATGAAAATAATATATTT
*
4262242 TTATTAAAAGTAATAAAATCCGGGAAA
131 TTATTGAAAGTAATAAAATCCGGGAAA
* * ** * *
4262269 AAAATACGAGTAAAGGGCCGAAATAATGGTT-TTTTAAAAAAATTTATTTAAAAAACACACTAAA
1 AAAATACGAGAAAAGGGCCGAAATAAGGGTTATTTT-ACTAAATTTATTTAAAAAACACAATTAA
*
4262333 TTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATATGAAAATAATATA-T
65 TTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATATGAAAATAATATATT
*
4262397 TTTATTGAAAATAATAAAATCCGGGAAA
130 TTTATTGAAAGTAATAAAATCCGGGAAA
* * * * * *
4262425 AAAATACGAGCAAAGAGCCGAAATAAAGGTTATTTTTCTAAATTTATTTAAAAAAACACACTGAA
1 AAAATACGAGAAAAGGGCCGAAATAAGGGTTATTTTACTAAATTTATTT-AAAAAACACAATTAA
* *
4262490 TTAATGA-ATTTCAAACATAATGTACTAAAATAATGTAAAGTAATAAAAT-TAGAAAATAGTATA
65 TTAAT-ACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATAT-GAAAATAATATA
4262553 TTTTT-TT-AAAGTAATAAAATCCGGGAAA
128 TTTTTATTGAAAGTAATAAAATCCGGGAAA
* * *
4262581 AAAATACGA-ACAAAAGTCCGAAATAAGTGTT-TTTTACTAAATTT
1 AAAATACGAGA-AAAGGGCCGAAATAAGGGTTATTTTACTAAATTT
4262625 TTTTTAAAGT
Statistics
Matches: 457, Mismatches: 42, Indels: 25
0.87 0.08 0.05
Matches are distributed among these distances:
154 24 0.05
155 120 0.26
156 159 0.35
157 149 0.33
158 5 0.01
ACGTcount: A:0.52, C:0.08, G:0.10, T:0.30
Consensus pattern (157 bp):
AAAATACGAGAAAAGGGCCGAAATAAGGGTTATTTTACTAAATTTATTTAAAAAACACAATTAAT
TAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATATGAAAATAATATATTT
TTATTGAAAGTAATAAAATCCGGGAAA
Found at i:4262233 original size:16 final size:15
Alignment explanation
Indices: 4262207--4262236 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
4262197 GTACTAAAAT
4262207 AATATAAAATAATAA
1 AATATAAAATAATAA
4262222 AATATGAAAATAATA
1 AATAT-AAAATAATA
4262237 TATTTTTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (15 bp):
AATATAAAATAATAA
Found at i:4262377 original size:157 final size:155
Alignment explanation
Indices: 4261959--4262624 Score: 889
Period size: 157 Copynumber: 4.3 Consensus size: 155
4261949 CGAAAGTAAT
* * * * *
4261959 AAAATACGAACAAAGGGCCGAAATAAGGGTATTTACTAAATATT-TTAAAAAAACAGAATTAATT
1 AAAATACGAGCAAAGGGCCGAAATAAGGTTTTTTACTAAAT-TTATTTAAAAAACACAATTAATT
* **
4262023 AATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATACAAAAATAATATATTTT
65 AATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATATGAAAATAATATATTTT
*
4262088 TATTGAAAGTAATAAAATCCGGG-AA
130 TATTAAAAGTAATAAAATCCGGGAAA
** * * * *
4262113 AAAGCACGAGAAAAGGGCCAAAATAAGGGTTATTTTTCTAAATTTATTT-AAAAACAAAATTAAT
1 AAAATACGAGCAAAGGGCCGAAATAA-GGTT-TTTTACTAAATTTATTTAAAAAACACAATTAAT
* *
4262177 TAATACATTTCAAACATAATGTACTAAAATAATATAAAATAATAAAATATGAAAATAATATATTT
64 TAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATATGAAAATAATATATTT
4262242 TTATTAAAAGTAATAAAATCCGGGAAA
129 TTATTAAAAGTAATAAAATCCGGGAAA
* ** * *
4262269 AAAATACGAGTAAAGGGCCGAAATAATGGTTTTTTAAAAAAATTTATTTAAAAAACACACTAAAT
1 AAAATACGAGCAAAGGGCCGAAATAA-GGTTTTTT-ACTAAATTTATTTAAAAAACACAATTAAT
4262334 TAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATATGAAAATAATATA-TT
64 TAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATATGAAAATAATATATTT
4262398 TTATTGAAAA-TAATAAAATCCGGGAAA
129 TTATT-AAAAGTAATAAAATCCGGGAAA
* * * *
4262425 AAAATACGAGCAAAGAGCCGAAATAAAGGTTATTTTTCTAAATTTATTTAAAAAAACACACTGAA
1 AAAATACGAGCAAAGGGCCGAAAT-AAGGTT-TTTTACTAAATTTATTT-AAAAAACACAATTAA
* * *
4262490 TTAATGAATTTCAAACATAATGTACTAAAATAATGTAAAGTAATAAAAT-TAGAAAATAGTATAT
63 TTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATAT-GAAAATAATATAT
4262554 TTTT-TT-AAAGTAATAAAATCCGGGAAA
127 TTTTATTAAAAGTAATAAAATCCGGGAAA
* * *
4262581 AAAATACGAACAAAAGTCCGAAATAAGTGTTTTTTACTAAATTT
1 AAAATACGAGCAAAGGGCCGAAATAAG-GTTTTTTACTAAATTT
4262625 TTTTTAAAGT
Statistics
Matches: 457, Mismatches: 41, Indels: 27
0.87 0.08 0.05
Matches are distributed among these distances:
154 21 0.05
155 126 0.28
156 150 0.33
157 156 0.34
158 4 0.01
ACGTcount: A:0.52, C:0.08, G:0.10, T:0.30
Consensus pattern (155 bp):
AAAATACGAGCAAAGGGCCGAAATAAGGTTTTTTACTAAATTTATTTAAAAAACACAATTAATTA
ATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATATGAAAATAATATATTTTT
ATTAAAAGTAATAAAATCCGGGAAA
Found at i:4267547 original size:40 final size:40
Alignment explanation
Indices: 4267477--4267652 Score: 146
Period size: 39 Copynumber: 4.4 Consensus size: 40
4267467 ACTAACACAA
** *
4267477 TAACAATAATAA-TAGTTTTTTACTCAAAATAATACTAAC
1 TAACAATAATAATTAGGGTTTTACTAAAAATAATACTAAC
4267516 TAACAATAATAATTAGGGTTTTACTAAAAAT-A-A-TAAC
1 TAACAATAATAATTAGGGTTTTACTAAAAATAATACTAAC
* **
4267553 TAACAATAATATTTAGGGTTTTTACTATAATCCTAATAACTAACC
1 TAACAATAATAATTAGGG-TTTTACTA-AA-AATAAT-ACTAA-C
* ** * **
4267598 ATAATAATAAT-ATTAGTTTTTTACTAACAATAATACTAGG
1 -TAACAATAATAATTAGGGTTTTACTAAAAATAATACTAAC
*
4267638 TAACAATAATTATTA
1 TAACAATAATAATTA
4267653 ATAACTAAAC
Statistics
Matches: 110, Mismatches: 16, Indels: 21
0.75 0.11 0.14
Matches are distributed among these distances:
37 21 0.19
38 9 0.08
39 24 0.22
40 20 0.18
41 5 0.05
42 4 0.04
43 2 0.02
44 11 0.10
45 5 0.05
46 9 0.08
ACGTcount: A:0.47, C:0.11, G:0.06, T:0.37
Consensus pattern (40 bp):
TAACAATAATAATTAGGGTTTTACTAAAAATAATACTAAC
Found at i:4267562 original size:37 final size:38
Alignment explanation
Indices: 4267477--4267605 Score: 145
Period size: 40 Copynumber: 3.3 Consensus size: 38
4267467 ACTAACACAA
** *
4267477 TAACAATAATAA-TAGTTTTTTACTCAAAATAATACTAAC
1 TAACAATAATAATTAGGGTTTTACT--AAATAATAATAAC
4267516 TAACAATAATAATTAGGGTTTTACTAAA-AATAATAAC
1 TAACAATAATAATTAGGGTTTTACTAAATAATAATAAC
* **
4267553 TAACAATAATATTTAGGGTTTTTACTATAATCCTAATAAC
1 TAACAATAATAATTAGGG-TTTTACTA-AATAATAATAAC
*
4267593 TAACCATAATAAT
1 TAACAATAATAAT
4267606 AATATTAGTT
Statistics
Matches: 78, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
37 25 0.32
38 11 0.14
39 14 0.18
40 28 0.36
ACGTcount: A:0.47, C:0.12, G:0.05, T:0.36
Consensus pattern (38 bp):
TAACAATAATAATTAGGGTTTTACTAAATAATAATAAC
Found at i:4267685 original size:122 final size:121
Alignment explanation
Indices: 4267456--4267682 Score: 291
Period size: 122 Copynumber: 1.9 Consensus size: 121
4267446 GTTTAACCAC
4267456 TAATCCTAATAACTAACACAATAACAATAATAATAGTTTTTTACTCAAAATAATACTAACTAACA
1 TAATCCTAATAACTAACACAATAACAATAATAATAGTTTTTTACTCAAAATAATACTAACTAACA
* * *
4267521 ATAATAATTAGGGTTTTACTAAAAATAATAACTAACAATAATATTTAGGGTTTTTACTA
66 ATAATAATTA--G-ATAACTAAAAATAAAAACTAACAATAATATTTAGGGTTTTTACTA
* * **
4267580 TAATCCTAATAACTAAC-C-ATAATAATAATATTAGTTTTTTACT-AACAATAATACTAGGTAAC
1 TAATCCTAATAACTAACACAATAACAATAATAATAGTTTTTTACTCAA-AATAATACTAACTAAC
* **
4267642 AATAATTATTA-ATAACTAAACCCTAAAAACTAACAATAATA
65 AATAATAATTAGATAACTAAA-AATAAAAACTAACAATAATA
4267683 ATACTAACTA
Statistics
Matches: 91, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
118 7 0.08
119 17 0.19
121 2 0.02
122 47 0.52
123 1 0.01
124 17 0.19
ACGTcount: A:0.49, C:0.13, G:0.04, T:0.33
Consensus pattern (121 bp):
TAATCCTAATAACTAACACAATAACAATAATAATAGTTTTTTACTCAAAATAATACTAACTAACA
ATAATAATTAGATAACTAAAAATAAAAACTAACAATAATATTTAGGGTTTTTACTA
Found at i:4268566 original size:48 final size:48
Alignment explanation
Indices: 4268499--4268594 Score: 192
Period size: 48 Copynumber: 2.0 Consensus size: 48
4268489 GGGAAAAAAC
4268499 AGATTACAAATCAAAGACTTGTCAATGTTACTTGATTATGATTTGAAA
1 AGATTACAAATCAAAGACTTGTCAATGTTACTTGATTATGATTTGAAA
4268547 AGATTACAAATCAAAGACTTGTCAATGTTACTTGATTATGATTTGAAA
1 AGATTACAAATCAAAGACTTGTCAATGTTACTTGATTATGATTTGAAA
4268595 TTTTTCCTAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.35
Consensus pattern (48 bp):
AGATTACAAATCAAAGACTTGTCAATGTTACTTGATTATGATTTGAAA
Found at i:4269679 original size:3 final size:3
Alignment explanation
Indices: 4269671--4269698 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
4269661 AATATACAAC
4269671 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
4269699 GATTTGGACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:4272794 original size:30 final size:32
Alignment explanation
Indices: 4272734--4272797 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
4272724 CACTTATTTT
4272734 CACCTATGCCGAATGCATACACATAAATATATC
1 CACCTATGCCGAATGCA-ACACATAAATATATC
* *
4272767 CACCTATGCCGAATGCAACATATATATATAT
1 CACCTATGCCGAATGCAACACATAAATATAT
4272798 ACATATCTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.39, C:0.25, G:0.09, T:0.27
Consensus pattern (32 bp):
CACCTATGCCGAATGCAACACATAAATATATC
Found at i:4273057 original size:41 final size:41
Alignment explanation
Indices: 4273012--4273208 Score: 317
Period size: 41 Copynumber: 4.8 Consensus size: 41
4273002 ACCGGCTCTT
*
4273012 AGCCTGCTAGACTTATAGTCCGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
4273053 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
4273094 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
4273135 AGCCTGCTAGACTTATAGTCTGAATAAT-T-TCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTG-A-AATGTGTCACCGGCATTA
* * * *
4273176 AGCCTGCTAGACGTAAAGTCTGAATTATGTCAC
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCAC
4273209 TAACGATAAA
Statistics
Matches: 148, Mismatches: 4, Indels: 8
0.93 0.03 0.05
Matches are distributed among these distances:
39 2 0.01
40 2 0.01
41 139 0.94
42 2 0.01
43 3 0.02
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (41 bp):
AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
Found at i:4274762 original size:13 final size:13
Alignment explanation
Indices: 4274744--4274768 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4274734 CCATCGAATG
4274744 CACACAAAATAAA
1 CACACAAAATAAA
4274757 CACACAAAATAA
1 CACACAAAATAA
4274769 TATTAAAATA
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:0.68, C:0.24, G:0.00, T:0.08
Consensus pattern (13 bp):
CACACAAAATAAA
Found at i:4280122 original size:21 final size:21
Alignment explanation
Indices: 4280090--4280132 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
4280080 CTTTTTCTTA
4280090 TTTTAAACAAAAACATAATTTT
1 TTTTAAACAAAAACAT-ATTTT
*
4280112 TTTTAAA-AAAAATATATTTT
1 TTTTAAACAAAAACATATTTT
4280132 T
1 T
4280133 AAAAAATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 6 0.30
21 7 0.35
22 7 0.35
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.47
Consensus pattern (21 bp):
TTTTAAACAAAAACATATTTT
Found at i:4280526 original size:16 final size:16
Alignment explanation
Indices: 4280507--4280567 Score: 61
Period size: 16 Copynumber: 3.7 Consensus size: 16
4280497 ACAATTTTTA
4280507 TATTTTTAAAACATTT
1 TATTTTTAAAACATTT
*
4280523 TATTTTTAAATC-TTT
1 TATTTTTAAAACATTT
* *
4280538 TGAATTTTAAACAGATTT
1 T-ATTTTTAAA-ACATTT
4280556 TATTTTTTAAAA
1 TA-TTTTTAAAA
4280568 TATATAACTT
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
15 4 0.11
16 19 0.53
17 2 0.06
18 11 0.31
ACGTcount: A:0.36, C:0.05, G:0.03, T:0.56
Consensus pattern (16 bp):
TATTTTTAAAACATTT
Found at i:4280579 original size:16 final size:16
Alignment explanation
Indices: 4280560--4280590 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4280550 AGATTTTATT
4280560 TTTTAAAATATATAAC
1 TTTTAAAATATATAAC
*
4280576 TTTTAAAATTTATAA
1 TTTTAAAATATATAA
4280591 TCCATTTAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (16 bp):
TTTTAAAATATATAAC
Found at i:4290058 original size:11 final size:10
Alignment explanation
Indices: 4290038--4290107 Score: 54
Period size: 10 Copynumber: 7.1 Consensus size: 10
4290028 TGTGTATGAA
4290038 TTATATTTTT
1 TTATATTTTT
*
4290048 TTATAATTTT
1 TTATATTTTT
*
4290058 TTA-ATTTAT
1 TTATATTTTT
* *
4290067 ATATACTTTT
1 TTATATTTTT
* *
4290077 CTAAATTTTT
1 TTATATTTTT
*
4290087 TTATATATTTA
1 TTATAT-TTTT
4290098 TT-TATTTTT
1 TTATATTTTT
4290107 T
1 T
4290108 ATAATGTTTC
Statistics
Matches: 45, Mismatches: 13, Indels: 5
0.71 0.21 0.08
Matches are distributed among these distances:
9 10 0.22
10 30 0.67
11 5 0.11
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (10 bp):
TTATATTTTT
Found at i:4302028 original size:4 final size:4
Alignment explanation
Indices: 4302019--4302045 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
4302009 CTAATTAAAC
4302019 ATTA ATTA ATTA ATTA ATTA ATTA ATT
1 ATTA ATTA ATTA ATTA ATTA ATTA ATT
4302046 TTTTTAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
ATTA
Found at i:4305333 original size:22 final size:22
Alignment explanation
Indices: 4305271--4305356 Score: 88
Period size: 22 Copynumber: 4.0 Consensus size: 22
4305261 AAATTGCCTT
4305271 TAAAATAGTAGCAAAATTAATAA
1 TAAAATAGTAGCAAAA-TAATAA
* *
4305294 TAAAACA--AG-AACAATAATAT
1 TAAAATAGTAGCAA-AATAATAA
*
4305314 TAAAATAGTAGCAACATAATAA
1 TAAAATAGTAGCAAAATAATAA
* *
4305336 TGAAATGGTAGCAAAATAATA
1 TAAAATAGTAGCAAAATAATA
4305357 GAAAAACAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
20 13 0.25
21 4 0.08
22 26 0.51
23 8 0.16
ACGTcount: A:0.59, C:0.07, G:0.10, T:0.23
Consensus pattern (22 bp):
TAAAATAGTAGCAAAATAATAA
Found at i:4312922 original size:22 final size:22
Alignment explanation
Indices: 4312887--4312934 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
4312877 AAAAATAATT
* *
4312887 AAATTTTAATAAAAATATT-TAA
1 AAATTATAAGAAAAA-ATTATAA
4312909 AAATTATAAGAAAAAATTATAA
1 AAATTATAAGAAAAAATTATAA
4312931 AAAT
1 AAAT
4312935 CACAAAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 3 0.13
22 20 0.87
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (22 bp):
AAATTATAAGAAAAAATTATAA
Found at i:4312934 original size:9 final size:9
Alignment explanation
Indices: 4312920--4313083 Score: 63
Period size: 9 Copynumber: 18.0 Consensus size: 9
4312910 AATTATAAGA
4312920 AAAAATTAT
1 AAAAATTAT
* *
4312929 AAAAATCACA
1 AAAAATTA-T
*
4312939 AAAAATTGT
1 AAAAATTAT
*
4312948 AAAATTTTAT
1 AAAA-ATTAT
*
4312958 AAAAATCAT
1 AAAAATTAT
4312967 AAAAATTAT
1 AAAAATTAT
4312976 -AAAATATAT
1 AAAAAT-TAT
*
4312985 AGAAA-TAT
1 AAAAATTAT
*
4312993 -AGAA--A-
1 AAAAATTAT
4312998 AAAAATTAT
1 AAAAATTAT
*
4313007 -AAAATTTT
1 AAAAATTAT
* *
4313015 ATAAAGTCAT
1 A-AAAATTAT
4313025 AAGAAAATTAT
1 -A-AAAATTAT
* *
4313036 AAAAAATGT
1 AAAAATTAT
*
4313045 AAAGAAATAT
1 AAA-AATTAT
* *
4313055 AAAATTTGTAA
1 AAAA-AT-TAT
4313066 AAAAATTAT
1 AAAAATTAT
4313075 AAAAATTAT
1 AAAAATTAT
4313084 CGTACTAAAA
Statistics
Matches: 112, Mismatches: 29, Indels: 28
0.66 0.17 0.17
Matches are distributed among these distances:
6 4 0.04
7 2 0.02
8 16 0.14
9 46 0.41
10 31 0.28
11 13 0.12
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (9 bp):
AAAAATTAT
Done.