Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 241 of 320
Found at i:79160488 original size:12 final size:12
Alignment explanation
Indices: 79160471--79160495 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
79160461 TTTTGGATGA
79160471 ATTTGATTGAAT
1 ATTTGATTGAAT
79160483 ATTTGATTGAAT
1 ATTTGATTGAAT
79160495 A
1 A
79160496 AGTTTAATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (12 bp):
ATTTGATTGAAT
Found at i:79160946 original size:16 final size:16
Alignment explanation
Indices: 79160925--79160959 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
79160915 AAATCAGACT
79160925 TTGAGTCTAGCAGGCC
1 TTGAGTCTAGCAGGCC
79160941 TTGAGTCTAGCAGGCC
1 TTGAGTCTAGCAGGCC
79160957 TTG
1 TTG
79160960 CGCCGGTGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.17, C:0.23, G:0.31, T:0.29
Consensus pattern (16 bp):
TTGAGTCTAGCAGGCC
Found at i:79169380 original size:20 final size:20
Alignment explanation
Indices: 79169343--79169381 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
79169333 TTACAATAAT
79169343 AATTATGTTAAAATTTATTA
1 AATTATGTTAAAATTTATTA
*
79169363 AATTA-GTTTAAATATTATT
1 AATTATGTTAAAAT-TTATT
79169382 TTTTATGAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (20 bp):
AATTATGTTAAAATTTATTA
Found at i:79172705 original size:21 final size:19
Alignment explanation
Indices: 79172681--79172719 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 19
79172671 GCGATGAAGA
79172681 ATATTTATAGAAAAAAAAAGC
1 ATATTTA-A-AAAAAAAAAGC
79172702 ATATTTAAAAAAAAAAAG
1 ATATTTAAAAAAAAAAAG
79172720 TTGTGATGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 10 0.56
20 1 0.06
21 7 0.39
ACGTcount: A:0.67, C:0.03, G:0.08, T:0.23
Consensus pattern (19 bp):
ATATTTAAAAAAAAAAAGC
Found at i:79176474 original size:30 final size:30
Alignment explanation
Indices: 79176440--79176498 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
79176430 ATAATATTAC
*
79176440 ATTATCTTATTTAATTCATTTGATTAAAAT
1 ATTATCTTATTTAATTCATTTAATTAAAAT
79176470 ATTATCTTATTTAATTCATTTAATTAAAA
1 ATTATCTTATTTAATTCATTTAATTAAAA
79176499 CGTAAGATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.39, C:0.07, G:0.02, T:0.53
Consensus pattern (30 bp):
ATTATCTTATTTAATTCATTTAATTAAAAT
Found at i:79179340 original size:24 final size:23
Alignment explanation
Indices: 79179307--79179377 Score: 58
Period size: 21 Copynumber: 3.1 Consensus size: 23
79179297 GTTTACCTCC
*
79179307 GTGAGGTTAAAAATAGCGGTGGCA
1 GTGAGATT-AAAATAGCGGTGGCA
* * * *
79179331 GTGAGATT-AATTA-CTGTAGCG
1 GTGAGATTAAAATAGCGGTGGCA
79179352 GTGAGATTAGAAATAGCGGTGG-A
1 GTGAGATTA-AAATAGCGGTGGCA
79179375 GTG
1 GTG
79179378 TGTGTTTAAA
Statistics
Matches: 35, Mismatches: 9, Indels: 7
0.69 0.18 0.14
Matches are distributed among these distances:
21 13 0.37
22 4 0.11
23 7 0.20
24 11 0.31
ACGTcount: A:0.31, C:0.07, G:0.37, T:0.25
Consensus pattern (23 bp):
GTGAGATTAAAATAGCGGTGGCA
Found at i:79184598 original size:21 final size:21
Alignment explanation
Indices: 79184572--79184612 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
79184562 ATCTGCTCAA
* *
79184572 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
79184593 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
79184613 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:79200987 original size:43 final size:43
Alignment explanation
Indices: 79200922--79201039 Score: 166
Period size: 43 Copynumber: 2.7 Consensus size: 43
79200912 GATCATTATT
* * *
79200922 TTTAGCGGCGTTTGTGAGAAAAGTGCCGCTAAAGGTCATGATC
1 TTTAGCGACGTTTGTGAAAAAAGCGCCGCTAAAGGTCATGATC
*
79200965 TTTAGCGACGTTTGTGAAAAAAGCGCCGCTAAAGGTCATGGTC
1 TTTAGCGACGTTTGTGAAAAAAGCGCCGCTAAAGGTCATGATC
* *
79201008 TTTAGC-AGCGTTTGCGAAAAAAGCGCCCCTAA
1 TTTAGCGA-CGTTTGTGAAAAAAGCGCCGCTAA
79201040 TTTTTGCGGC
Statistics
Matches: 68, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
42 1 0.01
43 67 0.99
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.25
Consensus pattern (43 bp):
TTTAGCGACGTTTGTGAAAAAAGCGCCGCTAAAGGTCATGATC
Found at i:79202262 original size:5 final size:5
Alignment explanation
Indices: 79202249--79202283 Score: 61
Period size: 5 Copynumber: 7.0 Consensus size: 5
79202239 TTATTTTACA
*
79202249 AAAAA AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG
79202284 GGCTAGGGGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:79204197 original size:17 final size:17
Alignment explanation
Indices: 79204161--79204214 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
79204151 AATGAGCAGA
*
79204161 TCACATAAATTATCAAT
1 TCACATAAAATATCAAT
**
79204178 TCACATAAAATATCTGT
1 TCACATAAAATATCAAT
* * *
79204195 TCATATGAAATAACAAT
1 TCACATAAAATATCAAT
79204212 TCA
1 TCA
79204215 TACAATTTAA
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.46, C:0.17, G:0.04, T:0.33
Consensus pattern (17 bp):
TCACATAAAATATCAAT
Found at i:79204917 original size:18 final size:18
Alignment explanation
Indices: 79204894--79204928 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
79204884 TCACAATATA
79204894 CAGTTTGACAAATTAATG
1 CAGTTTGACAAATTAATG
* *
79204912 CAGTTTGCCATATTAAT
1 CAGTTTGACAAATTAAT
79204929 ACAGGTTACC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.37
Consensus pattern (18 bp):
CAGTTTGACAAATTAATG
Found at i:79204944 original size:18 final size:18
Alignment explanation
Indices: 79204902--79204950 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
79204892 TACAGTTTGA
* * *
79204902 CAAATTAATGCAGTTTGC
1 CAAATTAATACAGGTTAC
*
79204920 CATATTAATACAGGTTAC
1 CAAATTAATACAGGTTAC
*
79204938 CAAATTAACACAG
1 CAAATTAATACAG
79204951 TTCGCCGTAA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.41, C:0.18, G:0.12, T:0.29
Consensus pattern (18 bp):
CAAATTAATACAGGTTAC
Found at i:79205356 original size:23 final size:23
Alignment explanation
Indices: 79205325--79205368 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
79205315 TATATATTAT
79205325 ATTATATATATAATAGTAAAATCC
1 ATTATATATATAAT-GTAAAATCC
*
79205349 ATTA-ATATATTATGTAAAAT
1 ATTATATATATAATGTAAAAT
79205369 AAAGACATGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
23 8 0.42
24 4 0.21
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.41
Consensus pattern (23 bp):
ATTATATATATAATGTAAAATCC
Found at i:79209353 original size:30 final size:27
Alignment explanation
Indices: 79209319--79209377 Score: 73
Period size: 30 Copynumber: 2.1 Consensus size: 27
79209309 ATGTAATATA
79209319 AACATATAAGAAAAATAATAGATATAAAGT
1 AACATATAA-AAAAAT-ATAGATAT-AAGT
* *
79209349 AACATATAAAACAATATATATATAAGT
1 AACATATAAAAAAATATAGATATAAGT
79209376 AA
1 AA
79209378 TAAATATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
27 6 0.22
28 7 0.26
29 5 0.19
30 9 0.33
ACGTcount: A:0.63, C:0.05, G:0.07, T:0.25
Consensus pattern (27 bp):
AACATATAAAAAAATATAGATATAAGT
Found at i:79209465 original size:17 final size:18
Alignment explanation
Indices: 79209426--79209468 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
79209416 TAAGGAAAAT
*
79209426 AATATATATAATAAGTAAT
1 AATA-ATATAATAAGTAAA
*
79209445 AATAATAT-ATAATTAAA
1 AATAATATAATAAGTAAA
79209462 AATAATA
1 AATAATA
79209469 CTCATAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 14 0.64
18 4 0.18
19 4 0.18
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (18 bp):
AATAATATAATAAGTAAA
Found at i:79209465 original size:20 final size:19
Alignment explanation
Indices: 79209404--79209558 Score: 65
Period size: 20 Copynumber: 7.8 Consensus size: 19
79209394 GAAAAGATGT
**
79209404 AAAATAATAAT-T-TAAGG
1 AAAATAATAATATATAATA
79209421 AAAATAAT-ATATATAATA
1 AAAATAATAATATATAATA
*
79209439 AGTAATAATAATATATAATTA
1 A-AAATAATAATATATAA-TA
*
79209460 AAAATAATACTCATAATAA-A
1 AAAATAATAAT-AT-ATAATA
* *
79209480 ACAATTTTATAATATATAATA
1 A-AA-ATAATAATATATAATA
*
79209501 TAAAAGTAA-AAT-TAAAATAA
1 -AAAA-TAATAATATATAAT-A
79209521 ACAAATAATACA-ATATATATA
1 A-AAATAATA-ATATATA-ATA
79209542 ATAATATAATAA-ATATA
1 A-AA-ATAATAATATATA
79209559 GGACTAAATT
Statistics
Matches: 106, Mismatches: 13, Indels: 34
0.69 0.08 0.22
Matches are distributed among these distances:
16 2 0.02
17 9 0.08
18 4 0.04
19 15 0.14
20 30 0.28
21 28 0.26
22 18 0.17
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (19 bp):
AAAATAATAATATATAATA
Found at i:79209546 original size:17 final size:17
Alignment explanation
Indices: 79209524--79209558 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
79209514 AAAATAAACA
*
79209524 AATAATACAATATATAT
1 AATAATACAATAAATAT
*
79209541 AATAATATAATAAATAT
1 AATAATACAATAAATAT
79209558 A
1 A
79209559 GGACTAAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (17 bp):
AATAATACAATAAATAT
Found at i:79220990 original size:14 final size:14
Alignment explanation
Indices: 79220967--79221011 Score: 56
Period size: 15 Copynumber: 3.2 Consensus size: 14
79220957 ATTTATACTT
79220967 AAACTTAATTAATC
1 AAACTTAATTAATC
* *
79220981 AAATTTAATTAATTA
1 AAACTTAATTAA-TC
79220996 AAACTTAATTAA-C
1 AAACTTAATTAATC
79221009 AAA
1 AAA
79221012 AAATTAAGCT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
13 3 0.12
14 11 0.42
15 12 0.46
ACGTcount: A:0.56, C:0.09, G:0.00, T:0.36
Consensus pattern (14 bp):
AAACTTAATTAATC
Found at i:79221012 original size:14 final size:15
Alignment explanation
Indices: 79220967--79221012 Score: 60
Period size: 14 Copynumber: 3.2 Consensus size: 15
79220957 ATTTATACTT
79220967 AAACTTAATTAATC-
1 AAACTTAATTAATCA
* *
79220981 AAATTTAATTAATTA
1 AAACTTAATTAATCA
79220996 AAACTTAATTAA-CA
1 AAACTTAATTAATCA
79221010 AAA
1 AAA
79221013 AATTAAGCTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 16 0.59
15 11 0.41
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.35
Consensus pattern (15 bp):
AAACTTAATTAATCA
Found at i:79221016 original size:22 final size:22
Alignment explanation
Indices: 79220991--79221035 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
79220981 AAATTTAATT
79220991 AATTAAAACTTAATTA-ACAAAA
1 AATT-AAACTTAATTAGACAAAA
*
79221013 AATTAAGCTTAATTAGACAAAA
1 AATTAAACTTAATTAGACAAAA
79221035 A
1 A
79221036 TTAGTGGATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.60, C:0.09, G:0.04, T:0.27
Consensus pattern (22 bp):
AATTAAACTTAATTAGACAAAA
Found at i:79222917 original size:22 final size:22
Alignment explanation
Indices: 79222892--79222938 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
79222882 AAAGGCAATC
79222892 TACAAATCAAATA-TCTTAAGAT
1 TACAAATCAAATATTC-TAAGAT
*
79222914 TACAAATCAAATCTTCTAAGAT
1 TACAAATCAAATATTCTAAGAT
79222936 TAC
1 TAC
79222939 GGATCTTCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 21 0.91
23 2 0.09
ACGTcount: A:0.47, C:0.17, G:0.04, T:0.32
Consensus pattern (22 bp):
TACAAATCAAATATTCTAAGAT
Found at i:79240869 original size:5 final size:5
Alignment explanation
Indices: 79240847--79240884 Score: 58
Period size: 5 Copynumber: 7.4 Consensus size: 5
79240837 ATTATAAATA
*
79240847 ATATT ATTTT AGTATT ATATT ATATT ATATT ATATT AT
1 ATATT ATATT A-TATT ATATT ATATT ATATT ATATT AT
79240885 TTAAATGAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 26 0.87
6 4 0.13
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (5 bp):
ATATT
Found at i:79242414 original size:25 final size:25
Alignment explanation
Indices: 79242358--79242407 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
79242348 GGACTAAATC
79242358 AAGAACTTTGAAAATATTTGGACAA
1 AAGAACTTTGAAAATATTTGGACAA
79242383 AAGAACTTTGAAAATATTTGGACAA
1 AAGAACTTTGAAAATATTTGGACAA
79242408 CTTAACTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.48, C:0.08, G:0.16, T:0.28
Consensus pattern (25 bp):
AAGAACTTTGAAAATATTTGGACAA
Found at i:79243898 original size:38 final size:38
Alignment explanation
Indices: 79243847--79243923 Score: 109
Period size: 38 Copynumber: 2.0 Consensus size: 38
79243837 TTTTAAATTA
* *
79243847 ACATGTATAACCGTGACATATCTACTTAGCACCATGTT
1 ACATGTATAACCGTGACATATCCACTTAGCACCACGTT
* **
79243885 ACATGTTTAACCGTGGTATATCCACTTAGCACCACGTT
1 ACATGTATAACCGTGACATATCCACTTAGCACCACGTT
79243923 A
1 A
79243924 ATGAATCAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.31
Consensus pattern (38 bp):
ACATGTATAACCGTGACATATCCACTTAGCACCACGTT
Found at i:79244013 original size:48 final size:47
Alignment explanation
Indices: 79243887--79244023 Score: 172
Period size: 48 Copynumber: 2.9 Consensus size: 47
79243877 ACCATGTTAC
* *
79243887 ATGTTTAACCGTGGTATATCCACTTAGCACCACGTTA-ATGAATCAAT
1 ATGTATAA-CGTGGTATATCCACTTAGCACCACGTTACATGTATCAAT
* * *
79243934 ATATGTAACTGTGG--CATCCACTTAGCACCACGTTACATGTATCAAT
1 ATGTATAAC-GTGGTATATCCACTTAGCACCACGTTACATGTATCAAT
*
79243980 ATGTATAATCGTGGTATATCCACTTAGCACCACGTTACACGTAT
1 ATGTATAA-CGTGGTATATCCACTTAGCACCACGTTACATGTAT
79244024 AACCGTGGTA
Statistics
Matches: 77, Mismatches: 8, Indels: 9
0.82 0.09 0.10
Matches are distributed among these distances:
45 20 0.26
46 20 0.26
47 11 0.14
48 26 0.34
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (47 bp):
ATGTATAACGTGGTATATCCACTTAGCACCACGTTACATGTATCAAT
Found at i:79247123 original size:38 final size:39
Alignment explanation
Indices: 79247006--79247144 Score: 208
Period size: 39 Copynumber: 3.6 Consensus size: 39
79246996 GCTCTGATGA
**
79247006 GCTTCAGTTAGCCTTCGGGCTTCCATTTAGCACTTGTGT
1 GCTTCAGTTAGCCTTCGGGCTTCTGTTTAGCACTTGTGT
* *
79247045 GCTTCAGTTAGCCTTCGGGCTTTTGTTTAACACTTGTGT
1 GCTTCAGTTAGCCTTCGGGCTTCTGTTTAGCACTTGTGT
*
79247084 GCTTCAGTTAGCCTTCGGG-TTCTGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCTGTTTAGCACTTGTGT
* *
79247122 GCTTCAGCTAGACTTCGGGCTTC
1 GCTTCAGTTAGCCTTCGGGCTTC
79247145 AAATCACGAT
Statistics
Matches: 90, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
38 33 0.37
39 57 0.63
ACGTcount: A:0.13, C:0.24, G:0.24, T:0.40
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCTGTTTAGCACTTGTGT
Found at i:79253454 original size:47 final size:46
Alignment explanation
Indices: 79253388--79253607 Score: 200
Period size: 47 Copynumber: 4.8 Consensus size: 46
79253378 GACTAGGGCT
* *
79253388 AGTGTAAGACGTGTCTGGGACATGCATCAGCCACATTATGATAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATGATGATAGCC
* * * * *
79253434 AGTGTAAGACCATGTTTGGGACATGGCATCGGCGTAGA-GATGA-ATGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGC-CACATGATGATA-GCC
*
79253482 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGATGATGATAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCAC-ATGATGATAGCC
* * * * * *
79253529 AGTGTAAGACGTGTCTGGGACATGCATCGGCTA-A-GTTTAGT-GCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATGATGA-TAGCC
* *
79253573 AGTGTAAGACATGTCTGGGATATACATCAG-CACAT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACAT
79253608 ATACACGAGA
Statistics
Matches: 139, Mismatches: 25, Indels: 21
0.75 0.14 0.11
Matches are distributed among these distances:
43 1 0.01
44 32 0.23
45 2 0.01
46 17 0.12
47 62 0.45
48 23 0.17
49 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACATGATGATAGCC
Found at i:79253499 original size:94 final size:92
Alignment explanation
Indices: 79253338--79253649 Score: 342
Period size: 94 Copynumber: 3.3 Consensus size: 92
79253328 TATGTGAGAA
* * * * *
79253338 CCAGTATAAGACCATGTCTGGGACATGGAATCGGCATTGAGACTAGGGCTAGTGTAAGACGTGTC
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-TAGAGA-TAGTGCTAGTGTAAGACATGTC
*
79253403 TGGGACATGCATCAGCCACATTATGATAG
64 TGGGACATGCATCAGCCACATGATGATAG
* *
79253432 CCAGTGTAAGACCATGTTTGGGACATGGCATCGGCGTAGAGATGAATGCTAGTGTAAGACATGTC
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-TAGAGAT-AGTGCTAGTGTAAGACATGTC
*
79253497 TGGGACATGCATCAGCCTCGATGATGATAG
64 TGGGACATGCATCAGCCAC-ATGATGATAG
* *
79253527 CCAGTGTAAGA-CGTGTCTGGGACAT-GCATCGGCTA-AGTTTAGTGCTAGTGTAAGACATGTCT
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTAGAG-ATAGTGCTAGTGTAAGACATGTCT
* * * * * * *
79253589 GGGATATACATCAGCACATATACACGAGAA
65 GGGACATGCATCAGC-CACAT-GATGATAG
* * *
79253619 CTAGTGTAAGTCCATGTCTGGGATATGGCAT
1 CCAGTGTAAGACCATGTCTGGGACATGGCAT
79253650 TGGCCTCGAT
Statistics
Matches: 185, Mismatches: 26, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
91 38 0.21
92 17 0.09
93 21 0.11
94 89 0.48
95 20 0.11
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (92 bp):
CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTAGAGATAGTGCTAGTGTAAGACATGTCTG
GGACATGCATCAGCCACATGATGATAG
Found at i:79256737 original size:109 final size:109
Alignment explanation
Indices: 79256546--79256765 Score: 431
Period size: 109 Copynumber: 2.0 Consensus size: 109
79256536 CATGCGGCTG
79256546 CTTCACTCTCTGACATCTCTGAGCGTCTCACACGATTCGAGCAGCAATGTTTTCAACGATTTGAT
1 CTTCACTCTCTGACATCTCTGAGCGTCTCACACGATTCGAGCAGCAATGTTTTCAACGATTTGAT
79256611 CACATTAATGCAACCTTACATCAGATTTGTGAGCACCTTCACAT
66 CACATTAATGCAACCTTACATCAGATTTGTGAGCACCTTCACAT
*
79256655 CTTCACTCTCTGACATCTCTGAGCGTCTCACACGATTCGAGCAGCAATGTTTTCAATGATTTGAT
1 CTTCACTCTCTGACATCTCTGAGCGTCTCACACGATTCGAGCAGCAATGTTTTCAACGATTTGAT
79256720 CACATTAATGCAACCTTACATCAGATTTGTGAGCACCTTCACAT
66 CACATTAATGCAACCTTACATCAGATTTGTGAGCACCTTCACAT
79256764 CT
1 CT
79256766 CATCGCCACG
Statistics
Matches: 110, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
109 110 1.00
ACGTcount: A:0.26, C:0.27, G:0.15, T:0.32
Consensus pattern (109 bp):
CTTCACTCTCTGACATCTCTGAGCGTCTCACACGATTCGAGCAGCAATGTTTTCAACGATTTGAT
CACATTAATGCAACCTTACATCAGATTTGTGAGCACCTTCACAT
Found at i:79256848 original size:13 final size:13
Alignment explanation
Indices: 79256832--79256865 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
79256822 TATTTTTATC
79256832 TTTATCTTTTTAA
1 TTTATCTTTTTAA
*
79256845 TTTA-CTTTTTAT
1 TTTATCTTTTTAA
79256857 TTTATCTTT
1 TTTATCTTT
79256866 AATACTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.18, C:0.09, G:0.00, T:0.74
Consensus pattern (13 bp):
TTTATCTTTTTAA
Found at i:79256876 original size:23 final size:22
Alignment explanation
Indices: 79256822--79256889 Score: 64
Period size: 23 Copynumber: 2.9 Consensus size: 22
79256812 AAGATATTTT
*
79256822 TATTTTTATCTTTATCTTTTTAATT
1 TATTTTTAT-TTTATC-T-TTAATC
79256847 TACTTTTTATTTTATCTTTAATAC
1 TA-TTTTTATTTTATCTTTAAT-C
* *
79256871 TATTTTTACTTTATTTTTA
1 TATTTTTATTTTATCTTTA
79256890 GGTTTTATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
23 20 0.53
24 3 0.08
25 8 0.21
26 7 0.18
ACGTcount: A:0.22, C:0.09, G:0.00, T:0.69
Consensus pattern (22 bp):
TATTTTTATTTTATCTTTAATC
Found at i:79259119 original size:37 final size:39
Alignment explanation
Indices: 79259032--79259126 Score: 115
Period size: 40 Copynumber: 2.5 Consensus size: 39
79259022 CACACCAGAA
*
79259032 TGGCGACCAACGCCTCATCGGATAGTTCGAAGCAAATAAG
1 TGGCGACCAACGCCTCATCGGATAGTCCGAAGC-AATAAG
* * *
79259072 TGACGACCAACGTCTCATCGGCTAAG-CCGAAGC-A-AAG
1 TGGCGACCAACGCCTCATCGGAT-AGTCCGAAGCAATAAG
79259109 TGGCGACCAACGCCTCAT
1 TGGCGACCAACGCCTCAT
79259127 GGAATCTATT
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
37 19 0.40
38 1 0.02
40 26 0.54
41 2 0.04
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (39 bp):
TGGCGACCAACGCCTCATCGGATAGTCCGAAGCAATAAG
Found at i:79260097 original size:19 final size:18
Alignment explanation
Indices: 79260063--79260111 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
79260053 AATTTTCCCT
* *
79260063 TTTTCTTTTTCTTTTC-T
1 TTTTCTTTCTCTTTTCAC
79260080 TCTTTCTTTCTCTCTTTCAC
1 T-TTTCTTTCTCT-TTTCAC
79260100 TTTTCTTTCTCT
1 TTTTCTTTCTCT
79260112 GTAACTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 1 0.04
18 10 0.37
19 15 0.56
20 1 0.04
ACGTcount: A:0.02, C:0.27, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTTCTTTCTCTTTTCAC
Found at i:79260159 original size:16 final size:16
Alignment explanation
Indices: 79260138--79260168 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
79260128 TTTCTTTTGT
*
79260138 TTCTTTATTTTATTTA
1 TTCTTTATTTCATTTA
79260154 TTCTTTATTTCATTT
1 TTCTTTATTTCATTT
79260169 TATTTACTTA
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:0.16, C:0.10, G:0.00, T:0.74
Consensus pattern (16 bp):
TTCTTTATTTCATTTA
Found at i:79260316 original size:3 final size:3
Alignment explanation
Indices: 79260295--79260353 Score: 95
Period size: 3 Copynumber: 20.0 Consensus size: 3
79260285 TTATCTCATT
79260295 TAA TAGA TAA -AA T-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
79260339 TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA
79260354 GTAAATATCT
Statistics
Matches: 53, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
2 4 0.08
3 46 0.87
4 3 0.06
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:79266385 original size:20 final size:20
Alignment explanation
Indices: 79266353--79266390 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
79266343 TGTTTCACAT
79266353 TCATATAACTAATATTTATA
1 TCATATAACTAATATTTATA
*
79266373 TCAT-TAACATAATTTTTA
1 TCATATAAC-TAATATTTA
79266391 ACTTAATAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.42, C:0.11, G:0.00, T:0.47
Consensus pattern (20 bp):
TCATATAACTAATATTTATA
Found at i:79266765 original size:6 final size:6
Alignment explanation
Indices: 79266754--79266779 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
79266744 TAATTCATAC
79266754 TTTATT TTTATT TTTATT TTTATT TT
1 TTTATT TTTATT TTTATT TTTATT TT
79266780 CATCATTTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTATT
Found at i:79266906 original size:18 final size:18
Alignment explanation
Indices: 79266883--79266923 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
79266873 TACTTTTCTC
79266883 TTTCTA-TCACAATTCCAA
1 TTTCTATTCACAATT-CAA
*
79266901 TTTCTATTCATAATTCAA
1 TTTCTATTCACAATTCAA
79266919 TTTCT
1 TTTCT
79266924 TTTTTTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 14 0.67
19 7 0.33
ACGTcount: A:0.29, C:0.22, G:0.00, T:0.49
Consensus pattern (18 bp):
TTTCTATTCACAATTCAA
Found at i:79268082 original size:12 final size:12
Alignment explanation
Indices: 79268067--79268097 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
79268057 TTCTCTTTTA
79268067 TTTTTCTTTCCC
1 TTTTTCTTTCCC
*
79268079 TTTTTCTTTCTC
1 TTTTTCTTTCCC
79268091 TTTTTCT
1 TTTTTCT
79268098 CCCGTGCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTTCTTTCCC
Found at i:79268553 original size:47 final size:45
Alignment explanation
Indices: 79268501--79268606 Score: 121
Period size: 44 Copynumber: 2.4 Consensus size: 45
79268491 TTAAATAATC
79268501 ATAATAATT-A-TAAAACCATAATAATAATAATTTTAATATTATAAAAT
1 ATAATAATTCATTAAAA-CATAATAATAAT-ATTTT-A-ATTATAAAAT
* **
79268548 ATAAT-ATTCATTAAAATATTTTAATAATATTTTAATTATAAAAT
1 ATAATAATTCATTAAAACATAATAATAATATTTTAATTATAAAAT
79268592 ATAAT-ATTCATTAAA
1 ATAATAATTCATTAAA
79268607 TAACTAAGAC
Statistics
Matches: 54, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
44 25 0.46
45 1 0.02
46 8 0.15
47 15 0.28
48 5 0.09
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (45 bp):
ATAATAATTCATTAAAACATAATAATAATATTTTAATTATAAAAT
Found at i:79268560 original size:19 final size:19
Alignment explanation
Indices: 79268538--79268604 Score: 55
Period size: 19 Copynumber: 3.2 Consensus size: 19
79268528 TAATTTTAAT
79268538 ATTATAAAATATAATATTC
1 ATTATAAAATATAATATTC
*
79268557 ATTA-AAATATTTTAATAATATTTTA
1 ATTATAAA-A---T-ATAATA--TTC
79268582 ATTATAAAATATAATATTC
1 ATTATAAAATATAATATTC
79268601 ATTA
1 ATTA
79268605 AATAACTAAG
Statistics
Matches: 38, Mismatches: 2, Indels: 16
0.68 0.04 0.29
Matches are distributed among these distances:
18 3 0.08
19 11 0.29
21 6 0.16
22 2 0.05
23 6 0.16
25 7 0.18
26 3 0.08
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (19 bp):
ATTATAAAATATAATATTC
Found at i:79268562 original size:17 final size:16
Alignment explanation
Indices: 79268474--79268566 Score: 57
Period size: 17 Copynumber: 5.6 Consensus size: 16
79268464 TTTAATTTAT
79268474 TTAAAATATAATATTCA
1 TTAAAATATAATATT-A
79268491 TTAAATAATCATAATAATTA
1 TT-AA-AAT-ATAAT-ATTA
* *
79268511 -TAAAACCATAATAATA
1 TTAAAA-TATAATATTA
* * *
79268527 AT-AATTTTAATATTA
1 TTAAAATATAATATTA
79268542 -TAAAATATAATATTCA
1 TTAAAATATAATATT-A
79268558 TTAAAATAT
1 TTAAAATAT
79268567 TTTAATAATA
Statistics
Matches: 59, Mismatches: 8, Indels: 18
0.69 0.09 0.21
Matches are distributed among these distances:
14 1 0.02
15 17 0.29
16 6 0.10
17 18 0.31
18 4 0.07
19 4 0.07
20 6 0.10
21 3 0.05
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (16 bp):
TTAAAATATAATATTA
Found at i:79268692 original size:9 final size:9
Alignment explanation
Indices: 79268678--79268712 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
79268668 GACTAAGTAA
79268678 AATTAAATT
1 AATTAAATT
79268687 AATTAAATT
1 AATTAAATT
*
79268696 AATTAAAAT
1 AATTAAATT
*
79268705 AAATAAAT
1 AATTAAAT
79268713 GTTTTTAGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (9 bp):
AATTAAATT
Found at i:79269193 original size:11 final size:11
Alignment explanation
Indices: 79269112--79269193 Score: 59
Period size: 11 Copynumber: 7.8 Consensus size: 11
79269102 ATTTCAAAAA
*
79269112 TAATATTATTT
1 TAATATTAATT
*
79269123 TAATA-AAATT
1 TAATATTAATT
79269133 T-ATATTATATT
1 TAATATTA-ATT
*
79269144 AAAT-TTAATT
1 TAATATTAATT
*
79269154 TAATATTTATCT
1 TAATATTAAT-T
*
79269166 TAATAGT-ATT
1 TAATATTAATT
79269176 T--TATTAATT
1 TAATATTAATT
79269185 TAATATTAA
1 TAATATTAA
79269194 AGTGATTAAG
Statistics
Matches: 55, Mismatches: 8, Indels: 16
0.70 0.10 0.20
Matches are distributed among these distances:
8 3 0.05
9 7 0.13
10 13 0.24
11 23 0.42
12 9 0.16
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (11 bp):
TAATATTAATT
Found at i:79282004 original size:29 final size:28
Alignment explanation
Indices: 79281964--79282048 Score: 116
Period size: 28 Copynumber: 3.0 Consensus size: 28
79281954 GCACTTTGTG
*
79281964 TTATTCTGGTGTGTTTTAGATGGATTATA
1 TTATTCTGGTGTGTTTTGGA-GGATTATA
*
79281993 TTATTCTGGTGTGTTTGGGAGGATTATA
1 TTATTCTGGTGTGTTTTGGAGGATTATA
* **
79282021 TGAGACTGGTGTGTTTTGGAGGATTATA
1 TTATTCTGGTGTGTTTTGGAGGATTATA
79282049 CTGGTGTGTT
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
28 32 0.64
29 18 0.36
ACGTcount: A:0.20, C:0.04, G:0.31, T:0.46
Consensus pattern (28 bp):
TTATTCTGGTGTGTTTTGGAGGATTATA
Found at i:79282060 original size:23 final size:23
Alignment explanation
Indices: 79281992--79282062 Score: 79
Period size: 28 Copynumber: 2.9 Consensus size: 23
79281982 GATGGATTAT
* *
79281992 ATTATTCTGGTGTGTTTGGGAGG
1 ATTATACTGGTGTGTTTTGGAGG
79282015 ATTATATGAGACTGGTGTGTTTTGGAGG
1 A-T-TAT---ACTGGTGTGTTTTGGAGG
79282043 ATTATACTGGTGTGTTTTGG
1 ATTATACTGGTGTGTTTTGG
79282063 TTGGACATTT
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
23 16 0.39
24 1 0.02
25 3 0.07
26 3 0.07
27 1 0.02
28 17 0.41
ACGTcount: A:0.17, C:0.04, G:0.35, T:0.44
Consensus pattern (23 bp):
ATTATACTGGTGTGTTTTGGAGG
Found at i:79282295 original size:21 final size:21
Alignment explanation
Indices: 79282271--79282318 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
79282261 GTCGTATTTT
*
79282271 AGGCACCTTGTGTGTCAAATC
1 AGGCACCTCGTGTGTCAAATC
**
79282292 AGGCACCTCGTGTGTCATTTC
1 AGGCACCTCGTGTGTCAAATC
79282313 AGGCAC
1 AGGCAC
79282319 AATGTGCCAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.21, C:0.27, G:0.25, T:0.27
Consensus pattern (21 bp):
AGGCACCTCGTGTGTCAAATC
Found at i:79283475 original size:46 final size:48
Alignment explanation
Indices: 79283317--79283503 Score: 163
Period size: 46 Copynumber: 3.9 Consensus size: 48
79283307 TGGTTGGACC
79283317 ATGGCATCA-A-TGTGATATGTGA-TCTGTGTAAGACCATAGCTGGGCT
1 ATGGCATCAGAGTGTGATATGTGATTC-GTGTAAGACCATAGCTGGGCT
* * * * *
79283363 ATGGCATCAGAGATATGTGATTACGTGCTTCCGTATAAGACCATATCTGGGAT
1 ATGGCATCAGAG---TGTGA-TATGTGATT-CGTGTAAGACCATAGCTGGGCT
*
79283416 ATGGCATC--AGTGTGATATGTGATTCGTGTAAGACCATGGCTGGGCT
1 ATGGCATCAGAGTGTGATATGTGATTCGTGTAAGACCATAGCTGGGCT
* * *
79283462 ATGGC-TACGGTGTGTGATATGTGACTAT-GTGCAAGACCATAG
1 ATGGCAT-CAGAGTGTGATATGTGA-T-TCGTGTAAGACCATAG
79283504 TTTTACTATG
Statistics
Matches: 114, Mismatches: 14, Indels: 23
0.75 0.09 0.15
Matches are distributed among these distances:
45 1 0.01
46 33 0.29
47 8 0.07
48 18 0.16
49 13 0.11
50 1 0.01
51 7 0.06
52 5 0.04
53 27 0.24
54 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.30
Consensus pattern (48 bp):
ATGGCATCAGAGTGTGATATGTGATTCGTGTAAGACCATAGCTGGGCT
Found at i:79285069 original size:20 final size:20
Alignment explanation
Indices: 79285044--79285083 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
79285034 ACAGCAGAAG
79285044 TAGACTAACTTTGAAAAATC
1 TAGACTAACTTTGAAAAATC
79285064 TAGACTAACTTTGAAAAATC
1 TAGACTAACTTTGAAAAATC
79285084 ACCATAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.15, G:0.10, T:0.30
Consensus pattern (20 bp):
TAGACTAACTTTGAAAAATC
Found at i:79291288 original size:44 final size:44
Alignment explanation
Indices: 79291234--79291833 Score: 331
Period size: 44 Copynumber: 13.3 Consensus size: 44
79291224 CATATCCTTG
*
79291234 AAGTTGCAGTGGATC-GAATTAAAGCTACAAATATTATCTCCCTA
1 AAGTTGCAGTGGATCAG-ATTAAAGCTACAAATCTTATCTCCCTA
* * **
79291278 AAGTTACAGTGGAGT-AGATTAAAGCCACAAATCTTATCTCTTTA
1 AAGTTGCAGTGGA-TCAGATTAAAGCTACAAATCTTATCTCCCTA
* *
79291322 AAGTTACAATGGATCAGATTGAAA--TAACAAATCTTATCTCCCTA
1 AAGTTGCAGTGGATCAGATT-AAAGCT-ACAAATCTTATCTCCCTA
* * * * *
79291366 AAGTTGCAGTGGAGCAGATTAAAACAACAAATCTTATCTCCTTG
1 AAGTTGCAGTGGATCAGATTAAAGCTACAAATCTTATCTCCCTA
* * * *
79291410 AAGTTGTAGTGGAACAGATTGAAAGCCACAAATCTTATCTCCCTG
1 AAGTTGCAGTGGATCAGATT-AAAGCTACAAATCTTATCTCCCTA
* * * *
79291455 AAGTTGTAGTGGAACAAATTAAAGCTACAAATCTTATCTCCCTG
1 AAGTTGCAGTGGATCAGATTAAAGCTACAAATCTTATCTCCCTA
** * * * *
79291499 AAGTTATAGTGGAGT-AGATTGAAGATA-ATGAATCTTGTCTCCCTG
1 AAGTTGCAGTGGA-TCAGATTAAAGCTACA--AATCTTATCTCCCTA
* * * * * * *
79291544 AAGTTGTAATGGAACAGATTGAAGCTACAAATCTTATTTCGCTG
1 AAGTTGCAGTGGATCAGATTAAAGCTACAAATCTTATCTCCCTA
* * * * *
79291588 AAGTTGCAGTGGATGCATATTGAAGCGACAAATCCTATAC-CTCTA
1 AAGTTGCAGTGGAT-CAGATTAAAGCTACAAATCTTAT-CTCCCTA
* ** * * *
79291633 AAGTTACAGTAGG-TTGGATTAAATCTACCATAGCGAGTCTTATTTCCTTA
1 AAGTTGCAGT-GGATCAGATTAAAGCTA-CA-A---A-TCTTATCTCCCTA
* * * * *
79291683 AAGTTGTAGTGTAACAGATTAAAGCTACAACTTACAAATCTTCTCTCTCTA
1 AAGTTGCAGTGGATCAGATTAAAG------C-TACAAATCTTATCTCCCTA
* * ** * * *
79291734 AAGTTGTAGTGGAGCAGATTAAAATTACAAGTCTTATCTCCTTG
1 AAGTTGCAGTGGATCAGATTAAAGCTACAAATCTTATCTCCCTA
* * **
79291778 AAGTTACAGTGGAGT-AGATTGAAA-CTA-AAATTCCTATAACCCTA
1 AAGTTGCAGTGGA-TCAGATT-AAAGCTACAAA-TCTTATCTCCCTA
*
79291822 AAGTTACAGTGG
1 AAGTTGCAGTGG
79291834 GTTAATAAGA
Statistics
Matches: 437, Mismatches: 85, Indels: 68
0.74 0.14 0.12
Matches are distributed among these distances:
43 7 0.02
44 245 0.56
45 119 0.27
46 4 0.01
49 2 0.00
50 23 0.05
51 30 0.07
52 1 0.00
55 1 0.00
56 3 0.01
57 2 0.00
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.30
Consensus pattern (44 bp):
AAGTTGCAGTGGATCAGATTAAAGCTACAAATCTTATCTCCCTA
Found at i:79291476 original size:89 final size:89
Alignment explanation
Indices: 79291209--79291621 Score: 387
Period size: 89 Copynumber: 4.7 Consensus size: 89
79291199 AACAGATCAG
* * *
79291209 TAAAACCACAAAT-TTCATATCCTTGAAGTTGCAGTGGATC-GAATT-AAAGCTACAAATATTAT
1 TAAAGCCACAAATCTT-ATCTCCTTGAAGTTGCAGTGGATCAG-ATTGAAAGCTACAAATCTTAT
* **
79291271 CTCCCTAAAGTTACAGTGGAGTAGAT
64 CTCCCTAAAGTTGCAGTGGAACAGAT
* * * *
79291297 TAAAGCCACAAATCTTATCTCTTTAAAGTTACAATGGATCAGATTGAAA--TAACAAATCTTATC
1 TAAAGCCACAAATCTTATCTCCTTGAAGTTGCAGTGGATCAGATTGAAAGCT-ACAAATCTTATC
*
79291360 TCCCTAAAGTTGCAGTGGAGCAGAT
65 TCCCTAAAGTTGCAGTGGAACAGAT
* * * * *
79291385 TAAAACAACAAATCTTATCTCCTTGAAGTTGTAGTGGAACAGATTGAAAGCCACAAATCTTATCT
1 TAAAGCCACAAATCTTATCTCCTTGAAGTTGCAGTGGATCAGATTGAAAGCTACAAATCTTATCT
* * *
79291450 CCCTGAAGTTGTAGTGGAACAAAT
66 CCCTAAAGTTGCAGTGGAACAGAT
* * ** * *
79291474 TAAAGCTACAAATCTTATCTCCCTGAAGTTATAGTGGAGT-AGATTG-AAGATA-ATGAATCTTG
1 TAAAGCCACAAATCTTATCTCCTTGAAGTTGCAGTGGA-TCAGATTGAAAGCTACA--AATCTTA
* * *
79291536 TCTCCCTGAAGTTGTAATGGAACAGAT
63 TCTCCCTAAAGTTGCAGTGGAACAGAT
* * * * *
79291563 TGAAGCTACAAATCTTATTTCGC-TGAAGTTGCAGTGGATGCATATTG-AAGCGACAAATC
1 TAAAGCCACAAATCTTATCTC-CTTGAAGTTGCAGTGGAT-CAGATTGAAAGCTACAAATC
79291622 CTATACCTCT
Statistics
Matches: 273, Mismatches: 39, Indels: 25
0.81 0.12 0.07
Matches are distributed among these distances:
87 2 0.01
88 114 0.42
89 146 0.53
90 10 0.04
91 1 0.00
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.30
Consensus pattern (89 bp):
TAAAGCCACAAATCTTATCTCCTTGAAGTTGCAGTGGATCAGATTGAAAGCTACAAATCTTATCT
CCCTAAAGTTGCAGTGGAACAGAT
Found at i:79291510 original size:133 final size:133
Alignment explanation
Indices: 79291234--79291600 Score: 375
Period size: 133 Copynumber: 2.8 Consensus size: 133
79291224 CATATCCTTG
* * * * * * ** **
79291234 AAGTTGCAGTGGATC-GAATTAAAGCTACAAATATTATCTCCCTAAAGTTACAGTGGAGTAGATT
1 AAGTTACAGTGGAGCAG-ATTAAAACAACAAATCTTATCTCCCTGAAGTTGTAGTGGAACAGATT
** * * * * *
79291298 -AAAGCCACAAATCTTATCTCTTTAAAGTTACAATGGATCAGATTGAAATAACAAATCTTATCTC
65 GAAAGCCACAAATCTTATCTCCCTGAAGTTGCAGTGGAACAAATTGAAATAACAAATCTTATCTC
79291362 CCTA
130 CCTA
* *
79291366 AAGTTGCAGTGGAGCAGATTAAAACAACAAATCTTATCTCCTTGAAGTTGTAGTGGAACAGATTG
1 AAGTTACAGTGGAGCAGATTAAAACAACAAATCTTATCTCCCTGAAGTTGTAGTGGAACAGATTG
*
79291431 AAAGCCACAAATCTTATCTCCCTGAAGTTGTAGTGGAACAAATT-AAAGCT-ACAAATCTTATCT
66 AAAGCCACAAATCTTATCTCCCTGAAGTTGCAGTGGAACAAATTGAAA--TAACAAATCTTATCT
*
79291494 CCCTG
129 CCCTA
* * * * ** * *
79291499 AAGTTATAGTGGAGTAGATTGAAGATAATGAATCTTGTCTCCCTGAAGTTGTAATGGAACAGATT
1 AAGTTACAGTGGAGCAGATT-AAAACAACAAATCTTATCTCCCTGAAGTTGTAGTGGAACAGATT
* * *
79291564 G-AAGCTACAAATCTTATTTCGCTGAAGTTGCAGTGGA
65 GAAAGCCACAAATCTTATCTCCCTGAAGTTGCAGTGGA
79291601 TGCATATTGA
Statistics
Matches: 197, Mismatches: 33, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
132 55 0.28
133 103 0.52
134 39 0.20
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.30
Consensus pattern (133 bp):
AAGTTACAGTGGAGCAGATTAAAACAACAAATCTTATCTCCCTGAAGTTGTAGTGGAACAGATTG
AAAGCCACAAATCTTATCTCCCTGAAGTTGCAGTGGAACAAATTGAAATAACAAATCTTATCTCC
CTA
Found at i:79291637 original size:134 final size:134
Alignment explanation
Indices: 79291293--79291638 Score: 351
Period size: 133 Copynumber: 2.6 Consensus size: 134
79291283 ACAGTGGAGT
** * * * * * ** *
79291293 AGATT-AAAGCCACAAATCTTATCTCTTTAAAGTTACAATGGATCAGATTGAAA-TAACAAATCT
1 AGATTGAAAGCCACAAATCTTATCTCCCTGAAGTTGCAGTGGAACAAATT-AAAGCGACAAATCC
** * * * ** * *
79291356 TATCTCCCTAAAGTTGCAGTGGAGCAGATT-AAAACAACAAATCTTATCTCCTTGAAGTTGTAGT
65 TATCTCCCTAAAGTTATAGTGGAGTAGATTGAAGATAATGAATCTTATCTCCCTGAAGTTGTAAT
79291420 GGAAC
130 GGAAC
* * *
79291425 AGATTGAAAGCCACAAATCTTATCTCCCTGAAGTTGTAGTGGAACAAATTAAAGCTACAAATCTT
1 AGATTGAAAGCCACAAATCTTATCTCCCTGAAGTTGCAGTGGAACAAATTAAAGCGACAAATCCT
* *
79291490 ATCTCCCTGAAGTTATAGTGGAGTAGATTGAAGATAATGAATCTTGTCTCCCTGAAGTTGTAATG
66 ATCTCCCTAAAGTTATAGTGGAGTAGATTGAAGATAATGAATCTTATCTCCCTGAAGTTGTAATG
79291555 GAAC
131 GAAC
* * * * * *
79291559 AGATTG-AAGCTACAAATCTTATTTCGCTGAAGTTGCAGTGGATGCATATTGAAGCGACAAATCC
1 AGATTGAAAGCCACAAATCTTATCTCCCTGAAGTTGCAGTGGA-ACAAATTAAAGCGACAAATCC
*
79291623 TATAC-CTCTAAAGTTA
65 TAT-CTCCCTAAAGTTA
79291639 CAGTAGGTTG
Statistics
Matches: 177, Mismatches: 32, Indels: 8
0.82 0.15 0.04
Matches are distributed among these distances:
132 8 0.05
133 102 0.58
134 66 0.37
135 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.30
Consensus pattern (134 bp):
AGATTGAAAGCCACAAATCTTATCTCCCTGAAGTTGCAGTGGAACAAATTAAAGCGACAAATCCT
ATCTCCCTAAAGTTATAGTGGAGTAGATTGAAGATAATGAATCTTATCTCCCTGAAGTTGTAATG
GAAC
Found at i:79293557 original size:7 final size:7
Alignment explanation
Indices: 79293541--79293578 Score: 60
Period size: 7 Copynumber: 5.6 Consensus size: 7
79293531 GTTTCTTTTA
*
79293541 TTTTATT
1 TTTTAAT
79293548 TTTTAAT
1 TTTTAAT
79293555 TTTT-AT
1 TTTTAAT
79293561 TTTTAAT
1 TTTTAAT
79293568 TTTTAAT
1 TTTTAAT
79293575 TTTT
1 TTTT
79293579 TCATTTATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
6 6 0.21
7 23 0.79
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (7 bp):
TTTTAAT
Found at i:79293563 original size:13 final size:13
Alignment explanation
Indices: 79293541--79293578 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
79293531 GTTTCTTTTA
79293541 TTTTATTTTTTAAT
1 TTTTA-TTTTTAAT
79293555 TTTTATTTTTAAT
1 TTTTATTTTTAAT
79293568 TTTTAATTTTT
1 TTTT-ATTTTT
79293579 TCATTTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (13 bp):
TTTTATTTTTAAT
Found at i:79293570 original size:20 final size:19
Alignment explanation
Indices: 79293536--79293578 Score: 68
Period size: 20 Copynumber: 2.2 Consensus size: 19
79293526 AACATGTTTC
*
79293536 TTTTATTTTATTTTTTAAT
1 TTTTATTTTAATTTTTAAT
79293555 TTTTATTTTTAATTTTTAAT
1 TTTTA-TTTTAATTTTTAAT
79293575 TTTT
1 TTTT
79293579 TCATTTATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (19 bp):
TTTTATTTTAATTTTTAAT
Found at i:79297653 original size:17 final size:17
Alignment explanation
Indices: 79297631--79297664 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
79297621 ATCCACTAAT
*
79297631 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
79297648 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
79297665 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:79302292 original size:17 final size:17
Alignment explanation
Indices: 79302270--79302303 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
79302260 ATCCACTAAT
*
79302270 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
79302287 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
79302304 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:79304461 original size:23 final size:25
Alignment explanation
Indices: 79304427--79304474 Score: 82
Period size: 24 Copynumber: 2.0 Consensus size: 25
79304417 TTATTCATCA
79304427 TTTTAAAGGATT-AAATATAATTTT
1 TTTTAAAGGATTAAAATATAATTTT
79304451 TTTTAAA-GATTAAAATATAATTTT
1 TTTTAAAGGATTAAAATATAATTTT
79304475 ATTATAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 4 0.17
24 19 0.83
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (25 bp):
TTTTAAAGGATTAAAATATAATTTT
Found at i:79304486 original size:23 final size:24
Alignment explanation
Indices: 79304430--79304482 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
79304420 TTCATCATTT
*
79304430 TAAAGGATT-AAATATAATTTTTTT
1 TAAA-GATTAAAATATAATTTTTTA
79304454 TAAAGATTAAAATATAATTTTATTA
1 TAAAGATTAAAATATAATTTT-TTA
79304479 TAAA
1 TAAA
79304483 TTAATTTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 4 0.15
24 16 0.62
25 6 0.23
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.45
Consensus pattern (24 bp):
TAAAGATTAAAATATAATTTTTTA
Found at i:79305291 original size:15 final size:15
Alignment explanation
Indices: 79305267--79305316 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 15
79305257 GATAATTAAG
* *
79305267 ATTAAGGTTTGGTTA
1 ATTAAAGTTTGATTA
*
79305282 ATTAAAGTTTAATTA
1 ATTAAAGTTTGATTA
*
79305297 ATT-AATTTTGATTA
1 ATTAAAGTTTGATTA
79305311 ATTAAA
1 ATTAAA
79305317 TTTAGTCAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
14 12 0.41
15 17 0.59
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.48
Consensus pattern (15 bp):
ATTAAAGTTTGATTA
Found at i:79305312 original size:14 final size:14
Alignment explanation
Indices: 79305267--79305315 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
79305257 GATAATTAAG
*
79305267 ATTAAGGTTTGGTTA
1 ATTAA-GTTTGATTA
*
79305282 ATTAAAGTTTAATTA
1 ATT-AAGTTTGATTA
*
79305297 ATTAATTTTGATTA
1 ATTAAGTTTGATTA
79305311 ATTAA
1 ATTAA
79305316 ATTTAGTCAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
14 14 0.48
15 13 0.45
16 2 0.07
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.49
Consensus pattern (14 bp):
ATTAAGTTTGATTA
Found at i:79305318 original size:15 final size:15
Alignment explanation
Indices: 79305274--79305319 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
79305264 AAGATTAAGG
* *
79305274 TTTGGTTAATTAAAG
1 TTTGATTAATTAAAT
*
79305289 TTTAATTAATT-AAT
1 TTTGATTAATTAAAT
79305303 TTTGATTAATTAAAT
1 TTTGATTAATTAAAT
79305318 TT
1 TT
79305320 AGTCAAAAGT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
14 12 0.46
15 14 0.54
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.54
Consensus pattern (15 bp):
TTTGATTAATTAAAT
Found at i:79311272 original size:16 final size:16
Alignment explanation
Indices: 79311245--79311285 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
79311235 CTTTTTCTTT
79311245 TTTTATTA-TATTTAG
1 TTTTATTATTATTTAG
79311260 TTTTATTATTATTTAG
1 TTTTATTATTATTTAG
*
79311276 TATTATTATT
1 TTTTATTATT
79311286 GTCATACCTA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 8 0.33
16 16 0.67
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (16 bp):
TTTTATTATTATTTAG
Found at i:79311399 original size:17 final size:17
Alignment explanation
Indices: 79311358--79311392 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
79311348 AATTTAATAG
*
79311358 TTAGTTGTT-TTATTAT
1 TTAGTTTTTGTTATTAT
79311374 TTAGTTTTTGTTATTAT
1 TTAGTTTTTGTTATTAT
79311391 TT
1 TT
79311393 TATTTTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.17, C:0.00, G:0.11, T:0.71
Consensus pattern (17 bp):
TTAGTTTTTGTTATTAT
Found at i:79312699 original size:18 final size:18
Alignment explanation
Indices: 79312678--79312722 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 18
79312668 TTATTTTTAC
79312678 TATTTTTGATTGTTCTTT
1 TATTTTTGATTGTTCTTT
*
79312696 TATTTTT-A--GTTGTTT
1 TATTTTTGATTGTTCTTT
79312711 TA-TTTTGATTGT
1 TATTTTTGATTGT
79312723 GAGACTTCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
14 4 0.17
15 9 0.39
17 3 0.13
18 7 0.30
ACGTcount: A:0.13, C:0.02, G:0.13, T:0.71
Consensus pattern (18 bp):
TATTTTTGATTGTTCTTT
Found at i:79315886 original size:20 final size:21
Alignment explanation
Indices: 79315849--79315894 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
79315839 TTTCTAACTT
*
79315849 TATTTATTTTGTGATTTT-GA
1 TATTTATTTTATGATTTTAGA
**
79315869 TATTTATTTTATTTTTTTAGA
1 TATTTATTTTATGATTTTAGA
79315890 TATTT
1 TATTT
79315895 TAGTTGAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.22, C:0.00, G:0.09, T:0.70
Consensus pattern (21 bp):
TATTTATTTTATGATTTTAGA
Found at i:79316714 original size:3 final size:3
Alignment explanation
Indices: 79316706--79316745 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
79316696 CATTTTTCTC
79316706 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
79316746 TGTCTAATTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:79317632 original size:17 final size:18
Alignment explanation
Indices: 79317599--79317633 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
79317589 TGTTTTCTTT
*
79317599 GAGGTCCATGATAATTGG
1 GAGGTCCAAGATAATTGG
79317617 GAGGTCCAAG-TAATTGG
1 GAGGTCCAAGATAATTGG
79317634 AAATTCCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.29, C:0.11, G:0.34, T:0.26
Consensus pattern (18 bp):
GAGGTCCAAGATAATTGG
Found at i:79319922 original size:20 final size:19
Alignment explanation
Indices: 79319878--79319923 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
79319868 CATTCAAACA
79319878 CCAGAAAAGTAAATAATTT
1 CCAGAAAAGTAAATAATTT
* *
79319897 CTAGAAAAGTAAATCATTTT
1 CCAGAAAAGTAAAT-AATTT
79319917 CCAGAAA
1 CCAGAAA
79319924 TCATTTTCCG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 13 0.57
20 10 0.43
ACGTcount: A:0.50, C:0.13, G:0.11, T:0.26
Consensus pattern (19 bp):
CCAGAAAAGTAAATAATTT
Found at i:79319926 original size:14 final size:14
Alignment explanation
Indices: 79319907--79319944 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
79319897 CTAGAAAAGT
79319907 AAATCATTTTCCAG
1 AAATCATTTTCCAG
*
79319921 AAATCATTTTCCGG
1 AAATCATTTTCCAG
*
79319935 AAAACATTTT
1 AAATCATTTT
79319945 ACTAGCAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.37, C:0.18, G:0.08, T:0.37
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:79322196 original size:13 final size:14
Alignment explanation
Indices: 79322166--79322198 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
79322156 TAAATTATAT
*
79322166 AAAAATTGATGTTA
1 AAAAATTGATGTAA
79322180 AAAAATT-ATGTAA
1 AAAAATTGATGTAA
79322193 AAAAAT
1 AAAAAT
79322199 ATATTTATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.61, C:0.00, G:0.09, T:0.30
Consensus pattern (14 bp):
AAAAATTGATGTAA
Found at i:79325497 original size:14 final size:15
Alignment explanation
Indices: 79325470--79325503 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
79325460 AGGGAGAAGC
*
79325470 AAAAGAGAATGAAAA
1 AAAAAAGAATGAAAA
79325485 AAAAAAGAA-GAAAA
1 AAAAAAGAATGAAAA
79325499 AAAAA
1 AAAAA
79325504 GAGGAAAGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (15 bp):
AAAAAAGAATGAAAA
Found at i:79327809 original size:14 final size:14
Alignment explanation
Indices: 79327792--79327822 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
79327782 TAAGTTAAAT
*
79327792 AAAATATATAAAAC
1 AAAATAAATAAAAC
79327806 AAAATAAATAAAAC
1 AAAATAAATAAAAC
79327820 AAA
1 AAA
79327823 TGAAGTGGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.77, C:0.06, G:0.00, T:0.16
Consensus pattern (14 bp):
AAAATAAATAAAAC
Found at i:79336256 original size:20 final size:20
Alignment explanation
Indices: 79336188--79336257 Score: 61
Period size: 20 Copynumber: 3.5 Consensus size: 20
79336178 AAAAAAAAGT
* *
79336188 TATACCAA-ATTTTGTAAGGT
1 TATACCAATATTTT-TAACGA
* * * * *
79336208 TATATCAAAATTTCTAATGC
1 TATACCAATATTTTTAACGA
79336228 TATACCAATATTTTTAACGA
1 TATACCAATATTTTTAACGA
79336248 TATACCAATA
1 TATACCAATA
79336258 CTAAAATTTC
Statistics
Matches: 40, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
20 36 0.90
21 4 0.10
ACGTcount: A:0.40, C:0.14, G:0.07, T:0.39
Consensus pattern (20 bp):
TATACCAATATTTTTAACGA
Found at i:79336258 original size:26 final size:26
Alignment explanation
Indices: 79336229--79336307 Score: 97
Period size: 26 Copynumber: 3.0 Consensus size: 26
79336219 TTCTAATGCT
*
79336229 ATACCAATATTTTTAACGATATACCA
1 ATACCAATATTTCTAACGATATACCA
* * *
79336255 ATACTAAAATTTCTAACGACATACCA
1 ATACCAATATTTCTAACGATATACCA
*
79336281 ATACCATTATTTCTAAC-ACTATACCA
1 ATACCAATATTTCTAACGA-TATACCA
79336307 A
1 A
79336308 AAATTTTATC
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
25 1 0.02
26 43 0.98
ACGTcount: A:0.43, C:0.23, G:0.03, T:0.32
Consensus pattern (26 bp):
ATACCAATATTTCTAACGATATACCA
Found at i:79336948 original size:43 final size:42
Alignment explanation
Indices: 79336901--79337007 Score: 119
Period size: 42 Copynumber: 2.5 Consensus size: 42
79336891 GGGGAAAGCG
*
79336901 CCGCTAAAAGTCATAACCTTTAGCGGCACTTTTCCTACAAACA
1 CCGCTAAAAG-CATAACCTTTAGCGGCACTTTTCCCACAAACA
* * *
79336944 CCGCTATAAA--ATGGACCTTTAGCGGCGCTTTTCCCACAAACG
1 CCGCTA-AAAGCAT-AACCTTTAGCGGCACTTTTCCCACAAACA
*
79336986 CCGCTAAAGAACATAACCTTTA
1 CCGCTAAA-AGCATAACCTTTA
79337008 AAAAAATTAA
Statistics
Matches: 54, Mismatches: 5, Indels: 10
0.78 0.07 0.14
Matches are distributed among these distances:
41 4 0.07
42 32 0.59
43 13 0.24
44 5 0.09
ACGTcount: A:0.32, C:0.30, G:0.14, T:0.24
Consensus pattern (42 bp):
CCGCTAAAAGCATAACCTTTAGCGGCACTTTTCCCACAAACA
Found at i:79337764 original size:23 final size:23
Alignment explanation
Indices: 79337733--79338829 Score: 882
Period size: 23 Copynumber: 47.9 Consensus size: 23
79337723 AAATAAGTAC
* *
79337733 TTAAACACTTCAATTTGCAACAT
1 TTAAACACTTCAATTTACAGCAT
* *
79337756 TTAAGCACTTCAATTTATAGCAT
1 TTAAACACTTCAATTTACAGCAT
*
79337779 TTAAACACTTCAATTTGCAGCAT
1 TTAAACACTTCAATTTACAGCAT
* *
79337802 TCAAACACTTCAATTTGCAGCACT
1 TTAAACACTTCAATTTACAGCA-T
79337826 TT-AACACTTCAATTTACAGCACT
1 TTAAACACTTCAATTTACAGCA-T
*
79337849 TT-AACACTTCAATTTGCAGCACT
1 TTAAACACTTCAATTTACAGCA-T
* *
79337872 TT-AACA-TCTCAATTAACAACAT
1 TTAAACACT-TCAATTTACAGCAT
* *
79337894 TTATACACCTCAA-TTACAGCGA-
1 TTAAACACTTCAATTTACAGC-AT
* * * * *
79337916 TAAAACA-TCTCAATGTCCAACAA
1 TTAAACACT-TCAATTTACAGCAT
* * *
79337939 CTAAACACTTCAATTTGCAGTAT
1 TTAAACACTTCAATTTACAGCAT
* *
79337962 TTAAACACTTCAATTTGCAACAT
1 TTAAACACTTCAATTTACAGCAT
*
79337985 TTAAGCACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTACAGCAT
*
79338008 TTAAACACTTCAATTTGCAGCAT
1 TTAAACACTTCAATTTACAGCAT
* **
79338031 TCAAACACTTCAATTTGTAGCACT
1 TTAAACACTTCAATTTACAGCA-T
79338055 TT-AACACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTACAGCAT
* *
79338077 TTAAGCACTTCAATTTGCAGCACT
1 TTAAACACTTCAATTTACAGCA-T
* *
79338101 TT-AACA-TCTCAATTAACAACAT
1 TTAAACACT-TCAATTTACAGCAT
* *
79338123 TTATACACCTCAA-TTACAGCGA-
1 TTAAACACTTCAATTTACAGC-AT
* * * * *
79338145 TAAAACA-TCTCAATGTCCAACAA
1 TTAAACACT-TCAATTTACAGCAT
* * * *
79338168 CTAAACGCTTCAATTTGCAGTAT
1 TTAAACACTTCAATTTACAGCAT
* *
79338191 TTAAACACTTCAATTTGCAACAT
1 TTAAACACTTCAATTTACAGCAT
*
79338214 TTAAGCACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTACAGCAT
79338237 TTAAACACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTACAGCAT
* *
79338260 TCAAACACTTCAATTTGCAGCACT
1 TTAAACACTTCAATTTACAGCA-T
*
79338284 TT-AACACTTCAATTTATAGCAT
1 TTAAACACTTCAATTTACAGCAT
* *
79338306 TTAAGCACTTCAATTTGCAGCACT
1 TTAAACACTTCAATTTACAGCA-T
* *
79338330 TT-AACA-TCTCAATTAACAACAT
1 TTAAACACT-TCAATTTACAGCAT
* *
79338352 TTATACACCTCAA-TTACAGCGA-
1 TTAAACACTTCAATTTACAGC-AT
* * * * *
79338374 TAAAACA-TCTCAATGTCCAACAA
1 TTAAACACT-TCAATTTACAGCAT
* * *
79338397 CTAAACACTTCAATTTGCAGTAT
1 TTAAACACTTCAATTTACAGCAT
* *
79338420 TTAAACACTTCAATTTGCAACAT
1 TTAAACACTTCAATTTACAGCAT
* *
79338443 TTAAGCACTTCAATTTATAGCAT
1 TTAAACACTTCAATTTACAGCAT
79338466 TTAAACACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTACAGCAT
* *
79338489 TCAAACACTTCAATTTGCAGCACT
1 TTAAACACTTCAATTTACAGCA-T
*
79338513 TT-AACACTTCAATTTATAGCAT
1 TTAAACACTTCAATTTACAGCAT
* *
79338535 TTAAGCACTTCAATTTGCAGCACT
1 TTAAACACTTCAATTTACAGCA-T
* *
79338559 TT-AACA-TCTCAATTAACAACAT
1 TTAAACACT-TCAATTTACAGCAT
* *
79338581 TTATACACCTCAA-TTACAGCGA-
1 TTAAACACTTCAATTTACAGC-AT
* * * *
79338603 TAAAACA-TCTCAATGTCCAGCAA
1 TTAAACACT-TCAATTTACAGCAT
* * * * *
79338626 CTAAATACTTCAATTTTCAGTAC
1 TTAAACACTTCAATTTACAGCAT
* *
79338649 TTAAACACTTCAATTTGCAACAT
1 TTAAACACTTCAATTTACAGCAT
* * *
79338672 TGAAGCACTTCAATTTACAGTAT
1 TTAAACACTTCAATTTACAGCAT
79338695 TTAAACACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTACAGCAT
* * *
79338718 TCAAAAACTTCAATTTGCAGCAGT
1 TTAAACACTTCAATTTACAGCA-T
*
79338742 TT-AACACTTCAATTTACAGTAT
1 TTAAACACTTCAATTTACAGCAT
* *
79338764 TAAAACACTTCAATTTACAACACT
1 TTAAACACTTCAATTTACAGCA-T
* * * *
79338788 TT-AACATTTCAATTAACAACAC
1 TTAAACACTTCAATTTACAGCAT
* *
79338810 TTATACACCTCAA-TTACAGC
1 TTAAACACTTCAATTTACAGC
79338830 TGTCGAAACC
Statistics
Matches: 853, Mismatches: 175, Indels: 93
0.76 0.16 0.08
Matches are distributed among these distances:
22 94 0.11
23 734 0.86
24 25 0.03
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.33
Consensus pattern (23 bp):
TTAAACACTTCAATTTACAGCAT
Found at i:79338134 original size:229 final size:229
Alignment explanation
Indices: 79337728--79338829 Score: 1972
Period size: 229 Copynumber: 4.8 Consensus size: 229
79337718 ACCCAAAATA
* *
79337728 AGTACTTAAACACTTCAATTTGCAACATTTAAGCACTTCAATTTATAGCATTTAAACACTTCAAT
1 AGTATTTAAACACTTCAATTTGCAACATTTAAGCACTTCAATTTACAGCATTTAAACACTTCAAT
*
79337793 TTGCAGCATTCAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAGCACTTTAA-CACT
66 TTACAGCATTCAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAGCA-TTTAAGCACT
79337857 TCAATTTGCAGCACTTTAACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAAC
130 TCAATTTGCAGCACTTTAACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAAC
79337922 ATCTCAATGTCCAACAACTAAACACTTCAATTTGC
195 ATCTCAATGTCCAACAACTAAACACTTCAATTTGC
79337957 AGTATTTAAACACTTCAATTTGCAACATTTAAGCACTTCAATTTACAGCATTTAAACACTTCAAT
1 AGTATTTAAACACTTCAATTTGCAACATTTAAGCACTTCAATTTACAGCATTTAAACACTTCAAT
* *
79338022 TTGCAGCATTCAAACACTTCAATTTGTAGCACTTTAACACTTCAATTTACAGCATTTAAGCACTT
66 TTACAGCATTCAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAGCATTTAAGCACTT
79338087 CAATTTGCAGCACTTTAACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACA
131 CAATTTGCAGCACTTTAACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACA
*
79338152 TCTCAATGTCCAACAACTAAACGCTTCAATTTGC
196 TCTCAATGTCCAACAACTAAACACTTCAATTTGC
79338186 AGTATTTAAACACTTCAATTTGCAACATTTAAGCACTTCAATTTACAGCATTTAAACACTTCAAT
1 AGTATTTAAACACTTCAATTTGCAACATTTAAGCACTTCAATTTACAGCATTTAAACACTTCAAT
*
79338251 TTACAGCATTCAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTATAGCATTTAAGCACTT
66 TTACAGCATTCAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAGCATTTAAGCACTT
79338316 CAATTTGCAGCACTTTAACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACA
131 CAATTTGCAGCACTTTAACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACA
79338381 TCTCAATGTCCAACAACTAAACACTTCAATTTGC
196 TCTCAATGTCCAACAACTAAACACTTCAATTTGC
*
79338415 AGTATTTAAACACTTCAATTTGCAACATTTAAGCACTTCAATTTATAGCATTTAAACACTTCAAT
1 AGTATTTAAACACTTCAATTTGCAACATTTAAGCACTTCAATTTACAGCATTTAAACACTTCAAT
*
79338480 TTACAGCATTCAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTATAGCATTTAAGCACTT
66 TTACAGCATTCAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAGCATTTAAGCACTT
79338545 CAATTTGCAGCACTTTAACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACA
131 CAATTTGCAGCACTTTAACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACA
* * *
79338610 TCTCAATGTCCAGCAACTAAATACTTCAATTTTC
196 TCTCAATGTCCAACAACTAAACACTTCAATTTGC
* * *
79338644 AGTACTTAAACACTTCAATTTGCAACATTGAAGCACTTCAATTTACAGTATTTAAACACTTCAAT
1 AGTATTTAAACACTTCAATTTGCAACATTTAAGCACTTCAATTTACAGCATTTAAACACTTCAAT
* * * * *
79338709 TTACAGCATTCAAAAACTTCAATTTGCAGCAGTTTAACACTTCAATTTACAGTATTAAAACACTT
66 TTACAGCATTCAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAGCATTTAAGCACTT
* * * *
79338774 CAATTTACAACACTTTAACATTTCAATTAACAACACTTATACACCTCAATTACAGC
131 CAATTTGCAGCACTTTAACATCTCAATTAACAACATTTATACACCTCAATTACAGC
79338830 TGTCGAAACC
Statistics
Matches: 846, Mismatches: 26, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
228 5 0.01
229 841 0.99
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.33
Consensus pattern (229 bp):
AGTATTTAAACACTTCAATTTGCAACATTTAAGCACTTCAATTTACAGCATTTAAACACTTCAAT
TTACAGCATTCAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAGCATTTAAGCACTT
CAATTTGCAGCACTTTAACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACA
TCTCAATGTCCAACAACTAAACACTTCAATTTGC
Found at i:79339651 original size:33 final size:33
Alignment explanation
Indices: 79339614--79339682 Score: 138
Period size: 33 Copynumber: 2.1 Consensus size: 33
79339604 CAAACATACG
79339614 AAGTAATAATTAAATAATGCATGATATACAAAA
1 AAGTAATAATTAAATAATGCATGATATACAAAA
79339647 AAGTAATAATTAAATAATGCATGATATACAAAA
1 AAGTAATAATTAAATAATGCATGATATACAAAA
79339680 AAG
1 AAG
79339683 AGTAATACAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.58, C:0.06, G:0.10, T:0.26
Consensus pattern (33 bp):
AAGTAATAATTAAATAATGCATGATATACAAAA
Found at i:79339891 original size:22 final size:24
Alignment explanation
Indices: 79339866--79339910 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
79339856 TTTGCTATAC
*
79339866 AATA-TATAAAA-CATAATAACAA
1 AATATTATAAAAGAATAATAACAA
79339888 AATATTTATAAAAGAATAATAAC
1 AATA-TTATAAAAGAATAATAAC
79339911 TATATATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 4 0.21
24 7 0.37
25 8 0.42
ACGTcount: A:0.64, C:0.07, G:0.02, T:0.27
Consensus pattern (24 bp):
AATATTATAAAAGAATAATAACAA
Found at i:79340340 original size:17 final size:17
Alignment explanation
Indices: 79340320--79340367 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
79340310 ATAAATAATT
* *
79340320 AATAAATATATAATACA
1 AATAAAAATATAATAAA
79340337 AATAAAAATATAATAAA
1 AATAAAAATATAATAAA
79340354 AATATAAAA-ATAAT
1 AATA-AAAATATAAT
79340368 GATGTAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 24 0.86
18 4 0.14
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (17 bp):
AATAAAAATATAATAAA
Found at i:79340345 original size:19 final size:19
Alignment explanation
Indices: 79340303--79340365 Score: 60
Period size: 19 Copynumber: 3.2 Consensus size: 19
79340293 ATGTAAAAAC
79340303 AATATATATAAATAAT-TAATA
1 AATATA-ATAAA-AATATAA-A
79340324 AATAT-ATAATACAA-ATAAA
1 AATATAATAA-A-AATATAAA
79340343 AATATAATAAAAATATAAA
1 AATATAATAAAAATATAAA
79340362 AATA
1 AATA
79340366 ATGATGTAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
18 2 0.05
19 20 0.54
20 10 0.27
21 5 0.14
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (19 bp):
AATATAATAAAAATATAAA
Found at i:79342447 original size:205 final size:205
Alignment explanation
Indices: 79342090--79342599 Score: 806
Period size: 205 Copynumber: 2.5 Consensus size: 205
79342080 AAATCTGCTT
*
79342090 CTTCGATTTGTTCTCT-AACAATACAGAGATGACAAATCATCTTAGATTTGCTTCAGCGTAAACA
1 CTTCGATTTGTTCTCTGAA-AATACAGAGATGACAAATCATCTTAGATTTGCTTCAACGTAAACA
* * * *
79342154 CGTGAAAGCCAAATCAGCTACGTCTTCAATTTGTTCCTTGTAAGTACAAGGATACCAAACCATCT
65 CGTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATACCAAACCATCT
* *
79342219 TGGATCTGCTTCAGTAGAAACATCTGAAGGTTGGATCTGCTATGTGTTTGCCCTCCGTCGAAGTG
130 TGGATCTACTTCAGTAGAAACATCTGAAGGTTGGATCTACTATGTGTTTGCCCTCCGTCGAAGTG
79342284 GAGATGCCAGA
195 GAGATGCCAGA
* * *
79342295 CTTCGATTTGTTCTCTGAAAATACAGAGATGTCAAATCATCTTAGATTTGCATCAACGTAAGCAC
1 CTTCGATTTGTTCTCTGAAAATACAGAGATGACAAATCATCTTAGATTTGCTTCAACGTAAACAC
* *
79342360 GTGAAAGCCAAATCAGCTATGTCTTTGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATACCAAACCATCTT
* * * **
79342425 GGATCTACTTCAGTATAAACATCTGAAGTTTGGATTTACTATGTGTTTGCCCTTTGTCGAAGTGG
131 GGATCTACTTCAGTAGAAACATCTGAAGGTTGGATCTACTATGTGTTTGCCCTCCGTCGAAGTGG
79342490 AGATGCCAGA
196 AGATGCCAGA
* * *
79342500 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAATAC
1 CTTCGATTTGTTCTCTGAAAATACAGAGATGACAAATCATCTTAGATTTGCTTCAACGTAAACAC
* *
79342565 GTGAAAGCCAAATTAGCTATGTCTTCGATCTGCTC
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTC
79342600 TCCGCCAATA
Statistics
Matches: 279, Mismatches: 25, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
205 277 0.99
206 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (205 bp):
CTTCGATTTGTTCTCTGAAAATACAGAGATGACAAATCATCTTAGATTTGCTTCAACGTAAACAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATACCAAACCATCTT
GGATCTACTTCAGTAGAAACATCTGAAGGTTGGATCTACTATGTGTTTGCCCTCCGTCGAAGTGG
AGATGCCAGA
Found at i:79342575 original size:41 final size:41
Alignment explanation
Indices: 79342530--79342666 Score: 127
Period size: 41 Copynumber: 3.2 Consensus size: 41
79342520 ATACAGAGAT
79342530 GCCAAATCATCTTAGATTTGCTTCAACGTAAATACGTGAAA
1 GCCAAATCATCTTAGATTTGCTTCAACGTAAATACGTGAAA
* * ** *
79342571 GCCAAATTAGCTATGTCTTCGATCTGCTCTC--CGCCAATAC-AGAAA
1 GCCAAA-T--C-A--TCTTAGATTTGCT-TCAACGTAAATACGTGAAA
*
79342616 TGCCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAA
1 -GCCAAATCATCTTAGATTTGCTTCAACGTAAATACGTGAAA
79342658 GCCAAATCA
1 GCCAAATCA
79342667 GCTACGTCTT
Statistics
Matches: 74, Mismatches: 11, Indels: 22
0.69 0.10 0.21
Matches are distributed among these distances:
39 2 0.03
40 11 0.15
41 21 0.28
42 6 0.08
43 1 0.01
44 1 0.01
45 6 0.08
46 13 0.18
47 11 0.15
48 2 0.03
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.27
Consensus pattern (41 bp):
GCCAAATCATCTTAGATTTGCTTCAACGTAAATACGTGAAA
Found at i:79342728 original size:87 final size:86
Alignment explanation
Indices: 79342500--79342688 Score: 290
Period size: 87 Copynumber: 2.2 Consensus size: 86
79342490 AGATGCCAGA
*
79342500 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAATAC
1 CTTCGATTTGTTC-CTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACAC
* *
79342565 GTGAAAGCCAAATTAGCTATGT
65 GTGAAAGCCAAATCAGCTACGT
* * *
79342587 CTTCGATCTGCTCTCC-GCCAATACAGAAATGCCAAATCATCTTAGATTTGCTTCAACGTAAACA
1 CTTCGATTTG-T-TCCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACA
79342651 CGTGAAAGCCAAATCAGCTACGT
64 CGTGAAAGCCAAATCAGCTACGT
79342674 CTTCGATTTGTTCCT
1 CTTCGATTTGTTCCT
79342689 TATAAGTACA
Statistics
Matches: 92, Mismatches: 7, Indels: 7
0.87 0.07 0.07
Matches are distributed among these distances:
85 3 0.03
86 1 0.01
87 84 0.91
88 2 0.02
89 2 0.02
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (86 bp):
CTTCGATTTGTTCCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACACG
TGAAAGCCAAATCAGCTACGT
Found at i:79342969 original size:44 final size:44
Alignment explanation
Indices: 79342819--79343094 Score: 224
Period size: 44 Copynumber: 6.3 Consensus size: 44
79342809 ATAATATAGA
*
79342819 GATGCCAAATCTGCTATCTTC-AACTTGTTCCCTATAAACACAGG
1 GATGCCAAATCTGCTATCTTCGATC-TGTTCCCTATAAACACAGG
* ** * * * * *
79342863 GATACC--ATGCTGAAATCCTCAATCTGCTTCGCTGTAAGCACA-G
1 GATGCCAAAT-CTGCTATCTTCGATCTG-TTCCCTATAAACACAGG
** * * *
79342906 GAGTGTTAGATCTGTTATCTTCGATCTGTTCCCTATAAACATAGG
1 GA-TGCCAAATCTGCTATCTTCGATCTGTTCCCTATAAACACAGG
*
79342951 GATGCCAAATCTGCTATCTTC-AACTTGTTCCCTATAAACACAGG
1 GATGCCAAATCTGCTATCTTCGATC-TGTTCCCTATAAACACAGG
** * *
79342995 GATGCC--ATGCTGAAATCTTCGATCTGCTTCGCTATAAGCACAGG
1 GATGCCAAAT-CTGCTATCTTCGATCTG-TTCCCTATAAACACAGG
* * * *
79343039 AATGTCAGATCTGCTATCTTTGATCTGTTCCCTATAAACACAGG
1 GATGCCAAATCTGCTATCTTCGATCTGTTCCCTATAAACACAGG
*
79343083 TATGCCAAATCT
1 GATGCCAAATCT
79343095 TGTTTCTTTG
Statistics
Matches: 179, Mismatches: 40, Indels: 26
0.73 0.16 0.11
Matches are distributed among these distances:
42 4 0.02
43 26 0.15
44 115 0.64
45 30 0.17
46 4 0.02
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.31
Consensus pattern (44 bp):
GATGCCAAATCTGCTATCTTCGATCTGTTCCCTATAAACACAGG
Found at i:79343033 original size:132 final size:132
Alignment explanation
Indices: 79342792--79343094 Score: 464
Period size: 132 Copynumber: 2.3 Consensus size: 132
79342782 AGATGCCAGA
* * * *
79342792 CTTCGATTTGTTCTCTGAT-AATATAGAGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAA
1 CTTCGATCTGTTCCCT-ATAAACATAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAA
* * * *
79342856 ACACAGGGATACCATGCTGAAATCCTCAATCTGCTTCGCTGTAAGCACAGGAGTGTTAGATCTGT
65 ACACAGGGATACCATGCTGAAATCCTCAATCTGCTTCGCTATAAGCACAGGAATGTCAGATCTGC
79342921 TAT
130 TAT
79342924 CTTCGATCTGTTCCCTATAAACATAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAA
1 CTTCGATCTGTTCCCTATAAACATAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAA
* * *
79342989 CACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCGCTATAAGCACAGGAATGTCAGATCTGCT
66 CACAGGGATACCATGCTGAAATCCTCAATCTGCTTCGCTATAAGCACAGGAATGTCAGATCTGCT
79343054 AT
131 AT
* * *
79343056 CTTTGATCTGTTCCCTATAAACACAGGTATGCCAAATCT
1 CTTCGATCTGTTCCCTATAAACATAGGGATGCCAAATCT
79343095 TGTTTCTTTG
Statistics
Matches: 156, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
131 2 0.01
132 154 0.99
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (132 bp):
CTTCGATCTGTTCCCTATAAACATAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAA
CACAGGGATACCATGCTGAAATCCTCAATCTGCTTCGCTATAAGCACAGGAATGTCAGATCTGCT
AT
Found at i:79343586 original size:11 final size:11
Alignment explanation
Indices: 79343570--79343594 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
79343560 GAGTTTATCA
79343570 TTTTTTAAAAT
1 TTTTTTAAAAT
79343581 TTTTTTAAAAT
1 TTTTTTAAAAT
79343592 TTT
1 TTT
79343595 GAATATTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TTTTTTAAAAT
Found at i:79343651 original size:8 final size:8
Alignment explanation
Indices: 79343640--79343688 Score: 57
Period size: 8 Copynumber: 6.4 Consensus size: 8
79343630 ATATTAAATA
79343640 TTAAATTT
1 TTAAATTT
*
79343648 TTAAGTTT
1 TTAAATTT
*
79343656 TT-TATTT
1 TTAAATTT
*
79343663 TT-TATTT
1 TTAAATTT
79343670 TTAAATTT
1 TTAAATTT
79343678 TTAAATTT
1 TTAAATTT
79343686 TTA
1 TTA
79343689 TTTTTTGAGT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
7 12 0.33
8 24 0.67
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (8 bp):
TTAAATTT
Found at i:79343663 original size:7 final size:7
Alignment explanation
Indices: 79343653--79343711 Score: 50
Period size: 7 Copynumber: 8.4 Consensus size: 7
79343643 AATTTTTAAG
79343653 TTTTTTA
1 TTTTTTA
79343660 TTTTTTA
1 TTTTTTA
*
79343667 TTTTTAAA
1 TTTTT-TA
*
79343675 TTTTTAA
1 TTTTTTA
*
79343682 ATTTTTA
1 TTTTTTA
79343689 TTTTTTGA
1 TTTTTT-A
*
79343697 --GTTTA
1 TTTTTTA
79343702 TTTTTTA
1 TTTTTTA
79343709 TTT
1 TTT
79343712 CGGTTTAATG
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
5 1 0.02
6 3 0.07
7 31 0.74
8 7 0.17
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.76
Consensus pattern (7 bp):
TTTTTTA
Found at i:79343669 original size:22 final size:22
Alignment explanation
Indices: 79343644--79343693 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
79343634 TAAATATTAA
* * *
79343644 ATTTTTAAGTTTTTTATTTTTT
1 ATTTTTAAATTTTTAAATTTTT
79343666 ATTTTTAAATTTTTAAATTTTT
1 ATTTTTAAATTTTTAAATTTTT
79343688 ATTTTT
1 ATTTTT
79343694 TGAGTTTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (22 bp):
ATTTTTAAATTTTTAAATTTTT
Found at i:79344303 original size:7 final size:7
Alignment explanation
Indices: 79344291--79344354 Score: 56
Period size: 7 Copynumber: 9.0 Consensus size: 7
79344281 CCCATGGCCA
79344291 TTAAACC
1 TTAAACC
79344298 TTAAACC
1 TTAAACC
*
79344305 ATAAAACC
1 -TTAAACC
*
79344313 CTAAACC
1 TTAAACC
* *
79344320 ATAGACC
1 TTAAACC
79344327 TTAAACC
1 TTAAACC
**
79344334 TTAAATA
1 TTAAACC
79344341 TTAAACC
1 TTAAACC
*
79344348 GTAAACC
1 TTAAACC
79344355 AAAAAATAAA
Statistics
Matches: 44, Mismatches: 12, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
7 38 0.86
8 6 0.14
ACGTcount: A:0.47, C:0.27, G:0.03, T:0.23
Consensus pattern (7 bp):
TTAAACC
Found at i:79344311 original size:15 final size:15
Alignment explanation
Indices: 79344288--79344338 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 15
79344278 ATACCCATGG
*
79344288 CCATTAAACCTTAAA
1 CCATAAAACCTTAAA
*
79344303 CCATAAAACCCTAAA
1 CCATAAAACCTTAAA
*
79344318 CCAT-AGACCTTAAA
1 CCATAAAACCTTAAA
*
79344332 CCTTAAA
1 CCATAAA
79344339 TATTAAACCG
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
14 11 0.38
15 18 0.62
ACGTcount: A:0.47, C:0.29, G:0.02, T:0.22
Consensus pattern (15 bp):
CCATAAAACCTTAAA
Found at i:79344500 original size:23 final size:22
Alignment explanation
Indices: 79344474--79344520 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
79344464 TGTTTAGGAT
79344474 TTTTA-GGGTTTAGAGGTTTAGTG
1 TTTTATGGG-TTAGAGG-TTAGTG
*
79344497 TTTTATGGGTTATAGGTTAGTG
1 TTTTATGGGTTAGAGGTTAGTG
79344519 TT
1 TT
79344521 ATGATTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 8 0.36
23 11 0.50
24 3 0.14
ACGTcount: A:0.17, C:0.00, G:0.32, T:0.51
Consensus pattern (22 bp):
TTTTATGGGTTAGAGGTTAGTG
Found at i:79344500 original size:24 final size:24
Alignment explanation
Indices: 79344465--79344520 Score: 57
Period size: 23 Copynumber: 2.4 Consensus size: 24
79344455 ATAGTTTAGT
79344465 GTTTAG-GATTTTTA-GGGTTTAGAG
1 GTTTAGTG-TTTTTATGGG-TTAGAG
*
79344489 GTTTAGTG-TTTTATGGGTTATAG
1 GTTTAGTGTTTTTATGGGTTAGAG
79344512 G-TTAGTGTT
1 GTTTAGTGTT
79344521 ATGATTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
22 6 0.21
23 12 0.43
24 9 0.32
25 1 0.04
ACGTcount: A:0.18, C:0.00, G:0.32, T:0.50
Consensus pattern (24 bp):
GTTTAGTGTTTTTATGGGTTAGAG
Found at i:79344598 original size:41 final size:40
Alignment explanation
Indices: 79344552--79344686 Score: 171
Period size: 41 Copynumber: 3.3 Consensus size: 40
79344542 GGTTATATAA
* * *
79344552 CTTTTACCGGCATTTTATCAAAAGCGTCGCTAATGCTCTGG
1 CTTTTAGCGGCGTTTTACCAAAAGCG-CGCTAATGCTCTGG
*
79344593 TTTTTAGCGGCGTTTTACCAAAAGCGCTGCTAATGCTCTGG
1 CTTTTAGCGGCGTTTTACCAAAAGCGC-GCTAATGCTCTGG
* * * *
79344634 CTTTTAGCAGCGTTTTACCGAAAGCGCCGCTAATGCTCCGA
1 CTTTTAGCGGCGTTTTACCAAAAGCG-CGCTAATGCTCTGG
79344675 CTTTTAGCGGCG
1 CTTTTAGCGGCG
79344687 CTTGCAGCGC
Statistics
Matches: 82, Mismatches: 10, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
40 1 0.01
41 80 0.98
42 1 0.01
ACGTcount: A:0.20, C:0.25, G:0.23, T:0.32
Consensus pattern (40 bp):
CTTTTAGCGGCGTTTTACCAAAAGCGCGCTAATGCTCTGG
Found at i:79346734 original size:12 final size:13
Alignment explanation
Indices: 79346717--79346748 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
79346707 GAATTTCCAG
79346717 AAAGAAAAAA-AA
1 AAAGAAAAAAGAA
79346729 AAAGAAAAAAGAA
1 AAAGAAAAAAGAA
79346742 AAA-AAAA
1 AAAGAAAA
79346749 GAAACAAAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (13 bp):
AAAGAAAAAAGAA
Found at i:79346745 original size:17 final size:18
Alignment explanation
Indices: 79346723--79346757 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
79346713 CCAGAAAGAA
79346723 AAAAAAAAAGAAA-AAAG
1 AAAAAAAAAGAAACAAAG
79346740 AAAAAAAAAGAAACAAAG
1 AAAAAAAAAGAAACAAAG
79346758 GGTCATTTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.86, C:0.03, G:0.11, T:0.00
Consensus pattern (18 bp):
AAAAAAAAAGAAACAAAG
Found at i:79369784 original size:15 final size:16
Alignment explanation
Indices: 79369764--79369805 Score: 59
Period size: 15 Copynumber: 2.6 Consensus size: 16
79369754 AAAACATTAC
79369764 ATAAATATATG-GAAA
1 ATAAATATATGAGAAA
*
79369779 ATAAATATATGATAAA
1 ATAAATATATGAGAAA
79369795 ATCAAATATAT
1 AT-AAATATAT
79369806 ATACATAACA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 11 0.46
16 5 0.21
17 8 0.33
ACGTcount: A:0.60, C:0.02, G:0.07, T:0.31
Consensus pattern (16 bp):
ATAAATATATGAGAAA
Found at i:79378485 original size:25 final size:25
Alignment explanation
Indices: 79378432--79378513 Score: 98
Period size: 25 Copynumber: 3.3 Consensus size: 25
79378422 ATTTGCTCAT
*
79378432 ACGAGCTATGAATCGATATA-CTCTC
1 ACGAGCTATGAATCGGTA-AGCTCTC
*
79378457 ACGAGCTATGAATTGGTAAGCTCAT-
1 ACGAGCTATGAATCGGTAAGCTC-TC
79378482 ACGAGCTGA-GAATCGGTAAGCTCTC
1 ACGAGCT-ATGAATCGGTAAGCTCTC
79378507 ACGAGCT
1 ACGAGCT
79378514 GCAAATCTGG
Statistics
Matches: 50, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
24 2 0.04
25 46 0.92
26 2 0.04
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.24
Consensus pattern (25 bp):
ACGAGCTATGAATCGGTAAGCTCTC
Found at i:79378520 original size:25 final size:24
Alignment explanation
Indices: 79378452--79378520 Score: 70
Period size: 25 Copynumber: 2.8 Consensus size: 24
79378442 AATCGATATA
*
79378452 CTCTCACGAGCT-ATGAATTGGTAAG
1 CTCTCACGAGCTGA--AATCGGTAAG
79378477 CTCAT-ACGAGCTGAGAATCGGTAAG
1 CTC-TCACGAGCTGA-AATCGGTAAG
79378502 CTCTCACGAGCTGCAAATC
1 CTCTCACGAGCTG-AAATC
79378521 TGGAAGTTCG
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
24 1 0.03
25 35 0.90
26 3 0.08
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.23
Consensus pattern (24 bp):
CTCTCACGAGCTGAAATCGGTAAG
Found at i:79390081 original size:26 final size:26
Alignment explanation
Indices: 79390052--79390107 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
79390042 TGATACAAAT
79390052 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
79390078 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
79390104 TGAT
1 TGAT
79390108 GGGAATTTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:79391462 original size:16 final size:17
Alignment explanation
Indices: 79391430--79391462 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
79391420 TTTTTGGGCT
79391430 TAATGGGCCAAAACGGGA
1 TAATGGGCC-AAACGGGA
79391448 TAATGGGCC-AACGGG
1 TAATGGGCCAAACGGG
79391463 CCCAAATTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.33, C:0.18, G:0.36, T:0.12
Consensus pattern (17 bp):
TAATGGGCCAAACGGGA
Found at i:79391757 original size:38 final size:38
Alignment explanation
Indices: 79391706--79391784 Score: 131
Period size: 38 Copynumber: 2.1 Consensus size: 38
79391696 TCCTGGTGGC
*
79391706 TATGCCACAATTATCTGATCTAGTGGCTCTGCCACAAA
1 TATGCCACAATTATCTGATATAGTGGCTCTGCCACAAA
* *
79391744 TATGCCACAATTATCTGATATGGTGGCTCTGCCACATA
1 TATGCCACAATTATCTGATATAGTGGCTCTGCCACAAA
79391782 TAT
1 TAT
79391785 CTGTTCTGGT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (38 bp):
TATGCCACAATTATCTGATATAGTGGCTCTGCCACAAA
Found at i:79391831 original size:27 final size:26
Alignment explanation
Indices: 79391749--79391840 Score: 96
Period size: 27 Copynumber: 3.4 Consensus size: 26
79391739 ACAAATATGC
* * * *
79391749 CACAATTATCTGATATGGTGGCTCTGC
1 CACAA-TATCTGTTCTGGTGACTCTGT
*
79391776 CACATATATCTGTTCTGGTGGCTCTGT
1 CACA-ATATCTGTTCTGGTGACTCTGT
79391803 CACAATATCTGTATCTGGTGACT-TCGT
1 CACAATATCTGT-TCTGGTGACTCT-GT
79391830 CACAATATCTG
1 CACAATATCTG
79391841 GCAGCCTCGC
Statistics
Matches: 58, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
26 9 0.16
27 48 0.83
28 1 0.02
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.36
Consensus pattern (26 bp):
CACAATATCTGTTCTGGTGACTCTGT
Found at i:79394471 original size:8 final size:7
Alignment explanation
Indices: 79394451--79394484 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
79394441 AGAGTCTCGC
79394451 ATTTTTGA
1 ATTTTT-A
*
79394459 ATTTTGA
1 ATTTTTA
79394466 ATTTTTA
1 ATTTTTA
79394473 ATTTTTA
1 ATTTTTA
79394480 ATTTT
1 ATTTT
79394485 AATAGCAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
7 19 0.79
8 5 0.21
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (7 bp):
ATTTTTA
Found at i:79401378 original size:20 final size:21
Alignment explanation
Indices: 79401333--79401378 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
79401323 CCCAAACTAT
*
79401333 TTTTAGGGCCCTGTAAGCTTA
1 TTTTAAGGCCCTGTAAGCTTA
* *
79401354 GTTTAAGGCCC-GTAAGTTTA
1 TTTTAAGGCCCTGTAAGCTTA
79401374 TTTTA
1 TTTTA
79401379 CCCTGATTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.22, C:0.15, G:0.22, T:0.41
Consensus pattern (21 bp):
TTTTAAGGCCCTGTAAGCTTA
Found at i:79408899 original size:44 final size:44
Alignment explanation
Indices: 79408833--79408921 Score: 160
Period size: 44 Copynumber: 2.0 Consensus size: 44
79408823 CTTACATTAC
*
79408833 TAAACAAGTAATGAATGATAAGTATCGAATATCAAAGAGAAGTT
1 TAAACAAGTAATGAATGATAAGTAACGAATATCAAAGAGAAGTT
*
79408877 TAAACAAGTAATGAATGTTAAGTAACGAATATCAAAGAGAAGTT
1 TAAACAAGTAATGAATGATAAGTAACGAATATCAAAGAGAAGTT
79408921 T
1 T
79408922 TACATTGAAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.49, C:0.07, G:0.18, T:0.26
Consensus pattern (44 bp):
TAAACAAGTAATGAATGATAAGTAACGAATATCAAAGAGAAGTT
Found at i:79409952 original size:10 final size:10
Alignment explanation
Indices: 79409925--79409984 Score: 70
Period size: 10 Copynumber: 6.0 Consensus size: 10
79409915 TTAAATTCTA
79409925 AAAGATAAAT
1 AAAGATAAAT
79409935 ACAA-ATAAAT
1 A-AAGATAAAT
*
79409945 AAAGATAATT
1 AAAGATAAAT
*
79409955 AAAGATAATT
1 AAAGATAAAT
79409965 AAAGATAAAT
1 AAAGATAAAT
79409975 GAAA-ATAAAT
1 -AAAGATAAAT
79409985 CCTAAAATTA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
9 2 0.04
10 38 0.84
11 5 0.11
ACGTcount: A:0.67, C:0.02, G:0.08, T:0.23
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:79412108 original size:96 final size:97
Alignment explanation
Indices: 79411940--79412121 Score: 285
Period size: 96 Copynumber: 1.9 Consensus size: 97
79411930 TATTTATTTA
* * * * * * *
79411940 TTTATTCTTGCTTAAGAATATATTGAACCTTTTGACGTGAAGAGAGATGACAGTCAAGCACCTCA
1 TTTATTCTTCCTTAAGAACATATCGAACCTTTTGACGTAAAAAGAGATGACAGCCAAGCAACTCA
79412005 CCCCGGTTACTCAGCCCAACATACTCCTAATT
66 CCCCGGTTACTCAGCCCAACATACTCCTAATT
79412037 TTTATT-TTCCTTAAGAACATATCGAACCTTTTGACGTAAAAAGAGATGACAGCCAAGCAACTCA
1 TTTATTCTTCCTTAAGAACATATCGAACCTTTTGACGTAAAAAGAGATGACAGCCAAGCAACTCA
*
79412101 CCTCGGTTACTCAGCCCAACA
66 CCCCGGTTACTCAGCCCAACA
79412122 CATTCTTAAA
Statistics
Matches: 77, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
96 71 0.92
97 6 0.08
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (97 bp):
TTTATTCTTCCTTAAGAACATATCGAACCTTTTGACGTAAAAAGAGATGACAGCCAAGCAACTCA
CCCCGGTTACTCAGCCCAACATACTCCTAATT
Found at i:79414775 original size:15 final size:13
Alignment explanation
Indices: 79414740--79414790 Score: 52
Period size: 15 Copynumber: 3.8 Consensus size: 13
79414730 CAACGTCAAA
79414740 AAAATAAAATAAT
1 AAAATAAAATAAT
79414753 AAATAATAAAATTAAGT
1 -AA-AATAAAA-TAA-T
79414770 AAAAT-AAA-AAT
1 AAAATAAAATAAT
79414781 AAAATAAAAT
1 AAAATAAAAT
79414791 TAAGTAAAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 11
0.74 0.00 0.26
Matches are distributed among these distances:
11 6 0.19
12 5 0.16
14 5 0.16
15 10 0.31
16 5 0.16
17 1 0.03
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.24
Consensus pattern (13 bp):
AAAATAAAATAAT
Found at i:79414776 original size:30 final size:29
Alignment explanation
Indices: 79414740--79414812 Score: 100
Period size: 26 Copynumber: 2.6 Consensus size: 29
79414730 CAACGTCAAA
79414740 AAAATAAAATAATAAATAATAAAATTAAGT
1 AAAAT-AAATAATAAATAATAAAATTAAGT
79414770 AAAATAAA-AAT-AA-AATAAAATTAAGT
1 AAAATAAATAATAAATAATAAAATTAAGT
*
79414796 AAAAGAAATAA-AAATAA
1 AAAATAAATAATAAATAA
79414813 AAATTGGGTT
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
26 20 0.51
27 6 0.15
28 5 0.13
29 3 0.08
30 5 0.13
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (29 bp):
AAAATAAATAATAAATAATAAAATTAAGT
Found at i:79414799 original size:36 final size:36
Alignment explanation
Indices: 79414739--79414816 Score: 97
Period size: 36 Copynumber: 2.2 Consensus size: 36
79414729 TCAACGTCAA
* *
79414739 AAAAATAAAATAATAAATAATAAAATTAAGT-AAAAT
1 AAAAATAAAATAATAAATAATAAAA-GAAATAAAAAT
*
79414775 AAAAATAAAATAA-AATTAAGTAAAAGAAATAAAAAT
1 AAAAATAAAATAATAAATAA-TAAAAGAAATAAAAAT
79414811 AAAAAT
1 AAAAAT
79414817 TGGGTTATCT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
35 8 0.22
36 29 0.78
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (36 bp):
AAAAATAAAATAATAAATAATAAAAGAAATAAAAAT
Found at i:79420365 original size:20 final size:20
Alignment explanation
Indices: 79420342--79420380 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
79420332 ATTCTAAAAG
*
79420342 ATAAATACAAATAAATAAAT
1 ATAAATAAAAATAAATAAAT
* *
79420362 ATAATTAAAAATAATTAAA
1 ATAAATAAAAATAAATAAA
79420381 GATATATGAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (20 bp):
ATAAATAAAAATAAATAAAT
Found at i:79421214 original size:96 final size:96
Alignment explanation
Indices: 79421066--79421316 Score: 421
Period size: 96 Copynumber: 2.6 Consensus size: 96
79421056 ATATATTGAT
* * *
79421066 CCTTTTGATGCGAAGAGAGATGACAGTCAAGCACCTCAACCCGGTTACTCAGCCCAACATACTCC
1 CCTTTTGATGCAAAGAGAGATGACAGCCAAGCACCTCACCCCGGTTACTCAGCCCAACATACTCC
**
79421131 TAATTTTTATTTTGTTTAAGAACGTATCGAA
66 TAATTTTTATTTTCCTTAAGAACGTATCGAA
* *
79421162 CCTTTTGACGCAAAGAGAGATGACAACCAAGCACCTCACCCCGGTTACTCAGCCCAACATACTCC
1 CCTTTTGATGCAAAGAGAGATGACAGCCAAGCACCTCACCCCGGTTACTCAGCCCAACATACTCC
79421227 TAATTTTTATTTTCCTTAAGAACGTATCGAA
66 TAATTTTTATTTTCCTTAAGAACGTATCGAA
* *
79421258 CCTTTTGATGCAAAGAGAGATGACAGCCAAGCACCTCACCCTGGTTACTCAGCCAAACA
1 CCTTTTGATGCAAAGAGAGATGACAGCCAAGCACCTCACCCCGGTTACTCAGCCCAACA
79421317 CATTCTTAAA
Statistics
Matches: 144, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
96 144 1.00
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.25
Consensus pattern (96 bp):
CCTTTTGATGCAAAGAGAGATGACAGCCAAGCACCTCACCCCGGTTACTCAGCCCAACATACTCC
TAATTTTTATTTTCCTTAAGAACGTATCGAA
Found at i:79423936 original size:5 final size:5
Alignment explanation
Indices: 79423926--79423989 Score: 76
Period size: 5 Copynumber: 12.4 Consensus size: 5
79423916 TCAACATCTA
* *
79423926 AAAAT AAAAT AATAA- ATAAT AAAAT AAAGT AAAAT AAAAAT AAAAT AAAAT
1 AAAAT AAAAT AA-AAT AAAAT AAAAT AAAAT AAAAT -AAAAT AAAAT AAAAT
79423977 AAAAT AAAGAT AA
1 AAAAT AAA-AT AA
79423990 CTAAATAAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
4 2 0.04
5 38 0.75
6 11 0.22
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:79423979 original size:21 final size:21
Alignment explanation
Indices: 79423926--79423989 Score: 87
Period size: 21 Copynumber: 3.1 Consensus size: 21
79423916 TCAACATCTA
79423926 AAAATAAAAT--AATAAATAAT
1 AAAATAAAATAAAATAAA-AAT
*
79423946 AAAATAAAGTAAAATAAAAAT
1 AAAATAAAATAAAATAAAAAT
*
79423967 AAAATAAAATAAAATAAAGAT
1 AAAATAAAATAAAATAAAAAT
79423988 AA
1 AA
79423990 CTAAATAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
20 9 0.23
21 24 0.62
22 6 0.15
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (21 bp):
AAAATAAAATAAAATAAAAAT
Found at i:79429590 original size:40 final size:42
Alignment explanation
Indices: 79429536--79429613 Score: 133
Period size: 41 Copynumber: 1.9 Consensus size: 42
79429526 GTACCTGGGA
*
79429536 AAAAAAGTTAAAATA-AAATAGAATTAAAAGTTTTGATCTGG
1 AAAAAAGTTAAAATAGAAACAGAATTAAAAGTTTTGATCTGG
79429577 AAAAAA-TTAAAATAGAAACAGAATTAAAAGTTTTGAT
1 AAAAAAGTTAAAATAGAAACAGAATTAAAAGTTTTGAT
79429614 TGAAATTCTG
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
40 8 0.23
41 27 0.77
ACGTcount: A:0.56, C:0.03, G:0.13, T:0.28
Consensus pattern (42 bp):
AAAAAAGTTAAAATAGAAACAGAATTAAAAGTTTTGATCTGG
Found at i:79430215 original size:21 final size:21
Alignment explanation
Indices: 79430191--79430238 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
79430181 TAAATATAAT
79430191 GAAAATGGAATTTTTGTTGAA
1 GAAAATGGAATTTTTGTTGAA
79430212 GAAAATGGAATTTTTGTTGAA
1 GAAAATGGAATTTTTGTTGAA
79430233 GAAAAT
1 GAAAAT
79430239 ATGGAAAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (21 bp):
GAAAATGGAATTTTTGTTGAA
Done.