Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
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: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 18 of 214
Found at i:5009218 original size:19 final size:19
Alignment explanation
Indices: 5009194--5009233 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
5009184 AAAATATCAT
*
5009194 ATTAATTTTAATTAACTTG
1 ATTAATTTAAATTAACTTG
*
5009213 ATTAATTTAAATTTACTTG
1 ATTAATTTAAATTAACTTG
5009232 AT
1 AT
5009234 CAAAATTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.53
Consensus pattern (19 bp):
ATTAATTTAAATTAACTTG
Found at i:5012346 original size:27 final size:27
Alignment explanation
Indices: 5012316--5012411 Score: 140
Period size: 27 Copynumber: 3.6 Consensus size: 27
5012306 CCTAATATTT
5012316 GTAAAATGATCGTAATGCCCCTGTAGG
1 GTAAAATGATCGTAATGCCCCTGTAGG
*
5012343 GTAAAATGATCGTAATGCCCCTATAGG
1 GTAAAATGATCGTAATGCCCCTGTAGG
* * *
5012370 GTAAAATAACCGTGATGCCCCTGTA-G
1 GTAAAATGATCGTAATGCCCCTGTAGG
*
5012396 GTAAAATGATTGTAAT
1 GTAAAATGATCGTAAT
5012412 ACCTCTGTTA
Statistics
Matches: 60, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
26 13 0.22
27 47 0.78
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (27 bp):
GTAAAATGATCGTAATGCCCCTGTAGG
Found at i:5012510 original size:24 final size:24
Alignment explanation
Indices: 5012478--5012539 Score: 70
Period size: 24 Copynumber: 2.6 Consensus size: 24
5012468 CCTTCGAGGT
* * *
5012478 TAAACGATTGATTTATCTATGGTG
1 TAAATGATTGATTTATCCATGATG
* *
5012502 TAAATGATTGATTTGTCCGTGATG
1 TAAATGATTGATTTATCCATGATG
*
5012526 TAAATGACTGATTT
1 TAAATGATTGATTT
5012540 GTTTGTGATT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.42
Consensus pattern (24 bp):
TAAATGATTGATTTATCCATGATG
Found at i:5012540 original size:24 final size:24
Alignment explanation
Indices: 5012486--5012610 Score: 119
Period size: 24 Copynumber: 5.2 Consensus size: 24
5012476 GTTAAACGAT
* * * *
5012486 TGATTTATCTATGGTGTAAATGAT
1 TGATTTGTCTGTGATGTAAATGAC
*
5012510 TGATTTGTCCGTGATGTAAATGAC
1 TGATTTGTCTGTGATGTAAATGAC
* *
5012534 TGATTTGTTTGTGATTTAAATGAC
1 TGATTTGTCTGTGATGTAAATGAC
5012558 TGATTTGTCTGTGATTGGT--ATGAC
1 TGATTTGTCTGTGA-T-GTAAATGAC
* * **
5012582 TGATTTGTTTGTGATTTGTATGAC
1 TGATTTGTCTGTGATGTAAATGAC
5012606 TGATT
1 TGATT
5012611 CTGAGCATGG
Statistics
Matches: 85, Mismatches: 12, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
22 1 0.01
23 1 0.01
24 81 0.95
25 1 0.01
26 1 0.01
ACGTcount: A:0.22, C:0.06, G:0.24, T:0.47
Consensus pattern (24 bp):
TGATTTGTCTGTGATGTAAATGAC
Found at i:5012550 original size:11 final size:11
Alignment explanation
Indices: 5012534--5012603 Score: 50
Period size: 11 Copynumber: 6.0 Consensus size: 11
5012524 TGTAAATGAC
*
5012534 TGATTTGTTTG
1 TGATTTGTATG
**
5012545 TGATTTAAATG
1 TGATTTGTATG
*
5012556 ACTGATTTGTCTG
1 --TGATTTGTATG
*
5012569 TGATTGGTATG
1 TGATTTGTATG
*
5012580 ACTGATTTGTTTG
1 --TGATTTGTATG
5012593 TGATTTGTATG
1 TGATTTGTATG
5012604 ACTGATTCTG
Statistics
Matches: 44, Mismatches: 11, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
11 27 0.61
13 17 0.39
ACGTcount: A:0.19, C:0.04, G:0.26, T:0.51
Consensus pattern (11 bp):
TGATTTGTATG
Found at i:5012554 original size:48 final size:48
Alignment explanation
Indices: 5012502--5012610 Score: 150
Period size: 48 Copynumber: 2.3 Consensus size: 48
5012492 ATCTATGGTG
*
5012502 TAAATGATTGATTTGTCCGTGA-T-GTAAATGACTGATTTGTTTGTGATT
1 TAAATGACTGATTTGTCCGTGATTGGT--ATGACTGATTTGTTTGTGATT
*
5012550 TAAATGACTGATTTGTCTGTGATTGGTATGACTGATTTGTTTGTGATT
1 TAAATGACTGATTTGTCCGTGATTGGTATGACTGATTTGTTTGTGATT
**
5012598 TGTATGACTGATT
1 TAAATGACTGATT
5012611 CTGAGCATGG
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
48 52 0.95
49 1 0.02
50 2 0.04
ACGTcount: A:0.23, C:0.06, G:0.24, T:0.47
Consensus pattern (48 bp):
TAAATGACTGATTTGTCCGTGATTGGTATGACTGATTTGTTTGTGATT
Found at i:5012764 original size:26 final size:26
Alignment explanation
Indices: 5012727--5012776 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
5012717 TGGTCACATA
*
5012727 TACTGTTACTGGCAGCTTTGCTGCAG
1 TACTGTTACTGGAAGCTTTGCTGCAG
*
5012753 TACTGTTGCTGGAAGCTTTGCTGC
1 TACTGTTACTGGAAGCTTTGCTGC
5012777 GATGCTACTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.14, C:0.22, G:0.28, T:0.36
Consensus pattern (26 bp):
TACTGTTACTGGAAGCTTTGCTGCAG
Found at i:5012905 original size:22 final size:21
Alignment explanation
Indices: 5012880--5012944 Score: 58
Period size: 22 Copynumber: 3.0 Consensus size: 21
5012870 ATTACTGTAC
5012880 TTATGGCTAGTAGCCATTCTGT
1 TTATGGCTA-TAGCCATTCTGT
* * * *
5012902 TTATAGCTTATAGCTATCCTAT
1 TTATGGC-TATAGCCATTCTGT
*
5012924 TTATGGCTCTTAGCCATTCTG
1 TTATGGCT-ATAGCCATTCTG
5012945 ATCACTGGCA
Statistics
Matches: 32, Mismatches: 9, Indels: 4
0.71 0.20 0.09
Matches are distributed among these distances:
21 1 0.03
22 29 0.91
23 2 0.06
ACGTcount: A:0.20, C:0.20, G:0.17, T:0.43
Consensus pattern (21 bp):
TTATGGCTATAGCCATTCTGT
Found at i:5017053 original size:19 final size:19
Alignment explanation
Indices: 5017001--5017072 Score: 65
Period size: 20 Copynumber: 3.7 Consensus size: 19
5016991 AAAATTACAA
* *
5017001 AAAAAATCAAAACAATTTT
1 AAAAATTCAAAATAATTTT
* *
5017020 CAAAATTTGAAAATAATTTT
1 -AAAAATTCAAAATAATTTT
*
5017040 TAAAATTCAAAAT-ATTTAT
1 AAAAATTCAAAATAATTT-T
5017059 AAAAATTCTAAAAT
1 AAAAATTC-AAAAT
5017073 TTTTATTTTT
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
18 4 0.10
19 18 0.43
20 20 0.48
ACGTcount: A:0.57, C:0.07, G:0.01, T:0.35
Consensus pattern (19 bp):
AAAAATTCAAAATAATTTT
Found at i:5017061 original size:18 final size:20
Alignment explanation
Indices: 5017041--5017078 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
5017031 AATAATTTTT
5017041 AAAATTC-AAAATATTTATA
1 AAAATTCTAAAATATTTATA
*
5017060 AAAATTCTAAAATTTTTAT
1 AAAATTCTAAAATATTTAT
5017079 TTTTTTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (20 bp):
AAAATTCTAAAATATTTATA
Found at i:5017089 original size:18 final size:18
Alignment explanation
Indices: 5017068--5017107 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
5017058 TAAAAATTCT
* *
5017068 AAAATTTTTATTTTTTTA
1 AAAATTTATAATTTTTTA
5017086 AAAA-TTATAATTTTTTA
1 AAAATTTATAATTTTTTA
5017103 AAAAT
1 AAAAT
5017108 CTAAAAAACA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
AAAATTTATAATTTTTTA
Found at i:5017148 original size:9 final size:9
Alignment explanation
Indices: 5017134--5017158 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
5017124 AAAGTTGAAA
5017134 TTTAAAAAT
1 TTTAAAAAT
5017143 TTTAAAAAT
1 TTTAAAAAT
5017152 TTTAAAA
1 TTTAAAA
5017159 TGTTATAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (9 bp):
TTTAAAAAT
Found at i:5017151 original size:17 final size:18
Alignment explanation
Indices: 5017131--5017169 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
5017121 AAAAAAGTTG
*
5017131 AAATTTAAAAATTTTA-A
1 AAATTTAAAAATGTTATA
*
5017148 AAATTTTAAAATGTTATA
1 AAATTTAAAAATGTTATA
5017166 AAAT
1 AAAT
5017170 GATAAATTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (18 bp):
AAATTTAAAAATGTTATA
Found at i:5017236 original size:3 final size:3
Alignment explanation
Indices: 5017228--5017258 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
5017218 CTGAAATATC
*
5017228 TTA TTA TTA TTA TTG TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
5017259 GCTTTAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:5019486 original size:16 final size:16
Alignment explanation
Indices: 5019460--5019499 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
5019450 TAGCTAATAG
5019460 AAAAA-AAATTC-AAA
1 AAAAATAAATTCTAAA
5019474 AATAAATAAATTCTAAA
1 AA-AAATAAATTCTAAA
5019491 AAAAATAAA
1 AAAAATAAA
5019500 AAATCATCCC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 2 0.09
15 3 0.13
16 13 0.57
17 5 0.22
ACGTcount: A:0.75, C:0.05, G:0.00, T:0.20
Consensus pattern (16 bp):
AAAAATAAATTCTAAA
Found at i:5020475 original size:21 final size:21
Alignment explanation
Indices: 5020428--5020475 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 21
5020418 AAGTAGGATG
*
5020428 AAAGAAGCAAGAAAAGGGAAA
1 AAAGAAGCAAGAAAAGAGAAA
*
5020449 AGAAGAAG-AGGAAAAGAGAACA
1 A-AAGAAGCAAGAAAAGAGAA-A
5020471 AAAGA
1 AAAGA
5020476 GGTGAAACAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
21 15 0.65
22 8 0.35
ACGTcount: A:0.67, C:0.04, G:0.29, T:0.00
Consensus pattern (21 bp):
AAAGAAGCAAGAAAAGAGAAA
Found at i:5027898 original size:11 final size:11
Alignment explanation
Indices: 5027878--5027938 Score: 51
Period size: 11 Copynumber: 5.9 Consensus size: 11
5027868 CCTTAAGTTC
*
5027878 ACATAGAACAT
1 ACATAAAACAT
5027889 ACATAAAACA-
1 ACATAAAACAT
* *
5027899 CCATTCAAACAT
1 ACA-TAAAACAT
5027911 ACAT--AA-A-
1 ACATAAAACAT
5027918 ACATAAAACAT
1 ACATAAAACAT
5027929 ACATAAAACA
1 ACATAAAACA
5027939 CCATTCAAGC
Statistics
Matches: 40, Mismatches: 4, Indels: 12
0.71 0.07 0.21
Matches are distributed among these distances:
7 4 0.10
8 1 0.03
9 4 0.10
10 3 0.08
11 26 0.65
12 2 0.05
ACGTcount: A:0.61, C:0.21, G:0.02, T:0.16
Consensus pattern (11 bp):
ACATAAAACAT
Found at i:5027912 original size:22 final size:22
Alignment explanation
Indices: 5027884--5027953 Score: 94
Period size: 22 Copynumber: 3.4 Consensus size: 22
5027874 GTTCACATAG
5027884 AACATACATAAAACACCATTCA
1 AACATACATAAAACACCATTCA
*
5027906 AACATACAT-AAA-A-CA-TAA
1 AACATACATAAAACACCATTCA
5027924 AACATACATAAAACACCATTCA
1 AACATACATAAAACACCATTCA
*
5027946 AGCATACA
1 AACATACA
5027954 CCAACATTCC
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
18 11 0.27
19 5 0.12
20 2 0.05
21 5 0.12
22 18 0.44
ACGTcount: A:0.57, C:0.24, G:0.01, T:0.17
Consensus pattern (22 bp):
AACATACATAAAACACCATTCA
Found at i:5027933 original size:40 final size:40
Alignment explanation
Indices: 5027878--5027953 Score: 134
Period size: 40 Copynumber: 1.9 Consensus size: 40
5027868 CCTTAAGTTC
*
5027878 ACATAGAACATACATAAAACACCATTCAAACATACATAAA
1 ACATAAAACATACATAAAACACCATTCAAACATACATAAA
*
5027918 ACATAAAACATACATAAAACACCATTCAAGCATACA
1 ACATAAAACATACATAAAACACCATTCAAACATACA
5027954 CCAACATTCC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.57, C:0.24, G:0.03, T:0.17
Consensus pattern (40 bp):
ACATAAAACATACATAAAACACCATTCAAACATACATAAA
Found at i:5030411 original size:19 final size:20
Alignment explanation
Indices: 5030374--5030411 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
5030364 AAATTATTCT
5030374 CTTCTAGTTTAGTAAAATAG
1 CTTCTAGTTTAGTAAAATAG
5030394 CTTCTAGTTTAG-AAAATA
1 CTTCTAGTTTAGTAAAATA
5030412 ATGTAGTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.39
Consensus pattern (20 bp):
CTTCTAGTTTAGTAAAATAG
Found at i:5040814 original size:7 final size:7
Alignment explanation
Indices: 5040802--5040834 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
5040792 CCGGTAGGGT
5040802 ATATAAA
1 ATATAAA
5040809 ATATAAA
1 ATATAAA
5040816 ATATAAA
1 ATATAAA
5040823 ATATAAA
1 ATATAAA
5040830 ATATA
1 ATATA
5040835 CATTATATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (7 bp):
ATATAAA
Found at i:5044389 original size:28 final size:27
Alignment explanation
Indices: 5044337--5044416 Score: 79
Period size: 28 Copynumber: 2.8 Consensus size: 27
5044327 ATAAATAGGG
*
5044337 AAATAAAAATATAATCAAATATAATAATAT
1 AAAT-AAAA-ATAAT-AAATATAATAATAA
* *
5044367 CAATAACAATAATAAATATTAATAATAA
1 AAATAAAAATAATAAATA-TAATAATAA
*
5044395 AAATAAAAATATATAAAAATAA
1 AAATAAAAATA-ATAAATATAA
5044417 ATTAATTAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
27 5 0.12
28 25 0.60
29 9 0.21
30 3 0.07
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.28
Consensus pattern (27 bp):
AAATAAAAATAATAAATATAATAATAA
Found at i:5044390 original size:13 final size:12
Alignment explanation
Indices: 5044338--5044427 Score: 53
Period size: 13 Copynumber: 7.3 Consensus size: 12
5044328 TAAATAGGGA
*
5044338 AATAAAAAT-AT
1 AATAAATATAAT
5044349 AATCAAATATAAT
1 AAT-AAATATAAT
*
5044362 AATATCAATAACAAT
1 AATA--AAT-ATAAT
5044377 AATAAATATTAAT
1 AATAAATA-TAAT
*
5044390 AATAAAAATAA-
1 AATAAATATAAT
* *
5044401 AA-ATATATAAA
1 AATAAATATAAT
5044412 AATAAAT-TAATT
1 AATAAATATAA-T
5044424 AATA
1 AATA
5044428 GAAAAAATAT
Statistics
Matches: 62, Mismatches: 8, Indels: 17
0.71 0.09 0.20
Matches are distributed among these distances:
10 6 0.10
11 10 0.16
12 17 0.27
13 18 0.29
14 3 0.05
15 8 0.13
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (12 bp):
AATAAATATAAT
Found at i:5044390 original size:19 final size:19
Alignment explanation
Indices: 5044357--5044401 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
5044347 ATAATCAAAT
5044357 ATAAT-AATATCAATAACA
1 ATAATAAATATCAATAACA
* *
5044375 ATAATAAATATTAATAATA
1 ATAATAAATATCAATAACA
*
5044394 AAAATAAA
1 ATAATAAA
5044402 AATATATAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 5 0.22
19 18 0.78
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (19 bp):
ATAATAAATATCAATAACA
Found at i:5044410 original size:16 final size:15
Alignment explanation
Indices: 5044387--5044417 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
5044377 AATAAATATT
5044387 AATAATAAAAATAAA
1 AATAATAAAAATAAA
5044402 AATATATAAAAATAAA
1 AATA-ATAAAAATAAA
5044418 TTAATTAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (15 bp):
AATAATAAAAATAAA
Found at i:5044415 original size:22 final size:22
Alignment explanation
Indices: 5044368--5044417 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
5044358 TAATAATATC
* *
5044368 AATAACAATAATAAATATTAAT
1 AATAAAAATAATAAATATTAAA
5044390 AATAAAAATAA-AAATATATAAA
1 AATAAAAATAATAAATAT-TAAA
5044412 AATAAA
1 AATAAA
5044418 TTAATTAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 6 0.24
22 19 0.76
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (22 bp):
AATAAAAATAATAAATATTAAA
Found at i:5046497 original size:36 final size:36
Alignment explanation
Indices: 5046445--5046519 Score: 114
Period size: 36 Copynumber: 2.1 Consensus size: 36
5046435 GTTCCACTGC
5046445 AATGCCAGAGAAATAAGATTCGCTATCTTCAGCTTT
1 AATGCCAGAGAAATAAGATTCGCTATCTTCAGCTTT
* * * *
5046481 AATGCCAGGGAGATAAGATTCGCTGTCTTCAGTTTT
1 AATGCCAGAGAAATAAGATTCGCTATCTTCAGCTTT
5046517 AAT
1 AAT
5046520 TTGCTCCGCT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32
Consensus pattern (36 bp):
AATGCCAGAGAAATAAGATTCGCTATCTTCAGCTTT
Found at i:5046550 original size:87 final size:87
Alignment explanation
Indices: 5046397--5046570 Score: 213
Period size: 87 Copynumber: 2.0 Consensus size: 87
5046387 TCTTCGCAAC
* * * *
5046397 GCCAGGGAAACAAGATTCGCTACCTTTAGTTTTAATTTGTTCCACTGCAATGCCAGAGAAATAAG
1 GCCAGGGAAACAAGATTCGCTACCTTCAGTTTTAATTTGCTCCACTGCAATGCCAGAAAAACAAG
* * *
5046462 ATTCGCTATCTTCAGCTTTAAT
66 ATCCACTACCTTCAGCTTTAAT
* * ** * * *
5046484 GCCAGGGAGATAAGATTCGCTGTCTTCAGTTTTAATTTGCTCCGCTGTAATGTCAGAAAAACAAG
1 GCCAGGGAAACAAGATTCGCTACCTTCAGTTTTAATTTGCTCCACTGCAATGCCAGAAAAACAAG
*
5046549 ATCCACTACCTTTAGCTTTAAT
66 ATCCACTACCTTCAGCTTTAAT
5046571 CTGTTCCACC
Statistics
Matches: 72, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
87 72 1.00
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (87 bp):
GCCAGGGAAACAAGATTCGCTACCTTCAGTTTTAATTTGCTCCACTGCAATGCCAGAAAAACAAG
ATCCACTACCTTCAGCTTTAAT
Found at i:5046717 original size:51 final size:51
Alignment explanation
Indices: 5046622--5046735 Score: 129
Period size: 51 Copynumber: 2.2 Consensus size: 51
5046612 ATCCGCTCCA
* * * *
5046622 CTTCAGTTTTAATCTATTTCACTACAATGCCAGGGAAACGAGATTTGCTAC
1 CTTCAGCTTTAATCTATTTCACTACAACGCCAGGGAAACAAGATTCGCTAC
* * * * * * *
5046673 CTTTAGCTTTAATCTGTTTCACTGCAACGCTAGGGAAATAAGATTCGTTAT
1 CTTCAGCTTTAATCTATTTCACTACAACGCCAGGGAAACAAGATTCGCTAC
5046724 CTTCAGCTTTAA
1 CTTCAGCTTTAA
5046736 CGCCAGGGAG
Statistics
Matches: 51, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.28, C:0.20, G:0.16, T:0.36
Consensus pattern (51 bp):
CTTCAGCTTTAATCTATTTCACTACAACGCCAGGGAAACAAGATTCGCTAC
Found at i:5046755 original size:36 final size:36
Alignment explanation
Indices: 5046698--5046771 Score: 94
Period size: 36 Copynumber: 2.1 Consensus size: 36
5046688 GTTTCACTGC
* * * *
5046698 AACGCTAGGGAAATAAGATTCGTTATCTTCAGCTTT
1 AACGCCAGGGAAATAAAATTCGCTACCTTCAGCTTT
* *
5046734 AACGCCAGGGAGATAAAATTCGCTGCCTTCAGCTTT
1 AACGCCAGGGAAATAAAATTCGCTACCTTCAGCTTT
5046770 AA
1 AA
5046772 TCTGCTCCAC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.28
Consensus pattern (36 bp):
AACGCCAGGGAAATAAAATTCGCTACCTTCAGCTTT
Found at i:5046819 original size:51 final size:51
Alignment explanation
Indices: 5046733--5046884 Score: 205
Period size: 51 Copynumber: 3.0 Consensus size: 51
5046723 TCTTCAGCTT
*
5046733 TAACGCCAGGGAGATAAAATTCGCTGCCTTCAGCTTTAATCTGCTCCACTG
1 TAACGCCAGGGAGATAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCACTG
* * * * *
5046784 TAACGCTAGGGAAATAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTG
1 TAACGCCAGGGAGATAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCACTG
* * * **
5046835 TAACACCAAGGAGATAGGATTCGCTGCCTTCAGCTTTAATCCACTCCACT
1 TAACGCCAGGGAGATAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCACT
5046885 TTAGCTTTAA
Statistics
Matches: 85, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
51 85 1.00
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.29
Consensus pattern (51 bp):
TAACGCCAGGGAGATAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCACTG
Found at i:5046870 original size:138 final size:137
Alignment explanation
Indices: 5046653--5047134 Score: 526
Period size: 138 Copynumber: 3.6 Consensus size: 137
5046643 CTACAATGCC
** * * * *
5046653 AGGGAAACGAGATTTGCTACCTTTAGCTTTAATCTGTTTCACTGCAACGCTAGGGAAATAAGATT
1 AGGGAAATAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATT
** *
5046718 CGTTATCTTCAGCTTTAACGCCAGGGAGATAAAATTCGCTGCCTTCAGCTTTAATCTGCTCCACT
66 CACTACCTTCAGCTTTAACGCCAGGGAGAT-AAATTCGCTGCCTTCAGCTTTAATCTGCTCCACT
*
5046783 GTAACGCT
130 GCAACGCT
* * * *
5046791 AGGGAAATAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGTAACACCAAGGAGATAGGATT
1 AGGGAAATAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATT
* * * * * * *
5046856 CGCTGCCTTCAGCTTTAA-TCC----------ACTC-C--ACTTTAGCTTTAATCT-CTTCCATT
66 CACTACCTTCAGCTTTAACGCCAGGGAGATAAATTCGCTGCCTTCAGCTTTAATCTGC-TCCACT
* *
5046906 GCGACGCC
130 GCAACGCT
* *
5046914 AGGGAAATAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGCAACGTCAGGGAAATAAGATT
1 AGGGAAATAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATT
** ** *
5046979 CACTGTCTTCAGCTTTAACGCCAGGGAGATAAGATTCGCTGCCTTCAGCTTTAATCTGCTCTGCG
66 CACTACCTTCAGCTTTAACGCCAGGGAGATAA-ATTCGCTGCCTTCAGCTTTAATCTGCTCCACT
5047044 GCAACGCT
130 GCAACGCT
* * * *
5047052 AGGGAAATAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACCGTAACGCCAAGGAGATAGGATT
1 AGGGAAATAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATT
5047117 CACTACCTTCAGCTTTAA
66 CACTACCTTCAGCTTTAA
5047135 TCCGCTCCAT
Statistics
Matches: 280, Mismatches: 47, Indels: 34
0.78 0.13 0.09
Matches are distributed among these distances:
122 1 0.00
123 99 0.35
124 2 0.01
125 1 0.00
126 3 0.01
135 3 0.01
136 1 0.00
137 2 0.01
138 167 0.60
139 1 0.00
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (137 bp):
AGGGAAATAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATT
CACTACCTTCAGCTTTAACGCCAGGGAGATAAATTCGCTGCCTTCAGCTTTAATCTGCTCCACTG
CAACGCT
Found at i:5046947 original size:261 final size:261
Alignment explanation
Indices: 5046172--5047197 Score: 1321
Period size: 261 Copynumber: 4.0 Consensus size: 261
5046162 CCACTTCAGA
* * * ** * *
5046172 TTTAATCTATTTCACTGCAACGCCAGGGAAATAAGATTTGCTGCCTTCAG-TATTTATGCCAGGG
1 TTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTATCTTCAGCT-TTAACGCCAGGG
* * * *
5046236 AGATAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCGCTGCAACACCAGGGAAACAATATTTGCT
65 AGATAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCGCTGCAACGCTAGGGAAACAAGATTCGCT
* * * * * *
5046301 ACCTTTAGCTTTAATCTATTTCATTGTAACGCTAAGGAGATAGGATTCGCAGCCTTCAGCTTTAA
130 ACCTTTAGCTTTAATCTGTTCCACTGTAACACCAAGGAGATAGGATTCGCTGCCTTCAGCTTTAA
*
5046366 TCTGCTCCA-TTTCAGCTTTAATC--TT---C-GCAACGCCAGGGAAACAAGATTCGCTACCTTT
195 TCCGCTCCACTTT-AGCTTTAATCTATTCCACTGCAACGCCAGGGAAACAAGATTCGCTACCTTT
*
5046424 AGT
259 AGC
* * * *
5046427 TTTAATTTGTTCCACTGCAATGCCAGAGAAATAAGATTCGCTATCTTCAGCTTTAATGCCAGGGA
1 TTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTATCTTCAGCTTTAACGCCAGGGA
* * * * * ** * *
5046492 GATAAGATTCGCTGTCTTCAGTTTTAATTTGCTCCGCTGTAATG-TCAGAAAAACAAGATCCACT
66 GATAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCGCTGCAACGCT-AGGGAAACAAGATTCGCT
*
5046556 ACCTTTAGCTTTAATCTGTT---C-----CACCAAGAAGATAGGATTCGCTGCCTTCAGCTTTAA
130 ACCTTTAGCTTTAATCTGTTCCACTGTAACACCAAGGAGATAGGATTCGCTGCCTTCAGCTTTAA
* * * * * * *
5046613 TCCGCTCCACTTCAGTTTTAATCTATTTCACTACAATGCCAGGGAAACGAGATTTGCTACCTTTA
195 TCCGCTCCACTTTAGCTTTAATCTATTCCACTGCAACGCCAGGGAAACAAGATTCGCTACCTTTA
5046678 GC
260 GC
* * *
5046680 TTTAATCTGTTTCACTGCAACGCTAGGGAAATAAGATTCGTTATCTTCAGCTTTAACGCCAGGGA
1 TTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTATCTTCAGCTTTAACGCCAGGGA
* * * *
5046745 GATAAAATTCGCTGCCTTCAGCTTTAATCTGCTCCACTGTAACGCTAGGGAAATAAGATTCGCTA
66 GATAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCGCTGCAACGCTAGGGAAACAAGATTCGCTA
5046810 CCTTTAGCTTTAATCTGTTCCACTGTAACACCAAGGAGATAGGATTCGCTGCCTTCAGCTTTAAT
131 CCTTTAGCTTTAATCTGTTCCACTGTAACACCAAGGAGATAGGATTCGCTGCCTTCAGCTTTAAT
* * * * *
5046875 CCACTCCACTTTAGCTTTAATCTCTTCCATTGCGACGCCAGGGAAATAAGATTCGCTACCTTTAG
196 CCGCTCCACTTTAGCTTTAATCTATTCCACTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAG
5046940 C
261 C
* * *
5046941 TTTAATCTGTTCCACTGCAACGTCAGGGAAATAAGATTCACTGTCTTCAGCTTTAACGCCAGGGA
1 TTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTATCTTCAGCTTTAACGCCAGGGA
* * *
5047006 GATAAGATTCGCTGCCTTCAGCTTTAATCTGCTCTGCGGCAACGCTAGGGAAATAAGATTCGCTA
66 GATAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCGCTGCAACGCTAGGGAAACAAGATTCGCTA
* * * *
5047071 CCTTTAGCTTTAATCTGTTCCACCGTAACGCCAAGGAGATAGGATTCACTACCTTCAGCTTTAAT
131 CCTTTAGCTTTAATCTGTTCCACTGTAACACCAAGGAGATAGGATTCGCTGCCTTCAGCTTTAAT
* * *
5047136 CCGCTCCATTTTAGCTTTAATCTATTCCACTGCAACACCAGGGAAACAAGATTCGCTGCCTT
196 CCGCTCCACTTTAGCTTTAATCTATTCCACTGCAACGCCAGGGAAACAAGATTCGCTACCTT
5047198 CAGTCTTAAC
Statistics
Matches: 663, Mismatches: 90, Indels: 30
0.85 0.11 0.04
Matches are distributed among these distances:
247 49 0.07
248 2 0.00
249 2 0.00
252 1 0.00
253 159 0.24
254 1 0.00
255 123 0.19
256 2 0.00
261 324 0.49
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (261 bp):
TTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTATCTTCAGCTTTAACGCCAGGGA
GATAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCGCTGCAACGCTAGGGAAACAAGATTCGCTA
CCTTTAGCTTTAATCTGTTCCACTGTAACACCAAGGAGATAGGATTCGCTGCCTTCAGCTTTAAT
CCGCTCCACTTTAGCTTTAATCTATTCCACTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAG
C
Found at i:5046956 original size:72 final size:72
Alignment explanation
Indices: 5046811--5046947 Score: 184
Period size: 72 Copynumber: 1.9 Consensus size: 72
5046801 GATTCGCTAC
* * * * *
5046811 CTTTAGCTTTAATCTGTTCCACTGTAACACCAAGGAGATAGGATTCGCTGCCTTCAGCTTTAATC
1 CTTTAGCTTTAATCTCTTCCACTGCAACACCAAGGAAATAAGATTCGCTACCTTCAGCTTTAATC
5046876 CACTCCA
66 CACTCCA
* * * * *
5046883 CTTTAGCTTTAATCTCTTCCATTGCGACGCCAGGGAAATAAGATTCGCTACCTTTAGCTTTAATC
1 CTTTAGCTTTAATCTCTTCCACTGCAACACCAAGGAAATAAGATTCGCTACCTTCAGCTTTAATC
5046948 TGTTCCACTG
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
72 55 1.00
ACGTcount: A:0.25, C:0.26, G:0.15, T:0.34
Consensus pattern (72 bp):
CTTTAGCTTTAATCTCTTCCACTGCAACACCAAGGAAATAAGATTCGCTACCTTCAGCTTTAATC
CACTCCA
Found at i:5046968 original size:51 final size:51
Alignment explanation
Indices: 5046883--5046979 Score: 158
Period size: 51 Copynumber: 1.9 Consensus size: 51
5046873 ATCCACTCCA
* *
5046883 CTTTAGCTTTAATCTCTTCCATTGCGACGCCAGGGAAATAAGATTCGCTAC
1 CTTTAGCTTTAATCTCTTCCACTGCAACGCCAGGGAAATAAGATTCGCTAC
* *
5046934 CTTTAGCTTTAATCTGTTCCACTGCAACGTCAGGGAAATAAGATTC
1 CTTTAGCTTTAATCTCTTCCACTGCAACGCCAGGGAAATAAGATTC
5046980 ACTGTCTTCA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 42 1.00
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.32
Consensus pattern (51 bp):
CTTTAGCTTTAATCTCTTCCACTGCAACGCCAGGGAAATAAGATTCGCTAC
Found at i:5046989 original size:123 final size:124
Alignment explanation
Indices: 5046764--5047197 Score: 453
Period size: 123 Copynumber: 3.4 Consensus size: 124
5046754 CGCTGCCTTC
* *
5046764 AGCTTTAATCTGC-TCCACTGTAACGCTAGGGAAATAAGATTCGCTACCTTTAGCTTTAATCTGT
1 AGCTTTAATCTGCTTCCACTGCAACGCCAGGGAAATAAGATTCGCTACCTTTAGCTTTAATCTGT
* *
5046828 TCCACTGTAACACCAAGGAGATAGGATTCGCTGCCTTCAGCTTTAATCCACTCCACTTT
66 TCCACTGTAACGCCAAGGAGATAGGATTCACTGCCTTCAGCTTTAATCCACTCCACTTT
* *
5046887 AGCTTTAATCT-CTTCCATTGCGACGCCAGGGAAATAAGATTCGCTACCTTTAGCTTTAATCTGT
1 AGCTTTAATCTGCTTCCACTGCAACGCCAGGGAAATAAGATTCGCTACCTTTAGCTTTAATCTGT
* * * * * * * *
5046951 TCCACTGCAACGTCAGGGAAATAAGATTCACTGTCTTCAGCTTTAACGCCAGGGAGATAAGATTC
66 TCCACTGTAACGCCAAGGAGATAGGATTCACTGCCTTCAGCTTTAA-TCC-----------ACTC
* *
5047016 GCTGCCTTC
119 -C--ACTTT
** * *
5047025 AGCTTTAATCTGC-TCTGCGGCAACGCTAGGGAAATAAGATTCGCTACCTTTAGCTTTAATCTGT
1 AGCTTTAATCTGCTTCCACTGCAACGCCAGGGAAATAAGATTCGCTACCTTTAGCTTTAATCTGT
* * * *
5047089 TCCACCGTAACGCCAAGGAGATAGGATTCACTACCTTCAGCTTTAATCCGCTCCATTTT
66 TCCACTGTAACGCCAAGGAGATAGGATTCACTGCCTTCAGCTTTAATCCACTCCACTTT
* * * *
5047148 AGCTTTAATCT-ATTCCACTGCAACACCAGGGAAACAAGATTCGCTGCCTT
1 AGCTTTAATCTGCTTCCACTGCAACGCCAGGGAAATAAGATTCGCTACCTT
5047198 CAGTCTTAAC
Statistics
Matches: 249, Mismatches: 44, Indels: 36
0.76 0.13 0.11
Matches are distributed among these distances:
122 1 0.00
123 139 0.56
124 2 0.01
125 1 0.00
126 2 0.01
135 3 0.01
136 1 0.00
137 2 0.01
138 97 0.39
139 1 0.00
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (124 bp):
AGCTTTAATCTGCTTCCACTGCAACGCCAGGGAAATAAGATTCGCTACCTTTAGCTTTAATCTGT
TCCACTGTAACGCCAAGGAGATAGGATTCACTGCCTTCAGCTTTAATCCACTCCACTTT
Found at i:5046993 original size:51 final size:51
Alignment explanation
Indices: 5046887--5046996 Score: 148
Period size: 51 Copynumber: 2.2 Consensus size: 51
5046877 ACTCCACTTT
* * * *
5046887 AGCTTTAATCTCTTCCATTGCGACGCCAGGGAAATAAGATTCGCTACCTTT
1 AGCTTTAATCTCTTCCACTGCAACGCCAGGGAAATAAGATTCACTACCTTC
* * **
5046938 AGCTTTAATCTGTTCCACTGCAACGTCAGGGAAATAAGATTCACTGTCTTC
1 AGCTTTAATCTCTTCCACTGCAACGCCAGGGAAATAAGATTCACTACCTTC
5046989 AGCTTTAA
1 AGCTTTAA
5046997 CGCCAGGGAG
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (51 bp):
AGCTTTAATCTCTTCCACTGCAACGCCAGGGAAATAAGATTCACTACCTTC
Found at i:5047011 original size:36 final size:36
Alignment explanation
Indices: 5046959--5047032 Score: 112
Period size: 36 Copynumber: 2.1 Consensus size: 36
5046949 GTTCCACTGC
* *
5046959 AACGTCAGGGAAATAAGATTCACTGTCTTCAGCTTT
1 AACGCCAGGGAAATAAGATTCACTGCCTTCAGCTTT
* *
5046995 AACGCCAGGGAGATAAGATTCGCTGCCTTCAGCTTT
1 AACGCCAGGGAAATAAGATTCACTGCCTTCAGCTTT
5047031 AA
1 AA
5047033 TCTGCTCTGC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.27
Consensus pattern (36 bp):
AACGCCAGGGAAATAAGATTCACTGCCTTCAGCTTT
Found at i:5047080 original size:51 final size:51
Alignment explanation
Indices: 5046995--5047143 Score: 181
Period size: 51 Copynumber: 2.9 Consensus size: 51
5046985 CTTCAGCTTT
* ** *
5046995 AACGCCAGGGAGATAAGATTCGCTGCCTTCAGCTTTAATCTGCTCTGCGGC
1 AACGCCAGGGAGATAAGATTCGCTACCTTCAGCTTTAATCTGCTCCACCGC
* * * * *
5047046 AACGCTAGGGAAATAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACCGT
1 AACGCCAGGGAGATAAGATTCGCTACCTTCAGCTTTAATCTGCTCCACCGC
* * * *
5047097 AACGCCAAGGAGATAGGATTCACTACCTTCAGCTTTAATCCGCTCCA
1 AACGCCAGGGAGATAAGATTCGCTACCTTCAGCTTTAATCTGCTCCA
5047144 TTTTAGCTTT
Statistics
Matches: 81, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
51 81 1.00
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (51 bp):
AACGCCAGGGAGATAAGATTCGCTACCTTCAGCTTTAATCTGCTCCACCGC
Found at i:5047080 original size:87 final size:87
Alignment explanation
Indices: 5046909--5047083 Score: 235
Period size: 87 Copynumber: 2.0 Consensus size: 87
5046899 TTCCATTGCG
* * *
5046909 ACGCCAGGGAAATAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGCAACGTCAGGGAAATA
1 ACGCCAGGGAAATAAGATTCGCTACCTTCAGCTTTAATCTGCTCCACGGCAACGTCAGGGAAATA
**
5046974 AGATTCACTGTCTTCAGCTTTA
66 AGATTCACTACCTTCAGCTTTA
* * **
5046996 ACGCCAGGGAGATAAGATTCGCTGCCTTCAGCTTTAATCTGCTCTGCGGCAACG-CTAGGGAAAT
1 ACGCCAGGGAAATAAGATTCGCTACCTTCAGCTTTAATCTGCTCCACGGCAACGTC-AGGGAAAT
* *
5047060 AAGATTCGCTACCTTTAGCTTTA
65 AAGATTCACTACCTTCAGCTTTA
5047083 A
1 A
5047084 TCTGTTCCAC
Statistics
Matches: 76, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
86 1 0.01
87 75 0.99
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (87 bp):
ACGCCAGGGAAATAAGATTCGCTACCTTCAGCTTTAATCTGCTCCACGGCAACGTCAGGGAAATA
AGATTCACTACCTTCAGCTTTA
Found at i:5062628 original size:33 final size:30
Alignment explanation
Indices: 5062576--5062637 Score: 79
Period size: 33 Copynumber: 2.0 Consensus size: 30
5062566 AAATATATAT
5062576 ATATGTACTTACATATTCTTCATATTTTAA
1 ATATGTACTTACATATTCTTCATATTTTAA
* *
5062606 ATATGTATCTTATATATGTTCTTTATATTTTA
1 ATATGTA-CTTACATA--TTCTTCATATTTTA
5062638 TGAATCATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
30 7 0.26
31 7 0.26
33 13 0.48
ACGTcount: A:0.31, C:0.10, G:0.05, T:0.55
Consensus pattern (30 bp):
ATATGTACTTACATATTCTTCATATTTTAA
Found at i:5063315 original size:112 final size:111
Alignment explanation
Indices: 5063076--5063482 Score: 588
Period size: 112 Copynumber: 3.7 Consensus size: 111
5063066 ATATTTAGTA
*
5063076 TTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGTTTTTTCTCATTCAACCAAATGG
1 TTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCATTCAACCAAATGG
* * * *
5063141 CTTAATATCCTTTTAAAAAGTGTT-AAAATAAGGCAATGTTTTGTG
66 CTAAATATCCTTTTAAAAAATATTCAAAATAAGGCAATGTTTTGCG
5063186 TTTGGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCATTCAACCAAATG
1 TTT-GGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCATTCAACCAAATG
* * *
5063251 GCAAAATATCATTTTAAAAAATTTTCAAAATAAGGCAATGTTTTGCG
65 GCTAAATATCCTTTTAAAAAATATTCAAAATAAGGCAATGTTTTGCG
*
5063298 TTTGGAAAATTCTAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCATTCAACCAAATG
1 TTTGG-AAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCATTCAACCAAATG
*
5063363 GCTAAATATCCTTTTAAAAAAAATTCAAAATAAGGCAATGTTTTGCG
65 GCTAAATATCCTTTTAAAAAATATTCAAAATAAGGCAATGTTTTGCG
* * * * * * * * *
5063410 TTTGGAAATTTGAG-GAACGTACCCTAAGGTGCTGGGTTTCCA--TTTCTCGTTTAACCAAATAG
1 TTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCATTCAACCAAATGG
*
5063472 CCAAATATCCT
66 CTAAATATCCT
5063483 CTCGAATTTC
Statistics
Matches: 271, Mismatches: 23, Indels: 8
0.90 0.08 0.03
Matches are distributed among these distances:
108 27 0.10
110 26 0.10
111 89 0.33
112 129 0.48
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (111 bp):
TTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCATTCAACCAAATGG
CTAAATATCCTTTTAAAAAATATTCAAAATAAGGCAATGTTTTGCG
Found at i:5066819 original size:9 final size:9
Alignment explanation
Indices: 5066800--5066849 Score: 93
Period size: 9 Copynumber: 5.7 Consensus size: 9
5066790 GACTCAAAAG
5066800 AAAAATC-A
1 AAAAATCAA
5066808 AAAAATCAA
1 AAAAATCAA
5066817 AAAAATCAA
1 AAAAATCAA
5066826 AAAAATCAA
1 AAAAATCAA
5066835 AAAAATCAA
1 AAAAATCAA
5066844 AAAAAT
1 AAAAAT
5066850 TATAAGAGAA
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
8 7 0.17
9 34 0.83
ACGTcount: A:0.78, C:0.10, G:0.00, T:0.12
Consensus pattern (9 bp):
AAAAATCAA
Found at i:5068091 original size:43 final size:44
Alignment explanation
Indices: 5068025--5068137 Score: 126
Period size: 43 Copynumber: 2.6 Consensus size: 44
5068015 AAAAAAGGCG
* *
5068025 GCTCAAA-TTTGGAACAAAATGGGGCA-CGAAGTGATCAGAGC-
1 GCTCAAATTTTGGATCAAATTGGGGCATCGAAGTGATCAGAGCA
* * **
5068066 GACTTAAATTTTGGATCAAATTGGGGCATGGTGGTGATCAGAGCA
1 G-CTCAAATTTTGGATCAAATTGGGGCATCGAAGTGATCAGAGCA
*
5068111 GCTCAAATTTT-GATCAGATTGGGGCAT
1 GCTCAAATTTTGGATCAAATTGGGGCAT
5068138 ATGATGATCT
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
41 1 0.02
42 5 0.08
43 32 0.53
44 21 0.35
45 1 0.02
ACGTcount: A:0.31, C:0.14, G:0.29, T:0.26
Consensus pattern (44 bp):
GCTCAAATTTTGGATCAAATTGGGGCATCGAAGTGATCAGAGCA
Found at i:5069348 original size:50 final size:50
Alignment explanation
Indices: 5069270--5070872 Score: 700
Period size: 50 Copynumber: 32.2 Consensus size: 50
5069260 ATTGCAATTC
* ** * *
5069270 AAAAGATTGAAGCCACAACGGTAAATCTCACCTCCCTGGCGATGCAGTGG
1 AAAAGATTGAAGCTACAACGGCGAATCTCACCTCCCTGACGATGCAGTTG
* * * ** * *
5069320 AACAGATTGAAGCTACGACGGCGAATCTCACTTCCCCAAC-ATTGCAATTT
1 AAAAGATTGAAGCTACAACGGCGAATCTCACCTCCCTGACGA-TGCAGTTG
* * **
5069370 AAAAGATTGAAGCTACAACAGCGAATCTCACCTTCCTGACGATGCAGCGG
1 AAAAGATTGAAGCTACAACGGCGAATCTCACCTCCCTGACGATGCAGTTG
* * * * * * *
5069420 AACAGATTGAAGTTACGACGGTGAATCTCACTTTCCC-GAC-ATTGCAATTT
1 AAAAGATTGAAGCTACAACGGCGAATCTCAC-CTCCCTGACGA-TGCAGTTG
* * * **
5069470 AAAATATTGAAGCTACAACAGCGAATCTCACCTCCCT-AGCGATGTAGCGG
1 AAAAGATTGAAGCTACAACGGCGAATCTCACCTCCCTGA-CGATGCAGTTG
* * * * * *
5069520 AACAA-ATCGAAGCTACGACGGCGAATCTCACTTCCCCGAC-ATTGCAATTT
1 AA-AAGATTGAAGCTACAACGGCGAATCTCACCTCCCTGACGA-TGCAGTTG
* * * **
5069570 AAAAGATTGAAGCTACAACAGCGAATCTCACCTCCCTGATGATGTAGCGG
1 AAAAGATTGAAGCTACAACGGCGAATCTCACCTCCCTGACGATGCAGTTG
* * * * * * *
5069620 AACAGATCGAAGCTACGACGGCAAATCTCACTTTCCC-GAC-ATTGCAATTT
1 AAAAGATTGAAGCTACAACGGCGAATCTCAC-CTCCCTGACGA-TGCAGTTG
* * * * **
5069670 AAAAGATTGAAGCTACAACAGCGAATCTCATCTCTCTGATGATGCAGCGG
1 AAAAGATTGAAGCTACAACGGCGAATCTCACCTCCCTGACGATGCAGTTG
* * * * * * * *
5069720 AACAGATCGAAGCTACGACAGTGAATCTCACTTCCCCGAC-ATTGCAGTTT
1 AAAAGATTGAAGCTACAACGGCGAATCTCACCTCCCTGACGA-TGCAGTTG
* * * * * * **
5069770 AAAAGATTGAAGCCACAATGGCGAATCTTA-CTTCCAGGCGATGCAGCGG
1 AAAAGATTGAAGCTACAACGGCGAATCTCACCTCCCTGACGATGCAGTTG
* * ** * * * *
5069819 AACAGATTGAAGCTACAACAGCGAATCT-TGCTTCCTCGAC-ATTACAATTC
1 AAAAGATTGAAGCTACAACGGCGAATCTCACCTCCCT-GACGA-TGCAGTTG
* * * ** * * * * **
5069869 AAAAGATCGAAGCCACAACGGCAAATCT-TGCTTCCAGACGGTGTAGCGG
1 AAAAGATTGAAGCTACAACGGCGAATCTCACCTCCCTGACGATGCAGTTG
* * * * * * * *
5069918 AACAGATTGAAGCTACGACGGCAAATCTCACTTCCCCGAC-ATTACAATTC
1 AAAAGATTGAAGCTACAACGGCGAATCTCACCTCCCTGACGA-TGCAGTTG
* * * * * *
5069968 AAAAGACTAAAGCTACAACAGCGAATCTCACCTCTCTGGCGATGCAG-CG
1 AAAAGATTGAAGCTACAACGGCGAATCTCACCTCCCTGACGATGCAGTTG
* * * * *
5070017 AAACAGATTGAAGCTACGACGGTGAATCTCACTATCCC-GAC-ATTGCAATTC
1 AAA-AGATTGAAGCTACAACGGCGAATCTCAC-CTCCCTGACGA-TGCAGTTG
* * **
5070068 AAAAGATTGAAGCTACAACAGCGAATCTCACCTCCCTAACGATGCAGCGG
1 AAAAGATTGAAGCTACAACGGCGAATCTCACCTCCCTGACGATGCAGTTG
* *** * * * * *
5070118 AACAGAACAAAGCTACGACGGCGAATCTCACTTCCCCGAC-ATTGTAGTTT
1 AAAAGATTGAAGCTACAACGGCGAATCTCACCTCCCTGACGA-TGCAGTTG
* * * * * * * * **
5070168 AAAAGATCGAAGCCACAACGGTGAGTCTTA-CTTCCAGGCGATGCAGCAG
1 AAAAGATTGAAGCTACAACGGCGAATCTCACCTCCCTGACGATGCAGTTG
* * ** * * * *
5070217 AATAGATTGAAGCTACAACTGCGAATCTTGCTTCCCCGAC-ATTGCAATTC
1 AAAAGATTGAAGCTACAACGGCGAATCTCACCTCCCTGACGA-TGCAGTTG
* * ** * * ** *
5070267 AAAAGATCGAAGCCACAACGGCGAATCT-TGCTTCCAGGTGATGCAG-CG
1 AAAAGATTGAAGCTACAACGGCGAATCTCACCTCCCTGACGATGCAGTTG
* * * * * *
5070315 AAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCCGAC-ATTGCAATTT
1 AAA-AGATTGAAGCTACAACGGCGAATCTCACCTCCCTGACGA-TGCAGTTG
* * **
5070366 AAAAGATTGAAGCTACAACAGTGAATCTCACCTCCCTGACGATGCAGCAG
1 AAAAGATTGAAGCTACAACGGCGAATCTCACCTCCCTGACGATGCAGTTG
* * * * * * ** *
5070416 AATAGATCGAAGCTACGACAGCGAATCTCACTTCCCCGACTTTGCAGTTT
1 AAAAGATTGAAGCTACAACGGCGAATCTCACCTCCCTGACGATGCAGTTG
* * ** * * **
5070466 AAAAGATCGAAGCCACAACGGCGAATCT-TGCTCCCAGGCGATGCAGCGG
1 AAAAGATTGAAGCTACAACGGCGAATCTCACCTCCCTGACGATGCAGTTG
* * * * * * * *
5070515 AACAGATTGAAGCTATAACAGCGAATCTTACTTCCCCGAC-ATTGCAATTC
1 AAAAGATTGAAGCTACAACGGCGAATCTCACCTCCCTGACGA-TGCAGTTG
* * ** *
5070565 AAAAGATTGAAG-TCACAACAGCAAATCTCATTTCCCT-AGCGATGCAG-CG
1 AAAAGATTGAAGCT-ACAACGGCGAATCTCACCTCCCTGA-CGATGCAGTTG
* * * * *
5070614 AAACAGATTGAAGCTACGACGGCGAATCTCACTTCCCCGAC-ATTGCAATTT
1 AAA-AGATTGAAGCTACAACGGCGAATCTCACCTCCCTGACGA-TGCAGTTG
* * * * ** * * *
5070665 AAAAGATCGAAGCCACAACGGTGAATCTTATTTCCCAGGC-AGTGCAATTG
1 AAAAGATTGAAGCTACAACGGCGAATCTCACCTCCCTGACGA-TGCAGTTG
* * * ** * * * *
5070715 AACAGATTGAAGCTACAACAGCGGATCT-TGCTTCCTCGA-TATTGCAATTT
1 AAAAGATTGAAGCTACAACGGCGAATCTCACCTCCCT-GACGA-TGCAGTTG
* * * * * * **
5070765 AAAAGATTGAAGCCACAACGGCGAATCTTACTTCTCAGACGATGTAGCGG
1 AAAAGATTGAAGCTACAACGGCGAATCTCACCTCCCTGACGATGCAGTTG
* * * * * *
5070815 AATAGATTGAAGCTACGATGGCGAATCTTACTTCCCCGAC-ATTGCAGTT-
1 AAAAGATTGAAGCTACAACGGCGAATCTCACCTCCCTGACGA-TGCAGTTG
5070864 AAACAGATT
1 AAA-AGATT
5070873 AAAGAAGCCA
Statistics
Matches: 1117, Mismatches: 379, Indels: 114
0.69 0.24 0.07
Matches are distributed among these distances:
48 3 0.00
49 204 0.18
50 875 0.78
51 35 0.03
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.22
Consensus pattern (50 bp):
AAAAGATTGAAGCTACAACGGCGAATCTCACCTCCCTGACGATGCAGTTG
Found at i:5069437 original size:100 final size:100
Alignment explanation
Indices: 5069260--5070860 Score: 1727
Period size: 100 Copynumber: 16.1 Consensus size: 100
5069250 AAAACCATAG
* * ** * * *
5069260 ATTGCAATTCAAAAGATTGAAGCCACAACGGTAAATCTCACCTCCCTGGCGATGCAGTGGAACAG
1 ATTGCAATTTAAAAGATTGAAGCCACAACAGCGAATCTCACCTTCCTGACGATGCAGCGGAACAG
*
5069325 ATTGAAGCTACGACGGCGAATCTCACTTCCCCAAC
66 ATTGAAGCTACGACGGCGAATCTCACTTCCCCGAC
*
5069360 ATTGCAATTTAAAAGATTGAAGCTACAACAGCGAATCTCACCTTCCTGACGATGCAGCGGAACAG
1 ATTGCAATTTAAAAGATTGAAGCCACAACAGCGAATCTCACCTTCCTGACGATGCAGCGGAACAG
* * *
5069425 ATTGAAGTTACGACGGTGAATCTCACTTTCCCGAC
66 ATTGAAGCTACGACGGCGAATCTCACTTCCCCGAC
* * * *
5069460 ATTGCAATTTAAAATATTGAAGCTACAACAGCGAATCTCACCTCCCT-AGCGATGTAGCGGAACA
1 ATTGCAATTTAAAAGATTGAAGCCACAACAGCGAATCTCACCTTCCTGA-CGATGCAGCGGAACA
* *
5069524 AATCGAAGCTACGACGGCGAATCTCACTTCCCCGAC
65 GATTGAAGCTACGACGGCGAATCTCACTTCCCCGAC
* * * *
5069560 ATTGCAATTTAAAAGATTGAAGCTACAACAGCGAATCTCACCTCCCTGATGATGTAGCGGAACAG
1 ATTGCAATTTAAAAGATTGAAGCCACAACAGCGAATCTCACCTTCCTGACGATGCAGCGGAACAG
* * *
5069625 ATCGAAGCTACGACGGCAAATCTCACTTTCCCGAC
66 ATTGAAGCTACGACGGCGAATCTCACTTCCCCGAC
* * *
5069660 ATTGCAATTTAAAAGATTGAAGCTACAACAGCGAATCTCATC-TCTCTGATGATGCAGCGGAACA
1 ATTGCAATTTAAAAGATTGAAGCCACAACAGCGAATCTCACCTTC-CTGACGATGCAGCGGAACA
* * *
5069724 GATCGAAGCTACGACAGTGAATCTCACTTCCCCGAC
65 GATTGAAGCTACGACGGCGAATCTCACTTCCCCGAC
* ** * * *
5069760 ATTGCAGTTTAAAAGATTGAAGCCACAATGGCGAATCTTA-CTTCCAGGCGATGCAGCGGAACAG
1 ATTGCAATTTAAAAGATTGAAGCCACAACAGCGAATCTCACCTTCCTGACGATGCAGCGGAACAG
* * ** *
5069824 ATTGAAGCTACAACAGCGAATCTTGCTTCCTCGAC
66 ATTGAAGCTACGACGGCGAATCTCACTTCCCCGAC
* * * * * ** * * *
5069859 ATTACAATTCAAAAGATCGAAGCCACAACGGCAAATCT-TGCTTCCAGACGGTGTAGCGGAACAG
1 ATTGCAATTTAAAAGATTGAAGCCACAACAGCGAATCTCACCTTCCTGACGATGCAGCGGAACAG
*
5069923 ATTGAAGCTACGACGGCAAATCTCACTTCCCCGAC
66 ATTGAAGCTACGACGGCGAATCTCACTTCCCCGAC
* * * * * * *
5069958 ATTACAATTCAAAAGACTAAAGCTACAACAGCGAATCTCACC-TCTCTGGCGATGCAGCGAAACA
1 ATTGCAATTTAAAAGATTGAAGCCACAACAGCGAATCTCACCTTC-CTGACGATGCAGCGGAACA
*
5070022 GATTGAAGCTACGACGGTGAATCTCACTAT-CCCGAC
65 GATTGAAGCTACGACGGCGAATCTCACT-TCCCCGAC
* * * *
5070058 ATTGCAATTCAAAAGATTGAAGCTACAACAGCGAATCTCACCTCCCTAACGATGCAGCGGAACAG
1 ATTGCAATTTAAAAGATTGAAGCCACAACAGCGAATCTCACCTTCCTGACGATGCAGCGGAACAG
***
5070123 AACAAAGCTACGACGGCGAATCTCACTTCCCCGAC
66 ATTGAAGCTACGACGGCGAATCTCACTTCCCCGAC
* * * * * * * * * * *
5070158 ATTGTAGTTTAAAAGATCGAAGCCACAACGGTGAGTCTTA-CTTCCAGGCGATGCAGCAGAATAG
1 ATTGCAATTTAAAAGATTGAAGCCACAACAGCGAATCTCACCTTCCTGACGATGCAGCGGAACAG
* * **
5070222 ATTGAAGCTACAACTGCGAATCTTGCTTCCCCGAC
66 ATTGAAGCTACGACGGCGAATCTCACTTCCCCGAC
* * * ** * ** *
5070257 ATTGCAATTCAAAAGATCGAAGCCACAACGGCGAATCT-TGCTTCCAGGTGATGCAGCGAAACAG
1 ATTGCAATTTAAAAGATTGAAGCCACAACAGCGAATCTCACCTTCCTGACGATGCAGCGGAACAG
* * *
5070321 ATTGAAGCTACAACAGCGAATCTTACTTCCCCGAC
66 ATTGAAGCTACGACGGCGAATCTCACTTCCCCGAC
* * * * *
5070356 ATTGCAATTTAAAAGATTGAAGCTACAACAGTGAATCTCACCTCCCTGACGATGCAGCAGAATAG
1 ATTGCAATTTAAAAGATTGAAGCCACAACAGCGAATCTCACCTTCCTGACGATGCAGCGGAACAG
* *
5070421 ATCGAAGCTACGACAGCGAATCTCACTTCCCCGAC
66 ATTGAAGCTACGACGGCGAATCTCACTTCCCCGAC
* * * * ** * * *
5070456 TTTGCAGTTTAAAAGATCGAAGCCACAACGGCGAATCT-TGCTCCCAGGCGATGCAGCGGAACAG
1 ATTGCAATTTAAAAGATTGAAGCCACAACAGCGAATCTCACCTTCCTGACGATGCAGCGGAACAG
** * *
5070520 ATTGAAGCTATAACAGCGAATCTTACTTCCCCGAC
66 ATTGAAGCTACGACGGCGAATCTCACTTCCCCGAC
* * * * *
5070555 ATTGCAATTCAAAAGATTGAAGTCACAACAGCAAATCTCA-TTTCCCT-AGCGATGCAGCGAAAC
1 ATTGCAATTTAAAAGATTGAAGCCACAACAGCGAATCTCACCTT-CCTGA-CGATGCAGCGGAAC
5070618 AGATTGAAGCTACGACGGCGAATCTCACTTCCCCGAC
64 AGATTGAAGCTACGACGGCGAATCTCACTTCCCCGAC
* * * * * * * ***
5070655 ATTGCAATTTAAAAGATCGAAGCCACAACGGTGAATCTTA-TTTCC-CAGGCAGTGCAATTGAAC
1 ATTGCAATTTAAAAGATTGAAGCCACAACAGCGAATCTCACCTTCCTGACG-A-TGCAGCGGAAC
* * * ** * *
5070718 AGATTGAAGCTACAACAGCGGATCTTGCTTCCTCGAT
64 AGATTGAAGCTACGACGGCGAATCTCACTTCCCCGAC
* * * * *
5070755 ATTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTA-CTTCTCAGACGATGTAGCGGAATA
1 ATTGCAATTTAAAAGATTGAAGCCACAACAGCGAATCTCACCTTC-CTGACGATGCAGCGGAACA
* *
5070819 GATTGAAGCTACGATGGCGAATCTTACTTCCCCGAC
65 GATTGAAGCTACGACGGCGAATCTCACTTCCCCGAC
5070855 ATTGCA
1 ATTGCA
5070861 GTTAAACAGA
Statistics
Matches: 1273, Mismatches: 208, Indels: 40
0.84 0.14 0.03
Matches are distributed among these distances:
98 1 0.00
99 418 0.33
100 847 0.67
101 5 0.00
102 2 0.00
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.22
Consensus pattern (100 bp):
ATTGCAATTTAAAAGATTGAAGCCACAACAGCGAATCTCACCTTCCTGACGATGCAGCGGAACAG
ATTGAAGCTACGACGGCGAATCTCACTTCCCCGAC
Found at i:5070057 original size:398 final size:398
Alignment explanation
Indices: 5069260--5070860 Score: 1918
Period size: 398 Copynumber: 4.0 Consensus size: 398
5069250 AAAACCATAG
* ** * *
5069260 ATTGCAATTCAAAAGATTGAAGCCACAACGGTAAATCTCACCTCCCTGGCGATGCAGTGGAACAG
1 ATTGCAATTCAAAAGATTGAAGCCACAACAGCGAATCTCACCTCCCTGACGATGCAGCGGAACAG
* * * *
5069325 ATTGAAGCTACGACGGCGAATCTCACTTCCCCAACATTGCAATTTAAAAGATTGAAGCTACAACA
66 ATCGAAGCTACGACAGCGAATCTCACTTCCCCGACATTGCAATTTAAAAGATTGAAGCCACAACA
* * * * * *
5069390 GCGAATCTCACCTTCCTGACGATGCAGCGGAACAGATTGAAGTTACGACGGTGAATCTCACTTTC
131 GCGAATCTCA-CTTCCAGGCGATGCAGCGGAACAGATTGAAGCTACAACGGCGAATCTCACTTCC
* * * * * ** * *
5069455 CCGACATTGCAATTTAAAATATTGAAGCTACAACAGCGAATCTCACCTCCCTA-GCGATGTAGCG
195 CCGACATTGCAATTCAAAAGATCGAAGCCACAACGGCGAATCT-TGCTTCC-AGGCGATGCAGCG
* * * *
5069519 GAACAAATCGAAGCTACGACGGCGAATCTCACTTCCCCGACATTGCAATTTAAAAGATTGAAGCT
258 GAACAGATTGAAGCTACAACAGCGAATCTCACTTCCCCGACATTGCAATTTAAAAGATTGAAGCT
* * * *
5069584 ACAACAGCGAATCTCACCTCCCTGATGATGTAGCGGAACAGATCGAAGCTACGACGGCAAATCTC
323 ACAACAGCGAATCTCACCTCCCTGACGATGCAGCGAAACAGATCGAAGCTACGACGGCGAATCTC
*
5069649 ACTTTCCCGAC
388 ACTTCCCCGAC
* * * * *
5069660 ATTGCAATTTAAAAGATTGAAGCTACAACAGCGAATCTCATCTCTCTGATGATGCAGCGGAACAG
1 ATTGCAATTCAAAAGATTGAAGCCACAACAGCGAATCTCACCTCCCTGACGATGCAGCGGAACAG
* * **
5069725 ATCGAAGCTACGACAGTGAATCTCACTTCCCCGACATTGCAGTTTAAAAGATTGAAGCCACAATG
66 ATCGAAGCTACGACAGCGAATCTCACTTCCCCGACATTGCAATTTAAAAGATTGAAGCCACAACA
* * ** *
5069790 GCGAATCTTACTTCCAGGCGATGCAGCGGAACAGATTGAAGCTACAACAGCGAATCTTGCTTCCT
131 GCGAATCTCACTTCCAGGCGATGCAGCGGAACAGATTGAAGCTACAACGGCGAATCTCACTTCCC
* * * * *
5069855 CGACATTACAATTCAAAAGATCGAAGCCACAACGGCAAATCTTGCTTCCAGACGGTGTAGCGGAA
196 CGACATTGCAATTCAAAAGATCGAAGCCACAACGGCGAATCTTGCTTCCAGGCGATGCAGCGGAA
* * * * * * *
5069920 CAGATTGAAGCTACGACGGCAAATCTCACTTCCCCGACATTACAATTCAAAAGACTAAAGCTACA
261 CAGATTGAAGCTACAACAGCGAATCTCACTTCCCCGACATTGCAATTTAAAAGATTGAAGCTACA
* * * *
5069985 ACAGCGAATCTCACCTCTCTGGCGATGCAGCGAAACAGATTGAAGCTACGACGGTGAATCTCACT
326 ACAGCGAATCTCACCTCCCTGACGATGCAGCGAAACAGATCGAAGCTACGACGGCGAATCTCACT
5070050 AT-CCCGAC
391 -TCCCCGAC
* *
5070058 ATTGCAATTCAAAAGATTGAAGCTACAACAGCGAATCTCACCTCCCTAACGATGCAGCGGAACAG
1 ATTGCAATTCAAAAGATTGAAGCCACAACAGCGAATCTCACCTCCCTGACGATGCAGCGGAACAG
* * * * * * *
5070123 AACAAAGCTACGACGGCGAATCTCACTTCCCCGACATTGTAGTTTAAAAGATCGAAGCCACAACG
66 ATCGAAGCTACGACAGCGAATCTCACTTCCCCGACATTGCAATTTAAAAGATTGAAGCCACAACA
* * * * * * **
5070188 GTGAGTCTTACTTCCAGGCGATGCAGCAGAATAGATTGAAGCTACAACTGCGAATCTTGCTTCCC
131 GCGAATCTCACTTCCAGGCGATGCAGCGGAACAGATTGAAGCTACAACGGCGAATCTCACTTCCC
* *
5070253 CGACATTGCAATTCAAAAGATCGAAGCCACAACGGCGAATCTTGCTTCCAGGTGATGCAGCGAAA
196 CGACATTGCAATTCAAAAGATCGAAGCCACAACGGCGAATCTTGCTTCCAGGCGATGCAGCGGAA
*
5070318 CAGATTGAAGCTACAACAGCGAATCTTACTTCCCCGACATTGCAATTTAAAAGATTGAAGCTACA
261 CAGATTGAAGCTACAACAGCGAATCTCACTTCCCCGACATTGCAATTTAAAAGATTGAAGCTACA
* * *
5070383 ACAGTGAATCTCACCTCCCTGACGATGCAGC-AGAATAGATCGAAGCTACGACAGCGAATCTCAC
326 ACAGCGAATCTCACCTCCCTGACGATGCAGCGA-AACAGATCGAAGCTACGACGGCGAATCTCAC
5070447 TTCCCCGAC
390 TTCCCCGAC
* * * * * ** * *
5070456 TTTGCAGTTTAAAAGATCGAAGCCACAACGGCGAATCT-TGCTCCCAGGCGATGCAGCGGAACAG
1 ATTGCAATTCAAAAGATTGAAGCCACAACAGCGAATCTCACCTCCCTGACGATGCAGCGGAACAG
* ** * * *
5070520 ATTGAAGCTATAACAGCGAATCTTACTTCCCCGACATTGCAATTCAAAAGATTGAAGTCACAACA
66 ATCGAAGCTACGACAGCGAATCTCACTTCCCCGACATTGCAATTTAAAAGATTGAAGCCACAACA
* * * *
5070585 GCAAATCTCATTTCCCTA-GCGATGCAGCGAAACAGATTGAAGCTACGACGGCGAATCTCACTTC
131 GCGAATCTCACTT-CC-AGGCGATGCAGCGGAACAGATTGAAGCTACAACGGCGAATCTCACTTC
* * ** **
5070649 CCCGACATTGCAATTTAAAAGATCGAAGCCACAACGGTGAATCTTATTTCCCAGGC-AGTGCAAT
194 CCCGACATTGCAATTCAAAAGATCGAAGCCACAACGGCGAATCTTGCTT-CCAGGCGA-TGCAGC
* * ** * *
5070713 TGAACAGATTGAAGCTACAACAGCGGATCTTGCTTCCTCGATATTGCAATTTAAAAGATTGAAGC
257 GGAACAGATTGAAGCTACAACAGCGAATCTCACTTCCCCGACATTGCAATTTAAAAGATTGAAGC
* * * * * * * * * * *
5070778 CACAACGGCGAATCTTACTTCTCAGACGATGTAGCGGAATAGATTGAAGCTACGATGGCGAATCT
322 TACAACAGCGAATCTCACCTCCCTGACGATGCAGCGAAACAGATCGAAGCTACGACGGCGAATCT
*
5070843 TACTTCCCCGAC
387 CACTTCCCCGAC
5070855 ATTGCA
1 ATTGCA
5070861 GTTAAACAGA
Statistics
Matches: 1033, Mismatches: 159, Indels: 19
0.85 0.13 0.02
Matches are distributed among these distances:
397 84 0.08
398 610 0.59
399 218 0.21
400 121 0.12
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.22
Consensus pattern (398 bp):
ATTGCAATTCAAAAGATTGAAGCCACAACAGCGAATCTCACCTCCCTGACGATGCAGCGGAACAG
ATCGAAGCTACGACAGCGAATCTCACTTCCCCGACATTGCAATTTAAAAGATTGAAGCCACAACA
GCGAATCTCACTTCCAGGCGATGCAGCGGAACAGATTGAAGCTACAACGGCGAATCTCACTTCCC
CGACATTGCAATTCAAAAGATCGAAGCCACAACGGCGAATCTTGCTTCCAGGCGATGCAGCGGAA
CAGATTGAAGCTACAACAGCGAATCTCACTTCCCCGACATTGCAATTTAAAAGATTGAAGCTACA
ACAGCGAATCTCACCTCCCTGACGATGCAGCGAAACAGATCGAAGCTACGACGGCGAATCTCACT
TCCCCGAC
Found at i:5071027 original size:85 final size:85
Alignment explanation
Indices: 5070880--5071044 Score: 194
Period size: 85 Copynumber: 1.9 Consensus size: 85
5070870 ATTAAAGAAG
** * *
5070880 CCAATCCTATCTCCCTGAAGTTACAGTGGAGTGGATTAAAACCACAGATCTTATCTCTCTGAAGT
1 CCAATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAAACACAGATCCTATCTCTCTGAAGT
*
5070945 TGCAGT-AGAGCAGATCGTAT
66 TACAGTGA-AGCAGATCGTAT
* * *
5070965 CCAATCTTATCTCCCTGAAGTTTCAGTGGAGCAGATTGAAGAAAC-CA-ATCCTAT-TTTCCTGA
1 CCAATCCTATCTCCCTGAAGTTACAGTGGAGCAGATT-AA-AAACACAGATCCTATCTCT-CTGA
5071027 AGTTACAGTGAAGCAGAT
63 AGTTACAGTGAAGCAGAT
5071045 TAAAATGATG
Statistics
Matches: 68, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
84 2 0.03
85 58 0.85
86 5 0.07
87 3 0.04
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.28
Consensus pattern (85 bp):
CCAATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAAACACAGATCCTATCTCTCTGAAGT
TACAGTGAAGCAGATCGTAT
Found at i:5071068 original size:129 final size:129
Alignment explanation
Indices: 5070856--5071210 Score: 451
Period size: 129 Copynumber: 2.8 Consensus size: 129
5070846 TTCCCCGACA
* * * *
5070856 TTGCAGTTAAACAGATTAAAGAAGCCAATCCTATCTCCCTGAAGTTACAGTGGAGTGGATTAAAA
1 TTGCAGTGAAGCAGATTGAAGAAGCCAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAA
** ** * *
5070921 CCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGTATCCAATCTTATCTCCCTGAAG
66 TGATGGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAATCTTATCTCCCTAAAG
* * * * * * *
5070985 TTTCAGTGGAGCAGATTGAAGAAACCAATCCTATTTTCCTGAAGTTACAGTGAAGCAGATTAAAA
1 TTGCAGTGAAGCAGATTGAAGAAGCCAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAA
* * *
5071050 TGATGGATCTTATCTCTCTGGAGTTGCAGTAGAGCATATCGCATCCAGTCTTATCTCCCTAAAG
66 TGATGGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAATCTTATCTCCCTAAAG
* ** * *
5071114 TTGCAGTGAAGTAGACAGAAGAAGCTAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAA
1 TTGCAGTGAAGCAGATTGAAGAAGCCAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAA
* *
5071179 TGATGAATCCTATAC-CTCTGAAGTTGCAGTAG
66 TGATGGATCTTAT-CTCTCTGAAGTTGCAGTAG
5071211 GTCGGATTAA
Statistics
Matches: 190, Mismatches: 35, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
129 189 0.99
130 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (129 bp):
TTGCAGTGAAGCAGATTGAAGAAGCCAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAA
TGATGGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAATCTTATCTCCCTAAAG
Found at i:5072995 original size:33 final size:30
Alignment explanation
Indices: 5072937--5072998 Score: 79
Period size: 33 Copynumber: 2.0 Consensus size: 30
5072927 ATAAATATAT
5072937 ATATGTACTTACATATTCTTCATATTTTAA
1 ATATGTACTTACATATTCTTCATATTTTAA
* *
5072967 ATATGTATCTTATATATGTTCTTTATATTTTA
1 ATATGTA-CTTACATA--TTCTTCATATTTTA
5072999 TGAATCATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
30 7 0.26
31 7 0.26
33 13 0.48
ACGTcount: A:0.31, C:0.10, G:0.05, T:0.55
Consensus pattern (30 bp):
ATATGTACTTACATATTCTTCATATTTTAA
Found at i:5073172 original size:23 final size:23
Alignment explanation
Indices: 5073146--5073190 Score: 56
Period size: 25 Copynumber: 1.9 Consensus size: 23
5073136 TAATTTTATG
5073146 TATA-TACATAAATATATTTTCCT
1 TATAGTACATAAATAT-TTTTCCT
*
5073169 TATATGTACATACATATTTTTC
1 TATA-GTACATAAATATTTTTC
5073191 ATATTTTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 4 0.21
24 5 0.26
25 10 0.53
ACGTcount: A:0.36, C:0.13, G:0.02, T:0.49
Consensus pattern (23 bp):
TATAGTACATAAATATTTTTCCT
Found at i:5073700 original size:111 final size:110
Alignment explanation
Indices: 5073436--5073952 Score: 747
Period size: 112 Copynumber: 4.7 Consensus size: 110
5073426 ATATTTAGTA
* *
5073436 TTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGTGTGTCGTTTTTTCTCGTTCAACCAAATGG
1 TTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAATGG
* * *
5073501 ATTAATATCCTTTT-AAAAATTTTAAAATAAGGCAATGTTTTACG
66 CTAAATATCCTTTTAAAAAATTTTAAAATAAGGCAATGTTTTGCG
*
5073545 TTTGAAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAATGG
1 TTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAATGG
* *
5073610 CTTAATATCCTTTTAAAAAATTTTAAAATAAGGCAATGTTTTGTG
66 CTAAATATCCTTTTAAAAAATTTTAAAATAAGGCAATGTTTTGCG
*
5073655 TTTGGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCATTCAACCAAATG
1 TTT-GGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAATG
5073720 GCTAAATATCCTTTTAAAAAATTTTCAAAATAAGGCAATGTTTTGCG
65 GCTAAATATCCTTTTAAAAAATTTT-AAAATAAGGCAATGTTTTGCG
* *
5073767 TTTGGGAAATTAGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCATTCAACCAAATG
1 TTT-GGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAATG
* *
5073832 GCTAAATATCCTTTTAAAAAAAATTTCAAAATAAGGCAATGTTTTGTG
65 GCTAAATATCCTTTT--AAAAAATTTTAAAATAAGGCAATGTTTTGCG
* * * * * * * *
5073880 TTTGGAAATTTGAG-GAACGTACCCTAAAGG-GTTGGGTTTCGA--TTTCTCGTTTAACCAAATA
1 TTTGGAAATTCGAGAAAACATGCCCT-AAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAATG
*
5073941 GCCAAATATCCT
65 GCTAAATATCCT
5073953 CTCGAATTTC
Statistics
Matches: 379, Mismatches: 23, Indels: 12
0.92 0.06 0.03
Matches are distributed among these distances:
109 102 0.27
110 31 0.08
111 101 0.27
112 113 0.30
113 23 0.06
114 9 0.02
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.34
Consensus pattern (110 bp):
TTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAATGG
CTAAATATCCTTTTAAAAAATTTTAAAATAAGGCAATGTTTTGCG
Found at i:5073849 original size:223 final size:220
Alignment explanation
Indices: 5073436--5073889 Score: 757
Period size: 223 Copynumber: 2.0 Consensus size: 220
5073426 ATATTTAGTA
* * *
5073436 TTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGTGTGTCGTTTTTTCTCGTTCAACCAAATGG
1 TTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCATTCAACCAAATGG
* *
5073501 ATTAATATCCTTTTAAAAATTTTAAAATAAGGCAATGTTTTACGTTTGAAAATTCGAGAAAACAT
66 ATAAATATCCTTTTAAAAATTTTAAAATAAGGCAATGTTTTACGTTTGAAAATTAGAGAAAACAT
* *
5073566 GCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTT-AAAAAA
131 GCCCTAAGGTGCTGGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAATATCCTTTTAAAAAAA
*
5073630 TTTTAAAATAAGGCAATGTTTTGTG
196 TTTCAAAATAAGGCAATGTTTTGTG
5073655 TTTGGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCATTCAACCAAATG
1 TTT-GGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCATTCAACCAAATG
* * *
5073720 GCTAAATATCCTTTTAAAAAATTTTCAAAATAAGGCAATGTTTTGCGTTTGGGAAATTAGAGAAA
65 GATAAATATCCTTTT-AAAAATTTT-AAAATAAGGCAATGTTTTACGTTT-GAAAATTAGAGAAA
5073785 ACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAATATCCTTTTAAA
127 ACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAATATCCTTTT-AA
5073850 AAAAATTTCAAAATAAGGCAATGTTTTGTG
191 AAAAATTTCAAAATAAGGCAATGTTTTGTG
5073880 TTTGGAAATT
1 TTTGGAAATT
5073890 TGAGGAACGT
Statistics
Matches: 218, Mismatches: 11, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
219 3 0.01
220 71 0.33
221 9 0.04
222 23 0.11
223 72 0.33
224 7 0.03
225 33 0.15
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (220 bp):
TTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCATTCAACCAAATGG
ATAAATATCCTTTTAAAAATTTTAAAATAAGGCAATGTTTTACGTTTGAAAATTAGAGAAAACAT
GCCCTAAGGTGCTGGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAATATCCTTTTAAAAAAA
TTTCAAAATAAGGCAATGTTTTGTG
Found at i:5073924 original size:223 final size:220
Alignment explanation
Indices: 5073439--5073952 Score: 750
Period size: 223 Copynumber: 2.3 Consensus size: 220
5073429 TTTAGTATTT
* * * * *
5073439 GGAAATTCGAGAAAACATGCCCTAAGGTGCTGTGTGTCGTTTTTTCTCGTTCAACCAAATGGATT
1 GGAAATTCGAGAAAACATACCCTAAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAATGGCTA
*
5073504 AATATCCTTTTAAAAATTTTAAAATAAGGCAATGTTTTACGTTTGAAAATTCGAGAAAACATGCC
66 AATATCCTTTTAAAAATTTTAAAATAAGGCAATGTTTTACGTTTGAAAATTAGAGAAAACATGCC
* * *
5073569 CTAAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAAAATTTT
131 CTAAGGTGCTGGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAATATCCTTTTAAAAAATTTC
5073634 AAAATAAGGCAATGTTTTGTGTTTG
196 AAAATAAGGCAATGTTTTGTGTTTG
* *
5073659 GGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCATTCAACCAAATGGCTA
1 GGAAATTCGAGAAAACATACCCTAAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAATGGCTA
* *
5073724 AATATCCTTTTAAAAAATTTTCAAAATAAGGCAATGTTTTGCGTTTGGGAAATTAGAGAAAACAT
66 AATATCCTTTT-AAAAATTTT-AAAATAAGGCAATGTTTTACGTTT-GAAAATTAGAGAAAACAT
5073789 GCCCTAAGGTGCTGGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAATATCCTTTTAAAAAAA
128 GCCCTAAGGTGCTGGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAATATCCTTTT--AAAAA
5073854 ATTTCAAAATAAGGCAATGTTTTGTGTTT-
191 ATTTCAAAATAAGGCAATGTTTTGTGTTTG
* * * * * * * *
5073883 GGAAATTTGAG-GAACGTACCCTAAAGG-GTTGGGTTTCGA--TTTCTCGTTTAACCAAATAGCC
1 GGAAATTCGAGAAAACATACCCT-AAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAATGGCT
5073944 AAATATCCT
65 AAATATCCT
5073953 CTCGAATTTC
Statistics
Matches: 267, Mismatches: 21, Indels: 11
0.89 0.07 0.04
Matches are distributed among these distances:
220 71 0.27
221 36 0.13
222 23 0.09
223 90 0.34
224 14 0.05
225 33 0.12
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.34
Consensus pattern (220 bp):
GGAAATTCGAGAAAACATACCCTAAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAATGGCTA
AATATCCTTTTAAAAATTTTAAAATAAGGCAATGTTTTACGTTTGAAAATTAGAGAAAACATGCC
CTAAGGTGCTGGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAATATCCTTTTAAAAAATTTC
AAAATAAGGCAATGTTTTGTGTTTG
Found at i:5075027 original size:19 final size:19
Alignment explanation
Indices: 5074990--5075028 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
5074980 TATTTTAAAA
***
5074990 TATTTTTAAAATTCTTTTT
1 TATTTTTAAAATAAATTTT
5075009 TATTTTTAAAATAAATTTT
1 TATTTTTAAAATAAATTTT
5075028 T
1 T
5075029 GGTGTTTATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (19 bp):
TATTTTTAAAATAAATTTT
Found at i:5077673 original size:23 final size:21
Alignment explanation
Indices: 5077646--5077690 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 21
5077636 CCAACTCAAT
*
5077646 TAAATACTTAAAAATAATATAAA
1 TAAATAATT-AAAAT-ATATAAA
5077669 TAAATAATTAAAATATATAAA
1 TAAATAATTAAAATATATAAA
5077690 T
1 T
5077691 TACTTTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 8 0.38
22 5 0.24
23 8 0.38
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (21 bp):
TAAATAATTAAAATATATAAA
Found at i:5079443 original size:16 final size:16
Alignment explanation
Indices: 5079422--5079452 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
5079412 CAAATTTTAT
*
5079422 TTGGATTTGGATTTTC
1 TTGGATTTGAATTTTC
5079438 TTGGATTTGAATTTT
1 TTGGATTTGAATTTT
5079453 TTAGAGCCCA
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:0.03, G:0.23, T:0.58
Consensus pattern (16 bp):
TTGGATTTGAATTTTC
Found at i:5082900 original size:46 final size:47
Alignment explanation
Indices: 5082817--5083028 Score: 192
Period size: 52 Copynumber: 4.3 Consensus size: 47
5082807 TTGCACATAG
* * *
5082817 TCACATATCACATACCGAGGCCATAGCCCAGCCATGGTCTTATACGG-A
1 TCACATATCAC--ACTGAAGCCATAGCCCAGCTATGGTCTTATACGGAA
* * * * *
5082865 TCACATATCACACTGATGCCATATCCCAGATATGGTCTTATACAGTA
1 TCACATATCACACTGAAGCCATAGCCCAGCTATGGTCTTATACGGAA
*
5082912 GCACATATCACATTTCTCCGAAGCCATAGCCCAGCTATGGTCTTATACGGAA
1 TCACATATCACA---CT--GAAGCCATAGCCCAGCTATGGTCTTATACGGAA
* *
5082964 GCACAAATCACATTTCTCCGAAGCCATAGCCCAGCTATGGTCTTATACGGAAA
1 TCACATATCACA---CT--GAAGCCATAGCCCAGCTATGGTCTTATACGG-AA
*
5083017 TCACATTTCACA
1 TCACATATCACA
5083029 TGCTGCCATG
Statistics
Matches: 141, Mismatches: 16, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
46 28 0.20
47 12 0.09
48 11 0.08
50 2 0.01
52 77 0.55
53 11 0.08
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.25
Consensus pattern (47 bp):
TCACATATCACACTGAAGCCATAGCCCAGCTATGGTCTTATACGGAA
Found at i:5082945 original size:52 final size:51
Alignment explanation
Indices: 5082831--5083012 Score: 230
Period size: 52 Copynumber: 3.6 Consensus size: 51
5082821 ATATCACATA
* * * *
5082831 CCGAGGCCATAGCCCAGCCATGGTCTTATACGGATCACATATCACA---CT
1 CCGAAGCCATAGCCCAGCTATGGTCTTATACGAAGCACATATCACATTTCT
* * * *
5082879 --GATGCCATATCCCAGATATGGTCTTATACAGTAGCACATATCACATTTCT
1 CCGAAGCCATAGCCCAGCTATGGTCTTATAC-GAAGCACATATCACATTTCT
*
5082929 CCGAAGCCATAGCCCAGCTATGGTCTTATACGGAAGCACAAATCACATTTCT
1 CCGAAGCCATAGCCCAGCTATGGTCTTATAC-GAAGCACATATCACATTTCT
5082981 CCGAAGCCATAGCCCAGCTATGGTCTTATACG
1 CCGAAGCCATAGCCCAGCTATGGTCTTATACG
5083013 GAAATCACAT
Statistics
Matches: 116, Mismatches: 12, Indels: 9
0.85 0.09 0.07
Matches are distributed among these distances:
46 25 0.22
47 13 0.11
50 2 0.02
51 1 0.01
52 75 0.65
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.25
Consensus pattern (51 bp):
CCGAAGCCATAGCCCAGCTATGGTCTTATACGAAGCACATATCACATTTCT
Found at i:5085557 original size:15 final size:15
Alignment explanation
Indices: 5085523--5085603 Score: 101
Period size: 15 Copynumber: 5.5 Consensus size: 15
5085513 GCAAAGATAA
*
5085523 AAAGAAAACC-GAAT
1 AAAGAAATCCAGAAT
*
5085537 AAAGAAATCCAAAAT
1 AAAGAAATCCAGAAT
* *
5085552 AGAGAAACCCAGAAT
1 AAAGAAATCCAGAAT
5085567 AAAGAAATCCAGAAT
1 AAAGAAATCCAGAAT
* *
5085582 AAAGAGATCCAGGAT
1 AAAGAAATCCAGAAT
5085597 AAAGAAA
1 AAAGAAA
5085604 CCCAAGATAC
Statistics
Matches: 56, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
14 9 0.16
15 47 0.84
ACGTcount: A:0.60, C:0.14, G:0.16, T:0.10
Consensus pattern (15 bp):
AAAGAAATCCAGAAT
Found at i:5085584 original size:45 final size:44
Alignment explanation
Indices: 5085523--5085607 Score: 116
Period size: 45 Copynumber: 1.9 Consensus size: 44
5085513 GCAAAGATAA
*
5085523 AAAGAAAACCGAATAAAGAAATCCAAAATAGAGAAACCCAGAAT
1 AAAGAAAACCGAATAAAGAAATCCAAAATAAAGAAACCCAGAAT
* * **
5085567 AAAGAAATCCAGAATAAAGAGATCCAGGATAAAGAAACCCA
1 AAAGAAAACC-GAATAAAGAAATCCAAAATAAAGAAACCCA
5085608 AGATACGATA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
44 9 0.26
45 26 0.74
ACGTcount: A:0.59, C:0.16, G:0.15, T:0.09
Consensus pattern (44 bp):
AAAGAAAACCGAATAAAGAAATCCAAAATAAAGAAACCCAGAAT
Found at i:5085612 original size:15 final size:15
Alignment explanation
Indices: 5085535--5085612 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
5085525 AGAAAACCGA
*
5085535 ATAAAGAAATCCAAA
1 ATAAAGAAATCCAAG
* *
5085550 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
5085564 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
5085579 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
5085595 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
5085610 ATA
1 ATA
5085613 CGATACTATG
Statistics
Matches: 51, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
14 3 0.06
15 45 0.88
16 3 0.06
ACGTcount: A:0.58, C:0.15, G:0.15, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:5088898 original size:46 final size:47
Alignment explanation
Indices: 5088815--5089026 Score: 192
Period size: 52 Copynumber: 4.3 Consensus size: 47
5088805 TTGCACATAG
* * *
5088815 TCACATATCACATACCGAGGCCATAGCCCAGCCATGGTCTTATACGG-A
1 TCACATATCAC--ACTGAAGCCATAGCCCAGCTATGGTCTTATACGGAA
* * * * *
5088863 TCACATATCACACTGATGCCATATCCCAGATATGGTCTTATACAGTA
1 TCACATATCACACTGAAGCCATAGCCCAGCTATGGTCTTATACGGAA
*
5088910 GCACATATCACATTTCTCCGAAGCCATAGCCCAGCTATGGTCTTATACGGAA
1 TCACATATCACA---CT--GAAGCCATAGCCCAGCTATGGTCTTATACGGAA
* *
5088962 GCACAAATCACATTTCTCCGAAGCCATAGCCCAGCTATGGTCTTATACGGAAA
1 TCACATATCACA---CT--GAAGCCATAGCCCAGCTATGGTCTTATACGG-AA
*
5089015 TCACATTTCACA
1 TCACATATCACA
5089027 TGCTGCCATG
Statistics
Matches: 141, Mismatches: 16, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
46 28 0.20
47 12 0.09
48 11 0.08
50 2 0.01
52 77 0.55
53 11 0.08
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.25
Consensus pattern (47 bp):
TCACATATCACACTGAAGCCATAGCCCAGCTATGGTCTTATACGGAA
Found at i:5088943 original size:52 final size:51
Alignment explanation
Indices: 5088829--5089010 Score: 230
Period size: 52 Copynumber: 3.6 Consensus size: 51
5088819 ATATCACATA
* * * *
5088829 CCGAGGCCATAGCCCAGCCATGGTCTTATACGGATCACATATCACA---CT
1 CCGAAGCCATAGCCCAGCTATGGTCTTATACGAAGCACATATCACATTTCT
* * * *
5088877 --GATGCCATATCCCAGATATGGTCTTATACAGTAGCACATATCACATTTCT
1 CCGAAGCCATAGCCCAGCTATGGTCTTATAC-GAAGCACATATCACATTTCT
*
5088927 CCGAAGCCATAGCCCAGCTATGGTCTTATACGGAAGCACAAATCACATTTCT
1 CCGAAGCCATAGCCCAGCTATGGTCTTATAC-GAAGCACATATCACATTTCT
5088979 CCGAAGCCATAGCCCAGCTATGGTCTTATACG
1 CCGAAGCCATAGCCCAGCTATGGTCTTATACG
5089011 GAAATCACAT
Statistics
Matches: 116, Mismatches: 12, Indels: 9
0.85 0.09 0.07
Matches are distributed among these distances:
46 25 0.22
47 13 0.11
50 2 0.02
51 1 0.01
52 75 0.65
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.25
Consensus pattern (51 bp):
CCGAAGCCATAGCCCAGCTATGGTCTTATACGAAGCACATATCACATTTCT
Found at i:5094702 original size:54 final size:51
Alignment explanation
Indices: 5094595--5094702 Score: 121
Period size: 54 Copynumber: 2.1 Consensus size: 51
5094585 AATTTAGAGA
** *
5094595 AAATTATTTAAAAATTAAAAAAATAAAAAAATTATTTAAGGTAATATATAT
1 AAATTATTTAAAAATTAAAAAAATAAAAAAATTATAAAAAGTAATATATAT
*
5094646 AAATTA-TTAAAATTTCAAAAATAATATAAAAAATATATAAAAAGTAA-ATATTAT
1 AAATTATTTAAAAATT-AAAAA-AATA-AAAAAAT-TATAAAAAGTAATATA-TAT
5094700 AAA
1 AAA
5094703 ACTATTGTTT
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
50 8 0.17
51 11 0.23
52 4 0.08
53 10 0.21
54 15 0.31
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (51 bp):
AAATTATTTAAAAATTAAAAAAATAAAAAAATTATAAAAAGTAATATATAT
Found at i:5095247 original size:30 final size:30
Alignment explanation
Indices: 5095211--5095270 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
5095201 CTGAAACAAG
* *
5095211 TTTTCAGTTTTTGTTCATTAATTTGTTGAA
1 TTTTCAGTTTTTGTTCATCAATTTGCTGAA
5095241 TTTTCAGTTTTTGTTCATCAATTTGCTGAA
1 TTTTCAGTTTTTGTTCATCAATTTGCTGAA
5095271 GAAGAGTGTC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.20, C:0.10, G:0.13, T:0.57
Consensus pattern (30 bp):
TTTTCAGTTTTTGTTCATCAATTTGCTGAA
Found at i:5104883 original size:22 final size:21
Alignment explanation
Indices: 5104858--5104899 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
5104848 TAACATGTTG
5104858 AATTTTAATTAATTTTATATTA
1 AATTTTAATTAATTTT-TATTA
*
5104880 AATTTTTATTAATTTTTATT
1 AATTTTAATTAATTTTTATT
5104900 TATTTTCAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (21 bp):
AATTTTAATTAATTTTTATTA
Found at i:5104889 original size:11 final size:10
Alignment explanation
Indices: 5104858--5104905 Score: 60
Period size: 10 Copynumber: 4.6 Consensus size: 10
5104848 TAACATGTTG
*
5104858 AATTTTAATT
1 AATTTTTATT
5104868 AATTTTATATT
1 AATTTT-TATT
5104879 AAATTTTTATT
1 -AATTTTTATT
5104890 AATTTTTATT
1 AATTTTTATT
*
5104900 TATTTT
1 AATTTT
5104906 CAACAGATTC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
10 21 0.62
11 7 0.21
12 6 0.18
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (10 bp):
AATTTTTATT
Found at i:5118916 original size:23 final size:23
Alignment explanation
Indices: 5118890--5118958 Score: 70
Period size: 23 Copynumber: 3.0 Consensus size: 23
5118880 GGACTCACCA
5118890 CAGCTTGTATGAGCTTACCGTTT
1 CAGCTTGTATGAGCTTACCGTTT
* * *
5118913 CAGC-TCTACAGAGCTTACTGTTT
1 CAGCTTGTA-TGAGCTTACCGTTT
*
5118936 CAGCTCG-ATAGAGCTTACCGTTT
1 CAGCTTGTAT-GAGCTTACCGTTT
5118959 ATCAACTCGG
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
22 3 0.08
23 33 0.92
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.35
Consensus pattern (23 bp):
CAGCTTGTATGAGCTTACCGTTT
Found at i:5125708 original size:23 final size:23
Alignment explanation
Indices: 5125682--5125796 Score: 83
Period size: 23 Copynumber: 4.9 Consensus size: 23
5125672 GGACCCACCA
5125682 CAGCTTGTATGAGCTTACCGTTT
1 CAGCTTGTATGAGCTTACCGTTT
* *
5125705 CAGC-TCTACAGAGCTTACCGTTT
1 CAGCTTGTA-TGAGCTTACCGTTT
* *
5125728 CAGC-TCTACAGAGCTTACCGTTT
1 CAGCTTGTA-TGAGCTTACCGTTT
* *
5125751 CAGCTCG-ATAGAGCTTACCTTTTAT
1 CAGCTTGTAT-GAGCTTACC-GTT-T
* *
5125776 CAGCTCGGAATGAGCTTACCG
1 CAGCT-TGTATGAGCTTACCG
5125797 ATCATGGCTC
Statistics
Matches: 77, Mismatches: 8, Indels: 12
0.79 0.08 0.12
Matches are distributed among these distances:
22 3 0.04
23 54 0.70
24 2 0.03
25 6 0.08
26 10 0.13
27 2 0.03
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (23 bp):
CAGCTTGTATGAGCTTACCGTTT
Found at i:5127113 original size:12 final size:12
Alignment explanation
Indices: 5127098--5127131 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
5127088 AAAAGATTAT
5127098 GAAAAAGAAAAC
1 GAAAAAGAAAAC
**
5127110 GAAAAAGAAATT
1 GAAAAAGAAAAC
5127122 GAAAAAGAAA
1 GAAAAAGAAA
5127132 GTGAGAGTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.74, C:0.03, G:0.18, T:0.06
Consensus pattern (12 bp):
GAAAAAGAAAAC
Found at i:5132499 original size:13 final size:13
Alignment explanation
Indices: 5132481--5132510 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
5132471 GATTAGCGGC
5132481 TTTGAGAGTTTTT
1 TTTGAGAGTTTTT
5132494 TTTGAGAGTTTTT
1 TTTGAGAGTTTTT
5132507 TTTG
1 TTTG
5132511 TTTTTTTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.13, C:0.00, G:0.23, T:0.63
Consensus pattern (13 bp):
TTTGAGAGTTTTT
Found at i:5132954 original size:19 final size:19
Alignment explanation
Indices: 5132932--5132971 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
5132922 ATAAATAATG
5132932 TAATTATTAT-TTTCATATA
1 TAATTATTATCTTTC-TATA
*
5132951 TAATTATTTTCTTTCTATA
1 TAATTATTATCTTTCTATA
5132970 TA
1 TA
5132972 TTTGTATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (19 bp):
TAATTATTATCTTTCTATA
Found at i:5134342 original size:18 final size:18
Alignment explanation
Indices: 5134320--5134361 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
5134310 ATACTTTACC
*
5134320 TTTTTTAAAATATATATAA
1 TTTTCTAAAA-ATATATAA
5134339 TTTTCTAAAAATATATAA
1 TTTTCTAAAAATATATAA
*
5134357 ATTTC
1 TTTTC
5134362 AGAATTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (18 bp):
TTTTCTAAAAATATATAA
Found at i:5138571 original size:125 final size:125
Alignment explanation
Indices: 5138343--5138614 Score: 415
Period size: 125 Copynumber: 2.2 Consensus size: 125
5138333 TTATTTCGAG
* * **
5138343 TTGACGTTTCTG-GTCAAATGGTATAAAATCGCTTCTACCAGGATGCTATTAGAGAAGAAATTGT
1 TTGACGTTTCTGAG-CAAATAGTATAAAATCACTGATACCAGGATGCTATTAGAGAAGAAATTGT
* *
5138407 GAAATCGTGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAAGAAATAAAT-TTTT
65 GAAATCGCGCCCTCGTGGACGCGATTTCGCTACAATTGGTCATGTAAGAAATAAATATTTT
*
5138467 TTGACGTTTTCTGAGCAACTAGTATAAAATCACTGATACCAGGATGCTA-TATGAGAAGAAATTG
1 TTGACG-TTTCTGAGCAAATAGTATAAAATCACTGATACCAGGATGCTATTA-GAGAAGAAATTG
* *
5138531 TGAAATCGCGCCCTCGTGGACGCGATTTCGCTACAATTGGTCATGTAGGAAATAATTATTTT
64 TGAAATCGCGCCCTCGTGGACGCGATTTCGCTACAATTGGTCATGTAAGAAATAAATATTTT
5138593 TTGACGTTTCTGAGCAAATAGT
1 TTGACGTTTCTGAGCAAATAGT
5138615 GTCAAATCGC
Statistics
Matches: 134, Mismatches: 10, Indels: 7
0.89 0.07 0.05
Matches are distributed among these distances:
124 8 0.06
125 115 0.86
126 11 0.08
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (125 bp):
TTGACGTTTCTGAGCAAATAGTATAAAATCACTGATACCAGGATGCTATTAGAGAAGAAATTGTG
AAATCGCGCCCTCGTGGACGCGATTTCGCTACAATTGGTCATGTAAGAAATAAATATTTT
Found at i:5141838 original size:23 final size:23
Alignment explanation
Indices: 5141819--5142231 Score: 263
Period size: 28 Copynumber: 15.6 Consensus size: 23
5141809 TTAAATTAGG
5141819 TTAGGTTAGGGTTTTTAATTAAAA
1 TTAGGTTAGGGTTTTTAATT-AAA
5141843 TGGGTTAGGGTTA-GGTTTTTAATTAAAA
1 ----TTA-GGTTAGGGTTTTTAATT-AAA
5141871 TGGGTTAGGGTTAGGGTTTTTAATTAAATTAA
1 ----TTA-GGTTAGGGTTTTTAATT--A--AA
5141903 GTTTAGGTTAGGGTTTTTAATTAAAA
1 --TTAGGTTAGGGTTTTTAATT-AAA
5141929 TGGGTTAGGGTTA-GGTTTTTAATTAATTTAAA
1 ----TTA-GGTTAGGGTTTTTAATT-----AAA
5141961 TTAGGTTAGGGTTTTTAATTAAA
1 TTAGGTTAGGGTTTTTAATTAAA
5141984 TTAGGTTAGGGTTTTTAATTAATTTAAA
1 TTAGGTTAGGG--TTT--TTAA-TTAAA
5142012 TTAGGTTAGGGTTTTTAATTAAAA
1 TTAGGTTAGGGTTTTTAATT-AAA
5142036 TGGGTTAGGGTTAGGGTTTTTAATTTAATTA
1 ----TTA-GGTTAGGGTTTTTAA-TTAA--A
5142067 GGTTAGGGTTTAGGGTTTTTAATTAAA
1 --TTA-GG-TTAGGGTTTTTAATTAAA
5142094 TTAGGTTAGGGTTTTTAATTAAATTAAA
1 TTAGGTTAGGG--TTT--TT-AATTAAA
5142122 TTAGGTTAGGGTTTTTAATTAAA
1 TTAGGTTAGGGTTTTTAATTAAA
* *
5142145 ATGGGTTAGGGGTTTTAATTAATTTAAA
1 TTAGGTTA-GGG-TTT--TTAA-TTAAA
5142173 TTAGGTTAGGGTTTTTAATTAAA
1 TTAGGTTAGGGTTTTTAATTAAA
5142196 TTAGGTTAGGGTTTTTAATTAAA
1 TTAGGTTAGGGTTTTTAATTAAA
**
5142219 TTAAATTAGGGTT
1 TTAGGTTAGGGTT
5142232 GGGTTTTTAA
Statistics
Matches: 338, Mismatches: 9, Indels: 81
0.79 0.02 0.19
Matches are distributed among these distances:
23 74 0.22
24 18 0.05
25 12 0.04
26 11 0.03
27 19 0.06
28 110 0.33
29 67 0.20
30 21 0.06
31 1 0.00
32 5 0.01
ACGTcount: A:0.30, C:0.00, G:0.24, T:0.46
Consensus pattern (23 bp):
TTAGGTTAGGGTTTTTAATTAAA
Found at i:5142004 original size:18 final size:21
Alignment explanation
Indices: 5141956--5141998 Score: 68
Period size: 23 Copynumber: 2.0 Consensus size: 21
5141946 TTTAATTAAT
5141956 TTAAATTAGGTTAGGGTTTTTAA
1 TTAAATTAGGTTAGGG-TTTT-A
5141979 TTAAATTAGGTTAGGGTTTT
1 TTAAATTAGGTTAGGGTTTT
5141999 TAATTAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.28, C:0.00, G:0.23, T:0.49
Consensus pattern (21 bp):
TTAAATTAGGTTAGGGTTTTA
Found at i:5142215 original size:18 final size:21
Alignment explanation
Indices: 5142116--5142231 Score: 79
Period size: 23 Copynumber: 4.9 Consensus size: 21
5142106 TTTTAATTAA
5142116 ATTAAATTAGGTTAGGGTTTTT
1 ATTAAATTAGGTTAGGG-TTTT
* *
5142138 AATTAAAATGGGTTAGGGGTTTTAATT
1 -ATTAAATTAGGTTA-GGG--TT--TT
5142165 AATTTAAATTAGGTTAGGGTTTTT
1 -A-TTAAATTAGGTTAGGG-TTTT
5142189 AATTAAATTAGGTTAGGGTTTTT
1 -ATTAAATTAGGTTAGGG-TTTT
**
5142212 AATTAAATTAAATTAGGGTT
1 -ATTAAATTAGGTTAGGGTT
5142232 GGGTTTTTAA
Statistics
Matches: 82, Mismatches: 6, Indels: 11
0.83 0.06 0.11
Matches are distributed among these distances:
22 2 0.02
23 49 0.60
24 7 0.09
25 3 0.04
26 3 0.04
27 7 0.09
28 11 0.13
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.46
Consensus pattern (21 bp):
ATTAAATTAGGTTAGGGTTTT
Found at i:5142249 original size:28 final size:29
Alignment explanation
Indices: 5141643--5142241 Score: 627
Period size: 29 Copynumber: 21.5 Consensus size: 29
5141633 TTTTGTTAAT
5141643 GGTTAGGGTTTTTAATTAAATTAAATTAG
1 GGTTAGGGTTTTTAATTAAATTAAATTAG
5141672 GGTTAGGGTTTTTAATTAAATTAAATTAG
1 GGTTAGGGTTTTTAATTAAATTAAATTAG
5141701 GGTTAGGGTTTTTAATTAAATTAAATTAG
1 GGTTAGGGTTTTTAATTAAATTAAATTAG
5141730 GGTTAGGGTTTTTAATTAAATTAAATTAG
1 GGTTAGGGTTTTTAATTAAATTAAATTAG
**
5141759 GGTTAGGGTTTTTAATTAAAATGGGTTAGGGTTAG
1 GGTTAGGGTTTTTAATT-AAA----TTA-AATTAG
**
5141794 GGTTTAGGG-TTTTAATTAAATTAGGTTA-
1 GG-TTAGGGTTTTTAATTAAATTAAATTAG
* ***
5141822 GGTTAGGGTTTTTAATTAAAATGGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAAATTAG
* ***
5141851 GGTTA-GGTTTTTAATTAAAATGGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAAATTAG
*
5141879 GGTTAGGGTTTTTAATTAAATTAAGTTTA-
1 GGTTAGGGTTTTTAATTAAATTAA-ATTAG
* ***
5141908 GGTTAGGGTTTTTAATTAAAATGGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAAATTAG
*
5141937 GGTTA-GGTTTTTAATTAATTTAAATTA-
1 GGTTAGGGTTTTTAATTAAATTAAATTAG
5141964 GGTTAGGG--TTT--TT-AATTAAATTA-
1 GGTTAGGGTTTTTAATTAAATTAAATTAG
*
5141987 GGTTAGGGTTTTTAATTAATTTAAATTA-
1 GGTTAGGGTTTTTAATTAAATTAAATTAG
* ***
5142015 GGTTAGGGTTTTTAATTAAAATGGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAAATTAG
* **
5142044 GGTTAGGGTTTTTAATTTAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAAATTAG
5142073 GGTTTAGGG--TTT--TT-AATTAAATTA-
1 GG-TTAGGGTTTTTAATTAAATTAAATTAG
5142097 GGTTAGGGTTTTTAATTAAATTAAATTA-
1 GGTTAGGGTTTTTAATTAAATTAAATTAG
5142125 GGTTAGGGTTTTTAATT--A--AAA-T-G
1 GGTTAGGGTTTTTAATTAAATTAAATTAG
* *
5142148 GGTTAGGGGTTTTAATTAATTTAAATTA-
1 GGTTAGGGTTTTTAATTAAATTAAATTAG
5142176 GGTTAGGG--TTT--TT-AATTAAATTA-
1 GGTTAGGGTTTTTAATTAAATTAAATTAG
5142199 GGTTAGGGTTTTTAATTAAATTAAATTAG
1 GGTTAGGGTTTTTAATTAAATTAAATTAG
5142228 GGTT-GGGTTTTTAA
1 GGTTAGGGTTTTTAA
5142242 ACAAATTATA
Statistics
Matches: 500, Mismatches: 32, Indels: 77
0.82 0.05 0.13
Matches are distributed among these distances:
23 57 0.11
24 9 0.02
25 17 0.03
26 9 0.02
27 20 0.04
28 160 0.32
29 187 0.37
30 15 0.03
34 6 0.01
35 14 0.03
36 6 0.01
ACGTcount: A:0.30, C:0.00, G:0.24, T:0.46
Consensus pattern (29 bp):
GGTTAGGGTTTTTAATTAAATTAAATTAG
Found at i:5142559 original size:24 final size:24
Alignment explanation
Indices: 5142527--5142582 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
5142517 TGTATGTGGA
5142527 GGTGTTTGCATCATGAACGGCAAC
1 GGTGTTTGCATCATGAACGGCAAC
*
5142551 GGTGTTTGCATCATGAACGGCGAC
1 GGTGTTTGCATCATGAACGGCAAC
*
5142575 GGAGTTTG
1 GGTGTTTG
5142583 AAAGCCATGC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.21, C:0.18, G:0.34, T:0.27
Consensus pattern (24 bp):
GGTGTTTGCATCATGAACGGCAAC
Found at i:5144587 original size:29 final size:29
Alignment explanation
Indices: 5144548--5144603 Score: 87
Period size: 29 Copynumber: 1.9 Consensus size: 29
5144538 TTGAAAATAT
5144548 TAAAAATTTTAAAATTAT-TTTAAAAAAA
1 TAAAAATTTTAAAATTATCTTTAAAAAAA
*
5144576 TAAAAATATTTAAAATTTTCTTTAAAAA
1 TAAAAAT-TTTAAAATTATCTTTAAAAA
5144604 TGAAATTGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 7 0.28
29 10 0.40
30 8 0.32
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (29 bp):
TAAAAATTTTAAAATTATCTTTAAAAAAA
Found at i:5144695 original size:11 final size:11
Alignment explanation
Indices: 5144660--5144717 Score: 50
Period size: 11 Copynumber: 5.3 Consensus size: 11
5144650 TTGAAGGAAA
5144660 TTGAGAGAATT
1 TTGAGAGAATT
*
5144671 TTGAAAAGAA-T
1 TTG-AGAGAATT
5144682 TTGAGAGAATT
1 TTGAGAGAATT
*
5144693 TTG-GAAGGAA-A
1 TTGAG-A-GAATT
5144704 TTGAGAGAATT
1 TTGAGAGAATT
5144715 TTG
1 TTG
5144718 GTTTGTGAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 12
0.70 0.08 0.23
Matches are distributed among these distances:
10 9 0.24
11 19 0.51
12 9 0.24
ACGTcount: A:0.40, C:0.00, G:0.28, T:0.33
Consensus pattern (11 bp):
TTGAGAGAATT
Found at i:5144727 original size:24 final size:22
Alignment explanation
Indices: 5144638--5144718 Score: 117
Period size: 22 Copynumber: 3.7 Consensus size: 22
5144628 TAATATGGAT
* *
5144638 TTGAGAGATTTTTTGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
* * *
5144660 TTGAGAGAATTTTGAAAAGAAT
1 TTGAGAGAATTTTGGAAGGAAA
5144682 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
5144704 TTGAGAGAATTTTGG
1 TTGAGAGAATTTTGG
5144719 TTTGTGAAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 51 1.00
ACGTcount: A:0.38, C:0.00, G:0.28, T:0.33
Consensus pattern (22 bp):
TTGAGAGAATTTTGGAAGGAAA
Found at i:5147987 original size:13 final size:13
Alignment explanation
Indices: 5147969--5147994 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
5147959 TCACCTTAGG
5147969 CTTGCTTCTGAAC
1 CTTGCTTCTGAAC
5147982 CTTGCTTCTGAAC
1 CTTGCTTCTGAAC
5147995 TAGCCTAAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.31, G:0.15, T:0.38
Consensus pattern (13 bp):
CTTGCTTCTGAAC
Found at i:5149402 original size:9 final size:9
Alignment explanation
Indices: 5149388--5149415 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
5149378 TTTGTATTAA
5149388 TATTGTTAT
1 TATTGTTAT
5149397 TATTGTTAT
1 TATTGTTAT
5149406 TATTGTTAT
1 TATTGTTAT
5149415 T
1 T
5149416 TTATTCATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.21, C:0.00, G:0.11, T:0.68
Consensus pattern (9 bp):
TATTGTTAT
Found at i:5149854 original size:12 final size:12
Alignment explanation
Indices: 5149837--5149879 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
5149827 TTTTACAATT
5149837 TATATATATACA
1 TATATATATACA
*
5149849 TATATATGTCTACA
1 TATATA--TATACA
*
5149863 TATATATATCCA
1 TATATATATACA
5149875 TATAT
1 TATAT
5149880 TTTTATAGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
12 15 0.58
14 11 0.42
ACGTcount: A:0.42, C:0.12, G:0.02, T:0.44
Consensus pattern (12 bp):
TATATATATACA
Found at i:5149854 original size:14 final size:14
Alignment explanation
Indices: 5149837--5149871 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
5149827 TTTTACAATT
5149837 TATATATATACATA
1 TATATATATACATA
* *
5149851 TATATGTCTACATA
1 TATATATATACATA
5149865 TATATAT
1 TATATAT
5149872 CCATATATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.43, C:0.09, G:0.03, T:0.46
Consensus pattern (14 bp):
TATATATATACATA
Found at i:5152268 original size:23 final size:23
Alignment explanation
Indices: 5152224--5152269 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
5152214 GGGATTAGTA
* * *
5152224 AATTTACAATTTGATTATTCAAT
1 AATTTACAATTTAATCACTCAAT
*
5152247 AATTTATAATTTAATCACTCAAT
1 AATTTACAATTTAATCACTCAAT
5152270 TATTAGTAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.41, C:0.11, G:0.02, T:0.46
Consensus pattern (23 bp):
AATTTACAATTTAATCACTCAAT
Found at i:5152273 original size:31 final size:31
Alignment explanation
Indices: 5152237--5152297 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
5152227 TTACAATTTG
*
5152237 ATTATTCAAT-AATTTATAATTTAATCACTCA
1 ATTATT-AATAAATTTATAACTTAATCACTCA
* *
5152268 ATTATTAGTAAATTTATAACTTGATCACTC
1 ATTATTAATAAATTTATAACTTAATCACTC
5152298 CCATGTTTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 2 0.08
31 24 0.92
ACGTcount: A:0.39, C:0.13, G:0.03, T:0.44
Consensus pattern (31 bp):
ATTATTAATAAATTTATAACTTAATCACTCA
Found at i:5152387 original size:15 final size:15
Alignment explanation
Indices: 5152366--5152396 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
5152356 GAAATCTTAG
5152366 ATTTTTTTT-CTTTA
1 ATTTTTTTTGCTTTA
5152380 ATTTTTTTTGCTTTA
1 ATTTTTTTTGCTTTA
5152395 AT
1 AT
5152397 CCAACTAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.56
15 7 0.44
ACGTcount: A:0.16, C:0.06, G:0.03, T:0.74
Consensus pattern (15 bp):
ATTTTTTTTGCTTTA
Found at i:5159032 original size:16 final size:16
Alignment explanation
Indices: 5159011--5159045 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
5159001 AAATTACGAC
5159011 ATTATATATTTATATT
1 ATTATATATTTATATT
5159027 ATTATATATTTATATT
1 ATTATATATTTATATT
5159043 ATT
1 ATT
5159046 GTATTGTGGG
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:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
ATTATATATTTATATT
Found at i:5164531 original size:18 final size:20
Alignment explanation
Indices: 5164508--5164550 Score: 63
Period size: 18 Copynumber: 2.2 Consensus size: 20
5164498 TTATTATTAT
5164508 TTTTTTGAAT-TT-TTAAAA
1 TTTTTTGAATGTTCTTAAAA
*
5164526 TTTTTTGAATGTTCTTATAA
1 TTTTTTGAATGTTCTTAAAA
5164546 TTTTT
1 TTTTT
5164551 ACATTATTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 10 0.45
19 2 0.09
20 10 0.45
ACGTcount: A:0.26, C:0.02, G:0.07, T:0.65
Consensus pattern (20 bp):
TTTTTTGAATGTTCTTAAAA
Found at i:5166530 original size:296 final size:297
Alignment explanation
Indices: 5165831--5166688 Score: 885
Period size: 300 Copynumber: 2.9 Consensus size: 297
5165821 ATTACACATT
* * *
5165831 TTATCTATACTATTATTTAAA-CCTCTGACTGAGTTGTTGGTGTCATAAGCCAACCAGG-CACCA
1 TTATCTATATTATTATTTAAACCCT-TGACTGA---GTTGGTGTCATGAGTCAACC-GGACACCA
* * * * *
5165894 ACTCGATTAGAAAAATTACTAAAATATCCTTTCATATTTAAAATAAGTTATGTTATTTGAAGATA
61 ACTTGATTAGAGAAATTACTAAAATATCCTTTCATATTTAAAATAAGTTATATTA-TTAAAGGTA
** * *
5165959 CTTTGGTTTTTTATTATTGAAAAACAATAAAAAATATACATATGAT-AGGATTTGAATTCATGCC
125 CTTTAATTTTTTATT-TTAAAAAACAATAAAAAATATACATATTATGA-GATTTGAATTCATGCC
* * * * * *
5166023 AATTACATTAGAAAAATCTTAAATTTACCACTCAATCAAAGCTTTGTTTTGATATTATTATACAT
188 AATTGCATTAGAAAAATCTTAAATTTACCATTCAACCAAAGCTTTATTTTGATATTTTTAAACAT
** * * * *
5166088 TACAATTTTATTATACACACTTTTATTACCTTCATCAATTGTATA
253 TTTAATTTTACTATACACACTTTTATTACCATCATCAAATCTATA
* * * * * * *
5166133 TTTATTTATATTATTATTTAAACCCTTGACTGAATTGGTATTATGAGTCAACC-AAGCACTAATT
1 -TTATCTATATTATTATTTAAACCCTTGACTGAGTTGGTGTCATGAGTCAACCGGA-CACCAACT
* * *
5166197 TGATTAG-GTAGATTACTAAAATATCCTCTCGTATTTAAAATAAGTTATATTATTAAACGGTACT
64 TGATTAGAG-AAATTACTAAAATATCCTTTCATATTTAAAATAAGTTATATTATTAAA-GGTACT
* * * * *
5166261 TTAATCTTTTTATTTTTAAAAACAAT-AAAAATATGCATATTATGATATTTAAATCCATGCCAAT
127 TTAAT-TTTTTATTTTAAAAAACAATAAAAAATATACATATTATGAGATTTGAATTCATGCCAAT
* *
5166325 TGTATTAG-AAAATCTTAAAGTTACCATTCAACCACAA-CTTTATTTTGATAACTTTTTAAACAT
191 TGCATTAGAAAAATCTTAAATTTACCATTCAACCA-AAGCTTTATTTTGAT-A-TTTTTAAACAT
*
5166388 TTTAATTTTACTATTCACAC-TTTATTA-CATCATCAAATCTATA
253 TTTAATTTTACTATACACACTTTTATTACCATCATCAAATCTATA
** ** *
5166431 -TATCTATATTATTATTTAAATTCTTGGGTGAGTTGGTGTCACGAGTCAACCGGACACCAACTTG
1 TTATCTATATTATTATTTAAACCCTTGACTGAGTTGGTGTCATGAGTCAACCGGACACCAACTTG
* * * ** *
5166495 ATTAGAGAAATTACTAAAATATCATTTCATATTTAAAATAAATTATATTCTTTGAGGCTATTTTA
66 ATTAGAGAAATTACTAAAATATCCTTTCATATTTAAAATAAGTTATATTATTAAAGG-TACTTTA
* * * * *
5166560 ATATTTTAATTTAAAATAATAATAAAAAATATACAT-TTGATGAGATATGAATTCATACCAATTG
130 ATTTTTTATTTTAAAA-AACAATAAAAAATATACATATT-ATGAGATTTGAATTCATGCCAATTG
* * * * *
5166624 CATTAGAAAAACCTTAAATTTATCGTTCAACCAAAGCTTTATTTTAATATTTTTTACACATTTTA
193 CATTAGAAAAATCTTAAATTTACCATTCAACCAAAGCTTTATTTTGATA-TTTTTAAACATTTTA
5166689 TATATATTAT
Statistics
Matches: 457, Mismatches: 80, Indels: 42
0.79 0.14 0.07
Matches are distributed among these distances:
295 13 0.03
296 110 0.24
297 55 0.12
298 80 0.18
299 51 0.11
300 111 0.24
301 8 0.02
303 26 0.06
304 3 0.01
ACGTcount: A:0.38, C:0.13, G:0.09, T:0.40
Consensus pattern (297 bp):
TTATCTATATTATTATTTAAACCCTTGACTGAGTTGGTGTCATGAGTCAACCGGACACCAACTTG
ATTAGAGAAATTACTAAAATATCCTTTCATATTTAAAATAAGTTATATTATTAAAGGTACTTTAA
TTTTTTATTTTAAAAAACAATAAAAAATATACATATTATGAGATTTGAATTCATGCCAATTGCAT
TAGAAAAATCTTAAATTTACCATTCAACCAAAGCTTTATTTTGATATTTTTAAACATTTTAATTT
TACTATACACACTTTTATTACCATCATCAAATCTATA
Found at i:5167371 original size:841 final size:834
Alignment explanation
Indices: 5165527--5167387 Score: 1977
Period size: 840 Copynumber: 2.2 Consensus size: 834
5165517 TAAAGTTTTA
* * *
5165527 TTTTAATATATTTTAATTCTATTATGCACACTTTATTACATCTATCAAATGTATATATCTATATT
1 TTTTTATACATTTTAATTTTATT-TGCACACTTTATTACATC-ATCAAATGTATATATCTATATT
* * *
5165592 ATTATTTAAATCTCTGACCGAGTTGGTGTCAAAAGTC-AACGAAGCACCAACTCGGTTAGAAAAA
64 ATTATTTAAATCT-TGACTGAGTTGGTGTCAAGAGTCAAACG-AGCACCAACTTGGTTAGAAAAA
* * * *
5165656 TTACTAAAATGTCCTTTTATGTTTAAAATAAGTTA-AGTTATTCAAGGATACTTTAGTTTTTTAT
127 TTACTAAAATGTCCTTTCATATTTAAAATAAGTTATA-TTATTCAAGGATACTTTAATTTTTAAT
* * * * *
5165720 TTAAAAAGAATAAAAATATACACAAGATATTTGAATTCATGCCAATTGCACTAGGAAAGCCTTAA
191 TTAAAAAGAATAAAAATATACACAAGAGATATGAATTCATACCAATTGCACTAGAAAAACCTTAA
* *
5165785 ATTTATCACTTAACCAAAGTTTTACTTTAATATTTTATTACACATTTTATCTATACTATTATTTA
256 ATTTATCACTTAACCAAAGCTTTACTTTAATATTTTATTACACATTTTATATATACTATTATTTA
* *
5165850 AACCTCTGACTGAGTTGTTGGTGTCATAAGCCAACCAGGCACCAACTCGATTAGAAAAATTACTA
321 AACCTCTAACTGAG-TGTTGGTGTCATAAGCCAACCAGGCACCAACTAGATTAGAAAAATTACTA
* ** * *
5165915 AAATATCCTTTCATATTTAAAATAAGTTATGTTATTTGAAGATACTTTGGTTTTTTATTATTGAA
385 AAATATCCTTTCACATTTAAAATAAGTTACATTATTTGAAG------TGGTATTTTAATATTGAA
* * ** * *
5165980 AAACAATAAAAAATATACATATGATAGGATTTGAATTCATGCCAATTACATTAGAAAAATCTTAA
444 AAACAAT----AATATACATAGGATAGGATTTGAATCCATGCCAACCACATTAAAAAAACCTTAA
* *
5166045 ATTTACCACTCAATCAAAGCTTTGTTTTGATATTATTATACATTACAATTTTATTATACACACTT
505 ATTTACCACTCAACCAAAGCTTTATTTTGATATTATTATACATTACAATTTTATTATACACAC--
** * * * * * *
5166110 TTATTACCTTCATCAATTGTATATTTATTTATATTATTATTTAAACCCTTGACTGAATTGGTATT
568 TTATTACCCCCATCAACTGTATATCTATTTATACTATTATTTAAACCCCTAACTGAATTGGTATC
** * * * * * * *
5166175 ATGAGTCAACCAAGCACTAATTTGATTAGGTAGATTACTAAAATATCCTCTCGTATTTAAAATAA
633 ACAAGTCAACCAAGCACCAACTCGATTAAGTAAATTACTAAAATATCCTCTCGAATTTAAAACAA
* * * * *
5166240 GTTATATTATTAAACGGTACTTTAATCTTTTTATTTTTAAAAACAATAAAAATATGCATATTATG
698 GTTATATTATTAAACGGTAATTTAATCTTTTTATATTAAAAAACAATAAAAAAATGCATATGATG
* *
5166305 ATATTTAAATCCATGCCAATTGTATTAGAAAATCTTAAAGTTACCATTCAACCACAACTTTATTT
763 ATATTTAAATCCATGCCAATTGCATTAGAAAATCTTAAAGTTAACATTCAACCACAACTTTATTT
5166370 TGATAAC
828 TGATAAC
* *
5166377 TTTTTAAACATTTTAATTTTACTATT-CACACTTTATTACATCATCAAATCTATATATCTATATT
1 TTTTTATACATTTTAATTTTA-T-TTGCACACTTTATTACATCATCAAATGTATATATCTATATT
** * * * *
5166441 ATTATTTAAATTCTTGGGTGAGTTGGTGTCACGAGTCAACCG-GACACCAACTTGATTAGAGAAA
64 ATTATTTAAA-TCTTGACTGAGTTGGTGTCAAGAGTCAAACGAG-CACCAACTTGGTTAGAAAAA
* * * * ** * *
5166505 TTACTAAAATATCATTTCATATTTAAAATAAATTATATTCTTTGAGGCTATTTTAATATTTTAAT
127 TTACTAAAATGTCCTTTCATATTTAAAATAAGTTATATTATTCAAGGATACTTTAAT-TTTTAAT
* * * *
5166570 TTAAAATAATAATAAAAAATATACATTTGATGAGATATGAATTCATACCAATTGCATTAGAAAAA
191 TT-AAA-AAGAAT-AAAAATATACA---CAAGAGATATGAATTCATACCAATTGCACTAGAAAAA
* * *
5166635 CCTTAAATTTATC-GTTCAACCAAAGCTTTATTTTAATATTTT-TTACACATTTTATATATATTA
250 CCTTAAATTTATCACTT-AACCAAAGCTTTACTTTAATATTTTATTACACATTTTATATATACTA
* * * * *
5166698 TTATTTAAACC-CATAACTGA-T-TTGGTGTGATAAGTCAACCTA-GCACCAATTAGGTTAGCAA
314 TTATTTAAACCTC-TAACTGAGTGTTGGTGTCATAAGCCAACC-AGGCACCAACTAGATTAGAAA
* * * * *
5166759 AATTACTAAAGTGTCTTTTCGCATTTAAAATAAGTTACATTATTTG-AG-GGTATTTTAATATTT
377 AATTACTAAAATATCCTTTCACATTTAAAATAAGTTACATTATTTGAAGTGGTATTTTAATATTG
* * * * *
5166822 ATAAAA-GAT-ATGTGCATAGGAT-GAGATTTGAATCCATGCTAACCGCATTAAAAAAACCTTAA
442 A-AAAACAATAATATACATAGGATAG-GATTTGAATCCATGCCAACCACATTAAAAAAACCTTAA
* * * * * ** *
5166884 ATTTACCACTTAGCCAAAGTTTTATTTTGATATTGTTTATATATTTTAATTTTATTATGCACAC-
505 ATTTACCACTCAACCAAAGCTTTATTTTGATATT-ATTATACATTACAATTTTATTATACACACT
* * *
5166948 T-TTACCCCCATCAACTGTATATCTATCTATACTCACTATTATTTGAACCCCTAACTGAGTTTGT
569 TATTACCCCCATCAACTGTATATCTAT-T-TA-T-ACTATTATTTAAACCCCTAACTGAATTGGT
* *
5167012 ATCACAAGTCAACTC-AGCACCAACTCGATTAAGTAAATTACTAAAATGTCCTCTTGAATTTAAA
630 ATCACAAGTCAAC-CAAGCACCAACTCGATTAAGTAAATTACTAAAATATCCTCTCGAATTTAAA
* * * *
5167076 ACAAGTTATATTATTAGAGGGTAATTTAGTCTTTTT-TATTAAAAAATAATAAAAAAATGTACAT
694 ACAAGTTATATTATTAAACGGTAATTTAATCTTTTTATATTAAAAAACAATAAAAAAATG--CAT
* * *
5167140 ATGATGA-AGTTTTAAATCCATGGCAATTGCATTAGAAAA-CTTTAAATTTAACATTCAATCA-A
757 ATGATGATA--TTTAAATCCATGCCAATTGCATTAGAAAATC-TTAAAGTTAACATTCAACCACA
* *
5167202 AGTTTTATTTTGAT-AT
819 A-CTTTATTTTGATAAC
* * * *
5167218 TTTTTATACATTTTAATTTTATTTGCACCCTTTATTACATTCATCAATTGTATATATCTAAACTA
1 TTTTTATACATTTTAATTTTATTTGCACACTTTATTACA-TCATCAAATGTATATATCTATATTA
* * *
5167283 TTATTTAAACCCTTGACTGAGATGGTGTCATGAGTCAAACGAGCACCAACTTGGTTAGAAAAATT
65 TTATTTAAA-TCTTGACTGAGTTGGTGTCAAGAGTCAAACGAGCACCAACTTGGTTAGAAAAATT
* * * * *
5167348 ACGAATATGTCCTTCCGTATTTAAAAGAAGTTATATTATT
129 ACTAAAATGTCCTTTCATATTTAAAATAAGTTATATTATT
5167388 TTAGGGTATG
Statistics
Matches: 838, Mismatches: 140, Indels: 75
0.80 0.13 0.07
Matches are distributed among these distances:
836 21 0.03
837 2 0.00
838 3 0.00
839 92 0.11
840 145 0.17
841 140 0.17
842 56 0.07
844 15 0.02
845 4 0.00
848 1 0.00
849 110 0.13
850 48 0.06
851 7 0.01
852 77 0.09
853 13 0.02
854 1 0.00
855 38 0.05
856 65 0.08
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.39
Consensus pattern (834 bp):
TTTTTATACATTTTAATTTTATTTGCACACTTTATTACATCATCAAATGTATATATCTATATTAT
TATTTAAATCTTGACTGAGTTGGTGTCAAGAGTCAAACGAGCACCAACTTGGTTAGAAAAATTAC
TAAAATGTCCTTTCATATTTAAAATAAGTTATATTATTCAAGGATACTTTAATTTTTAATTTAAA
AAGAATAAAAATATACACAAGAGATATGAATTCATACCAATTGCACTAGAAAAACCTTAAATTTA
TCACTTAACCAAAGCTTTACTTTAATATTTTATTACACATTTTATATATACTATTATTTAAACCT
CTAACTGAGTGTTGGTGTCATAAGCCAACCAGGCACCAACTAGATTAGAAAAATTACTAAAATAT
CCTTTCACATTTAAAATAAGTTACATTATTTGAAGTGGTATTTTAATATTGAAAAACAATAATAT
ACATAGGATAGGATTTGAATCCATGCCAACCACATTAAAAAAACCTTAAATTTACCACTCAACCA
AAGCTTTATTTTGATATTATTATACATTACAATTTTATTATACACACTTATTACCCCCATCAACT
GTATATCTATTTATACTATTATTTAAACCCCTAACTGAATTGGTATCACAAGTCAACCAAGCACC
AACTCGATTAAGTAAATTACTAAAATATCCTCTCGAATTTAAAACAAGTTATATTATTAAACGGT
AATTTAATCTTTTTATATTAAAAAACAATAAAAAAATGCATATGATGATATTTAAATCCATGCCA
ATTGCATTAGAAAATCTTAAAGTTAACATTCAACCACAACTTTATTTTGATAAC
Found at i:5168527 original size:305 final size:307
Alignment explanation
Indices: 5168008--5168561 Score: 717
Period size: 305 Copynumber: 1.8 Consensus size: 307
5167998 TTGAAATTTT
* *
5168008 TTTTACTCCCAATTTAATCTAATTTTTTTATTTTAATATCGTACATATTGCATATGTTATTATAA
1 TTTTACTCACAATTTAATCTAATTTTTTTATTTTAATATCGTACATATTGCATATATTATTATAA
* * *
5168073 ATTAGTTTCAAACTTACGTTTCATTATTTATTGTATGTTATTTTTAAACACACCCCCTGTGTTCT
66 ATTAGTTGCAAACATACGTTTCATTATTTATTGTA--TTATTTTTAAACACACCCCCTATGTTCT
* ** * * * *
5168138 AAATACATAGTTTCCACATGCATATGCATGTGACAGAATTTCTAGTGTTAATAATTTTGTTGATT
129 AAACACATAGTTTCCACACACATATGCAGGTGACAGAATTTCTAATATTAATAATGTTGTTGATT
* * * * *
5168203 GATTTGGTGTCATAAATTAACTCAACACTAACCTAAAATTGATAACAATACCATAATAAATAATT
194 GAGTAGGTGTCACAAATTAACTCAACACCAACCTAAAATTGATAACAACACCATAATAAATAATT
5168268 TTATTCATTTAGTATAATTAATATGTTGTATTTATGTGTTCAAATTCCA
259 TTATTCATTTAGTATAATTAATATGTTGTATTTATGTGTTCAAATTCCA
** * * * *
5168317 TTTTACTCACAATTTAATCTCTTTTTTTTCATTTTAATATCGTACATATTTCGTTTATTATTATT
1 TTTTACTCACAATTTAATCTAATTTTTTT-ATTTTAATATCGTACATATTGCATATATTATTATA
* *
5168382 AATTAGTTGCAAATCATATGTTTCATTATTTA-T-TA-TATTTTTAAACACA-CCTCTATGTTCT
65 AATTAGTTGCAAA-CATACGTTTCATTATTTATTGTATTATTTTTAAACACACCCCCTATGTTCT
* * *
5168443 AAACATATGGTTTCCACACACATATGTGCGAGGT-A-A-AATTTTTAATATTAATAATGTTGTTG
129 AAACACATAGTTTCCACACACATA--TGC-AGGTGACAGAATTTCTAATATTAATAATGTTGTTG
* * *
5168505 ATTGAGTAGGTGTCACAAATTAACTCAACACCAACTTATAATTGATGACAACACCAT
191 ATTGAGTAGGTGTCACAAATTAACTCAACACCAACCTAAAATTGATAACAACACCAT
5168562 GATGTCGAAA
Statistics
Matches: 209, Mismatches: 31, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
305 100 0.48
306 15 0.07
307 4 0.02
308 3 0.01
309 28 0.13
310 43 0.21
311 16 0.08
ACGTcount: A:0.33, C:0.14, G:0.09, T:0.44
Consensus pattern (307 bp):
TTTTACTCACAATTTAATCTAATTTTTTTATTTTAATATCGTACATATTGCATATATTATTATAA
ATTAGTTGCAAACATACGTTTCATTATTTATTGTATTATTTTTAAACACACCCCCTATGTTCTAA
ACACATAGTTTCCACACACATATGCAGGTGACAGAATTTCTAATATTAATAATGTTGTTGATTGA
GTAGGTGTCACAAATTAACTCAACACCAACCTAAAATTGATAACAACACCATAATAAATAATTTT
ATTCATTTAGTATAATTAATATGTTGTATTTATGTGTTCAAATTCCA
Found at i:5173042 original size:19 final size:18
Alignment explanation
Indices: 5173007--5173042 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
5172997 GAAGCAAGCA
*
5173007 ATGATTGAAGAAATCAGG
1 ATGATTGAAAAAATCAGG
5173025 ATGATTGAAAAGAATCAG
1 ATGATTGAAAA-AATCAG
5173043 ACCTGGAGTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.47, C:0.06, G:0.25, T:0.22
Consensus pattern (18 bp):
ATGATTGAAAAAATCAGG
Found at i:5178448 original size:22 final size:21
Alignment explanation
Indices: 5178423--5178469 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
5178413 CTATTTACTT
5178423 TTTTATTATTATATATTAT-TAG
1 TTTTA-TATT-TATATTATATAG
*
5178445 TTTTATATTTATATTTTATAG
1 TTTTATATTTATATTATATAG
5178466 TTTT
1 TTTT
5178470 TATAATTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 7 0.30
21 11 0.48
22 5 0.22
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.68
Consensus pattern (21 bp):
TTTTATATTTATATTATATAG
Found at i:5178470 original size:22 final size:23
Alignment explanation
Indices: 5178422--5178483 Score: 69
Period size: 22 Copynumber: 2.8 Consensus size: 23
5178412 GCTATTTACT
*
5178422 TTTTTAT-TATTATATATTATTAG
1 TTTTTATAT-TTATATTTTATTAG
5178445 -TTTTATATTTATATTTTA-TAG
1 TTTTTATATTTATATTTTATTAG
5178466 TTTTTATAATTT-TATTTT
1 TTTTTAT-ATTTATATTTT
5178484 TTAATAAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
21 3 0.09
22 27 0.77
23 5 0.14
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.69
Consensus pattern (23 bp):
TTTTTATATTTATATTTTATTAG
Found at i:5179219 original size:28 final size:27
Alignment explanation
Indices: 5179187--5179257 Score: 65
Period size: 26 Copynumber: 2.5 Consensus size: 27
5179177 ATTTTTCATT
5179187 AAATAAAATAAAGTTATAAAAACTAATA-A
1 AAATAAAATAAAGTT-TAAAAA--AATATA
**
5179216 AATATAAAA-ATTGTTTAAAAAAATATA
1 AA-ATAAAATAAAGTTTAAAAAAATATA
5179243 AAATAAAATTAAAGT
1 AAATAAAA-TAAAGT
5179258 AAAAAGTAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 9
0.72 0.09 0.19
Matches are distributed among these distances:
26 10 0.29
27 3 0.09
28 9 0.26
29 6 0.18
30 6 0.18
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.28
Consensus pattern (27 bp):
AAATAAAATAAAGTTTAAAAAAATATA
Found at i:5179345 original size:15 final size:14
Alignment explanation
Indices: 5179318--5179351 Score: 59
Period size: 15 Copynumber: 2.4 Consensus size: 14
5179308 AATTCAAATA
5179318 TTATTTTTTTATTT
1 TTATTTTTTTATTT
5179332 TTATTTTATTTATTT
1 TTATTTT-TTTATTT
5179347 TTATT
1 TTATT
5179352 AAAATATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 7 0.37
15 12 0.63
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (14 bp):
TTATTTTTTTATTT
Found at i:5179511 original size:60 final size:58
Alignment explanation
Indices: 5179380--5179489 Score: 150
Period size: 58 Copynumber: 1.9 Consensus size: 58
5179370 TTAATATACC
* * * *
5179380 ATTTGATATTTGAACTTGACATTTTTTTCTAGTTTGGTACCTAAATTTTTTTAGCCGA
1 ATTTGGTATTTGAACTTGACAATTTTCTCTAATTTGGTACCTAAATTTTTTTAGCCGA
* *
5179438 GTTTGGTATTTGAACTTGACACATTTTCT-TAATTTGGTACCTAATTTTTTTT
1 ATTTGGTATTTGAACTTGACA-ATTTTCTCTAATTTGGTACCTAAATTTTTTT
5179490 TTGTCTCAAT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
58 40 0.89
59 5 0.11
ACGTcount: A:0.23, C:0.12, G:0.14, T:0.52
Consensus pattern (58 bp):
ATTTGGTATTTGAACTTGACAATTTTCTCTAATTTGGTACCTAAATTTTTTTAGCCGA
Found at i:5179934 original size:19 final size:18
Alignment explanation
Indices: 5179904--5179961 Score: 73
Period size: 19 Copynumber: 3.1 Consensus size: 18
5179894 ACTATCTTAT
5179904 AAAATATATAAAACTTTAA
1 AAAATATATAAAA-TTTAA
*
5179923 AAACAT-TATAAAATTGAA
1 AAA-ATATATAAAATTTAA
5179941 ATAAATATATAAAATTTAA
1 A-AAATATATAAAATTTAA
5179960 AA
1 AA
5179962 TTAAAATATA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
18 8 0.24
19 24 0.71
20 2 0.06
ACGTcount: A:0.64, C:0.03, G:0.02, T:0.31
Consensus pattern (18 bp):
AAAATATATAAAATTTAA
Found at i:5179970 original size:20 final size:19
Alignment explanation
Indices: 5179905--5179976 Score: 67
Period size: 19 Copynumber: 3.6 Consensus size: 19
5179895 CTATCTTATA
5179905 AAATATATAAAACTTTAAAA-
1 AAATATATAAAA--TTAAAAT
* *
5179925 ACAT-TATAAAATTGAAAT
1 AAATATATAAAATTAAAAT
5179943 AAATATATAAAATTTAAAATT
1 AAATATATAAAA-TTAAAA-T
5179964 AAAATATATAAAA
1 -AAATATATAAAA
5179977 ATTATAATAT
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
17 5 0.12
18 3 0.07
19 14 0.33
20 8 0.19
21 1 0.02
22 12 0.28
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.32
Consensus pattern (19 bp):
AAATATATAAAATTAAAAT
Found at i:5179975 original size:30 final size:30
Alignment explanation
Indices: 5179941--5180004 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
5179931 TAAAATTGAA
* *
5179941 ATAAATATATAAAATTTAAAAT-TAAAATAT
1 ATAAAAAT-TAAAATATAAAATCTAAAATAT
* *
5179971 ATAAAAATTATAATATAAAGTCTAAAATAT
1 ATAAAAATTAAAATATAAAATCTAAAATAT
5180001 ATAA
1 ATAA
5180005 GAAAATATAC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 10 0.34
30 19 0.66
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (30 bp):
ATAAAAATTAAAATATAAAATCTAAAATAT
Found at i:5181582 original size:29 final size:30
Alignment explanation
Indices: 5181540--5181605 Score: 118
Period size: 29 Copynumber: 2.3 Consensus size: 30
5181530 ATTTTTGGTA
5181540 ATAAAA-CCGAAAATATAGCTACAAATGAT
1 ATAAAATCCGAAAATATAGCTACAAATGAT
5181569 ATAAAATCC-AAAATATAGCTACAAATGAT
1 ATAAAATCCGAAAATATAGCTACAAATGAT
5181598 ATAAAATC
1 ATAAAATC
5181606 TGAATATACA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
29 34 0.94
30 2 0.06
ACGTcount: A:0.56, C:0.14, G:0.08, T:0.23
Consensus pattern (30 bp):
ATAAAATCCGAAAATATAGCTACAAATGAT
Found at i:5183779 original size:24 final size:25
Alignment explanation
Indices: 5183748--5183796 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
5183738 AGATCTTTCA
*
5183748 AAAATAAAA-TATTTTTATAATCTT
1 AAAATAAAAGAATTTTTATAATCTT
5183772 AAAATAAAAGAATTTTTATAATCTT
1 AAAATAAAAGAATTTTTATAATCTT
5183797 GGTTTATCAC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 9 0.39
25 14 0.61
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (25 bp):
AAAATAAAAGAATTTTTATAATCTT
Found at i:5190102 original size:3 final size:3
Alignment explanation
Indices: 5190094--5190145 Score: 52
Period size: 3 Copynumber: 17.3 Consensus size: 3
5190084 TTAGTTTTTG
* * *
5190094 TTA TTA TTA TTA TTA CTA TTA TCA TTA TTA -TA TTA TATA GTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA
*
5190139 TAA TTA T
1 TTA TTA T
5190146 ACTTACATAT
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
2 2 0.05
3 35 0.90
4 2 0.05
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:5190137 original size:24 final size:24
Alignment explanation
Indices: 5190094--5190145 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
5190084 TTAGTTTTTG
*
5190094 TTATTATTATTATTACTATTATCA
1 TTATTATTATTATTACTATTATAA
*
5190118 TTATTA-TATTATATAGTATTATAA
1 TTATTATTATTAT-TACTATTATAA
5190142 TTAT
1 TTAT
5190146 ACTTACATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 6 0.24
24 19 0.76
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.58
Consensus pattern (24 bp):
TTATTATTATTATTACTATTATAA
Found at i:5192528 original size:18 final size:18
Alignment explanation
Indices: 5192494--5192540 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
5192484 GGATTGGAAA
*
5192494 TCATATTTTTGTTGTTTT
1 TCATATTTTTGTCGTTTT
5192512 TCATATTTTT-TCCGTTTT
1 TCATATTTTTGT-CGTTTT
*
5192530 TTATGATTTTT
1 TCAT-ATTTTT
5192541 ATATTTTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 1 0.04
18 18 0.72
19 6 0.24
ACGTcount: A:0.13, C:0.09, G:0.09, T:0.70
Consensus pattern (18 bp):
TCATATTTTTGTCGTTTT
Found at i:5192598 original size:3 final size:3
Alignment explanation
Indices: 5192590--5192614 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
5192580 ACCTGATTTA
5192590 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
5192615 TATAACCTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:5195361 original size:24 final size:24
Alignment explanation
Indices: 5195329--5195376 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
5195319 AACAAAGAGC
5195329 AAATTTCAAAAGAGCTCTTAGTAA
1 AAATTTCAAAAGAGCTCTTAGTAA
5195353 AAATTTCAAAAGAGCTCTTAGTAA
1 AAATTTCAAAAGAGCTCTTAGTAA
5195377 GCTTTCGTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.46, C:0.12, G:0.12, T:0.29
Consensus pattern (24 bp):
AAATTTCAAAAGAGCTCTTAGTAA
Found at i:5203159 original size:18 final size:18
Alignment explanation
Indices: 5203136--5203170 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
5203126 TTATAAAAAA
*
5203136 TTTTATTTTTTGAATTTC
1 TTTTATTTCTTGAATTTC
5203154 TTTTATTTCTTGAATTT
1 TTTTATTTCTTGAATTT
5203171 GTTGTTGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.06, G:0.06, T:0.71
Consensus pattern (18 bp):
TTTTATTTCTTGAATTTC
Found at i:5214999 original size:69 final size:69
Alignment explanation
Indices: 5214888--5215019 Score: 230
Period size: 69 Copynumber: 1.9 Consensus size: 69
5214878 TTTCTTATAC
* *
5214888 TTTGAACTCAAGACCATGTTTCAATTCTTGAAAGTCTATCTTTGATCTTCAAATTAAAAAGTACA
1 TTTGAACTCAAGACCAGGTTACAATTCTTGAAAGTCTATCTTTGATCTTCAAATTAAAAAGTACA
5214953 GCAG
66 GCAG
5214957 TTTGAACTCAAGACCAGGTTACAACTT-TTGAAAGTCTATCTTTGATCTTCAAATTAAAAAGTA
1 TTTGAACTCAAGACCAGGTTACAA-TTCTTGAAAGTCTATCTTTGATCTTCAAATTAAAAAGTA
5215020 AAGCTTTCAA
Statistics
Matches: 60, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
69 58 0.97
70 2 0.03
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.35
Consensus pattern (69 bp):
TTTGAACTCAAGACCAGGTTACAATTCTTGAAAGTCTATCTTTGATCTTCAAATTAAAAAGTACA
GCAG
Found at i:5216920 original size:10 final size:9
Alignment explanation
Indices: 5216905--5217023 Score: 75
Period size: 10 Copynumber: 12.3 Consensus size: 9
5216895 GAAGGAGAGG
5216905 GAAAGAAGAA
1 GAAAGAA-AA
5216915 GAAAG-AAA
1 GAAAGAAAA
5216923 GAAAG-AAA
1 GAAAGAAAA
5216931 GAAAGAAAA
1 GAAAGAAAA
5216940 GGAAAGAAAA
1 -GAAAGAAAA
* *
5216950 GGAAAGGAGAG
1 -GAAA-GAAAA
5216961 GAAAG-AAA
1 GAAAGAAAA
5216969 GAAA-AAGAA
1 GAAAGAA-AA
5216978 GGAAAGAAAA
1 -GAAAGAAAA
5216988 GGAAAGGAGAAGA
1 -GAAA-GA-AA-A
*
5217001 GAAAAAAAAA
1 G-AAAGAAAA
5217011 GAAAGAAGAA
1 GAAAGAA-AA
5217021 GAA
1 GAA
5217024 GATGGAAGAA
Statistics
Matches: 91, Mismatches: 6, Indels: 24
0.75 0.05 0.20
Matches are distributed among these distances:
8 21 0.23
9 12 0.13
10 41 0.45
11 9 0.10
12 4 0.04
13 4 0.04
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (9 bp):
GAAAGAAAA
Found at i:5216922 original size:4 final size:4
Alignment explanation
Indices: 5216905--5217056 Score: 76
Period size: 4 Copynumber: 38.2 Consensus size: 4
5216895 GAAGGAGAGG
5216905 GAAA G-AA G-AA GAAA GAAA GAAA GAAA GAAA GAAAA GGAAA GAAAA GGAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA G-AAA -GAAA G-AAA -GAAA
* * *
5216955 GGAGAG GAAA GAAA G-AA -AAA GAAG GAAA GAAAA GGAAA G-GA GAAGA
1 -GA-AA GAAA GAAA GAAA GAAA GAAA GAAA G-AAA -GAAA GAAA GAA-A
* *
5217001 GAAA -AAA -AAA GAAA G-AA G-AA GAAGA TGGAA GAAG GAAA -AAA -AAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAA-A -GAAA GAAA GAAA GAAA GAAA
5217045 GAAA GAAA -AAA G
1 GAAA GAAA GAAA G
5217057 GTAATTTTTA
Statistics
Matches: 120, Mismatches: 10, Indels: 36
0.72 0.06 0.22
Matches are distributed among these distances:
3 33 0.28
4 52 0.43
5 29 0.24
6 6 0.05
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.01
Consensus pattern (4 bp):
GAAA
Found at i:5216980 original size:38 final size:37
Alignment explanation
Indices: 5216904--5217013 Score: 138
Period size: 38 Copynumber: 3.0 Consensus size: 37
5216894 AGAAGGAGAG
*
5216904 GGAAAGAAGAA-GAAA-GAAAGAAAGAAAGAAAGAA-AA
1 GGAAAGAA-AAGGAAAGGAGAGAAAGAAAGAAA-AAGAA
5216940 GGAAAGAAAAGGAAAGGAGAGGAAAGAAAGAAAAAGAA
1 GGAAAGAAAAGGAAAGGAGA-GAAAGAAAGAAAAAGAA
* *
5216978 GGAAAGAAAAGGAAAGGAGA-AGAGAAAAAAAAAGAA
1 GGAAAGAAAAGGAAAGGAGAGAAAGAAAGAAAAAGAA
5217014 AGAAGAAGAA
Statistics
Matches: 67, Mismatches: 3, Indels: 8
0.86 0.04 0.10
Matches are distributed among these distances:
35 2 0.03
36 26 0.39
37 5 0.07
38 34 0.51
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (37 bp):
GGAAAGAAAAGGAAAGGAGAGAAAGAAAGAAAAAGAA
Found at i:5217023 original size:38 final size:39
Alignment explanation
Indices: 5216918--5217056 Score: 127
Period size: 38 Copynumber: 3.7 Consensus size: 39
5216908 AGAAGAAGAA
* *
5216918 AGAAAGAAAGAAAGAAAGAAA-AGGAAAGAAAAGGAAAGG
1 AGAAGGAAAGAAA-AAAGAAAGAAGAAAGAAAAGGAAAGG
*
5216957 AG-AGGAAAGAAAGAA-AAAGAAGGAAAGAAAAGGAAAGG
1 AGAAGGAAAGAAAAAAGAAAGAA-GAAAGAAAAGGAAAGG
*
5216995 AGAAGAGAAA-AAAAAAGAAAGAAG-AAG--AA-G-ATGG
1 AGAAG-GAAAGAAAAAAGAAAGAAGAAAGAAAAGGAAAGG
*
5217029 AAGAAGGAAA-AAAAAAGAAAGAAAAAAG
1 -AGAAGGAAAGAAAAAAGAAAGAAGAAAG
5217057 GTAATTTTTA
Statistics
Matches: 87, Mismatches: 6, Indels: 18
0.78 0.05 0.16
Matches are distributed among these distances:
34 20 0.23
35 9 0.10
36 5 0.06
37 3 0.03
38 30 0.34
39 10 0.11
40 10 0.11
ACGTcount: A:0.70, C:0.00, G:0.29, T:0.01
Consensus pattern (39 bp):
AGAAGGAAAGAAAAAAGAAAGAAGAAAGAAAAGGAAAGG
Found at i:5217557 original size:158 final size:156
Alignment explanation
Indices: 5217392--5217909 Score: 547
Period size: 158 Copynumber: 3.3 Consensus size: 156
5217382 TATTTAATAA
* * * *
5217392 ATTTCAAACATAATGCACTAAAATAATGTAAAATGATAAAATTAAAAATTACGATATTTTTTAAA
1 ATTTCAAACAAAATGCACTGAAATAATATAAAATAATAAAATTAAAAATTACGATATTTTTTAAA
*
5217457 ATAATATAATGCGGATAAAAAAATACGAACAACTGGCCGAAGTAAGAGTGTATTACTAACTTTTT
66 ATAATATAATGCGGATAAAAAAATACGAACAAATGGCCGAAGTAAGAGTGTATTACTAACTTTTT
5217522 TAAAAACTCAGAAATAATTAATACAAAT
131 TAAAAA-TCA-AAATAATTAATACAAAT
**
5217550 ATTTCAAACAAAATGCACTGAAATAATATAAAATAATAAAA-TACGAAAA-TAAAATATTTTTAT
1 ATTTCAAACAAAATGCACTGAAATAATATAAAATAATAAAATTA--AAAATTACGATA-TTTT-T
* * * * * * * *
5217613 TGAAAGTAATAAAAAT-CGG-GAAAATAATACGAGCAAATGG-C-AAGGATAAGGGT-TTTTTCT
62 T-AAAATAAT-ATAATGCGGATAAAAAAATACGAACAAATGGCCGAA-G-TAAGAGTGTATTAC-
* * * *
5217673 TACACCAAATTAATTTAAAAAACACACTAAATTAAT--AAAT
122 TA-A-C---TT-TTTTAAAAATCAAAAT-AATTAATACAAAT
** * * *
5217713 -TTT-AAACATTATGCACTGAAATAATGTAAAATGATAAAATTAGAAATTACGATATTTTTTAAA
1 ATTTCAAACAAAATGCACTGAAATAATATAAAATAATAAAATTAAAAATTACGATATTTTTTAAA
5217776 ATAATATAATGCGGATAAAAAAA-ACGAACAAATGGCCGAAGTAAGAGTGTATTACTAACTTTTT
66 ATAATATAATGCGGATAAAAAAATACGAACAAATGGCCGAAGTAAGAGTGTATTACTAACTTTTT
5217840 TAAAAATTCATAAATAATTAATACAAAT
131 TAAAAA-TCA-AAATAATTAATACAAAT
*
5217868 ATTTTAAACAAAATGCACTGAAATAATATAAAATAATAAAAT
1 ATTTCAAACAAAATGCACTGAAATAATATAAAATAATAAAAT
5217910 ACGAAAATAA
Statistics
Matches: 289, Mismatches: 42, Indels: 59
0.74 0.11 0.15
Matches are distributed among these distances:
152 8 0.03
153 11 0.04
154 2 0.01
155 4 0.01
156 4 0.01
157 40 0.14
158 73 0.25
159 28 0.10
160 36 0.12
161 48 0.17
162 10 0.03
163 4 0.01
164 2 0.01
165 11 0.04
166 8 0.03
ACGTcount: A:0.51, C:0.09, G:0.10, T:0.30
Consensus pattern (156 bp):
ATTTCAAACAAAATGCACTGAAATAATATAAAATAATAAAATTAAAAATTACGATATTTTTTAAA
ATAATATAATGCGGATAAAAAAATACGAACAAATGGCCGAAGTAAGAGTGTATTACTAACTTTTT
TAAAAATCAAAATAATTAATACAAAT
Found at i:5217963 original size:318 final size:318
Alignment explanation
Indices: 5217385--5218144 Score: 1192
Period size: 318 Copynumber: 2.4 Consensus size: 318
5217375 AATTATATAT
* *
5217385 TTAATAAATTTCAAACATAATGCACTAAAATAATGTAAAATGATAAAATTAAAAATTACGATATT
1 TTAATAAATTTTAAACAT-ATGCACT-AAATAATGTAAAATGATAAAATTAGAAATTACGATATT
*
5217450 TTTTAAAATAATATAATGCGGATAAAAAAATACGAACAACTGGCCGAAGTAAGAGTGTATTACTA
64 TTTTAAAATAATATAATGCGGATAAAAAAATACGAACAAATGGCCGAAGTAAGAGTGTATTACTA
5217515 ACTTTTTTAAAAACTCAGAAATAATTAATACAAATATTTCAAACAAAATGCACTGAAATAATATA
129 ACTTTTTTAAAAACTCAGAAATAATTAATACAAATATTTCAAACAAAATGCACTGAAATAATATA
5217580 AAATAATAAAATACGAAAATAAAATATTTTTATTGAAAGTAATAAAAATCGGGAAAATAATACGA
194 AAATAATAAAATACGAAAATAAAATATTTTTATTGAAAGTAATAAAAATCGGGAAAATAATACGA
*
5217645 GCAAATGGCAAGGAT-AAGGGTTTTTTCTTACACCAAATTAATTTAAAAAACACACTAAA
259 GCAAAGGGCAAGGATAAAGGGTTTTTTCTTACACCAAATTAATTTAAAAAACACACTAAA
5217704 TTAATAAATTTTAAACATTATGCACTGAAATAATGTAAAATGATAAAATTAGAAATTACGATATT
1 TTAATAAATTTTAAACA-TATGCACT-AAATAATGTAAAATGATAAAATTAGAAATTACGATATT
5217769 TTTTAAAATAATATAATGCGGATAAAAAAA-ACGAACAAATGGCCGAAGTAAGAGTGTATTACTA
64 TTTTAAAATAATATAATGCGGATAAAAAAATACGAACAAATGGCCGAAGTAAGAGTGTATTACTA
* * *
5217833 ACTTTTTTAAAAATTCATAAATAATTAATACAAATATTTTAAACAAAATGCACTGAAATAATATA
129 ACTTTTTTAAAAACTCAGAAATAATTAATACAAATATTTCAAACAAAATGCACTGAAATAATATA
5217898 AAATAATAAAATACGAAAATAAAATATTTTTATTGAAAGTAATAAAAATCGGGAAAATAATACGA
194 AAATAATAAAATACGAAAATAAAATATTTTTATTGAAAGTAATAAAAATCGGGAAAATAATACGA
* * * * *
5217963 GCAAAGGGCAGGGATAAAGGTTTTTTTCTTATACCAATTTAATTTAAAAAACAGACTAAA
259 GCAAAGGGCAAGGATAAAGGGTTTTTTCTTACACCAAATTAATTTAAAAAACACACTAAA
* *
5218023 TTAATAAA-TTT---CA-A---AC-----AATGTAAAATTATAAAATTAGAAATTAAGATA-TTT
1 TTAATAAATTTTAAACATATGCACTAAATAATGTAAAATGATAAAATTAGAAATTACGATATTTT
* * * * * *
5218074 TTAAAGTAATAAAATGCGGAGAAAAAAATACGAACAAATGGCCGAAGTAAGAGTTTTTTATTAAC
66 TTAAAATAATATAATGCGGATAAAAAAATACGAACAAATGGCCGAAGTAAGAGTGTATTACTAAC
5218139 TTTTTT
131 TTTTTT
5218145 TTCAACTTGC
Statistics
Matches: 417, Mismatches: 21, Indels: 21
0.91 0.05 0.05
Matches are distributed among these distances:
303 28 0.07
304 69 0.17
310 2 0.00
313 1 0.00
315 2 0.00
318 176 0.42
319 138 0.33
320 1 0.00
ACGTcount: A:0.50, C:0.09, G:0.11, T:0.30
Consensus pattern (318 bp):
TTAATAAATTTTAAACATATGCACTAAATAATGTAAAATGATAAAATTAGAAATTACGATATTTT
TTAAAATAATATAATGCGGATAAAAAAATACGAACAAATGGCCGAAGTAAGAGTGTATTACTAAC
TTTTTTAAAAACTCAGAAATAATTAATACAAATATTTCAAACAAAATGCACTGAAATAATATAAA
ATAATAAAATACGAAAATAAAATATTTTTATTGAAAGTAATAAAAATCGGGAAAATAATACGAGC
AAAGGGCAAGGATAAAGGGTTTTTTCTTACACCAAATTAATTTAAAAAACACACTAAA
Found at i:5222663 original size:18 final size:18
Alignment explanation
Indices: 5222636--5222680 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
5222626 ATCCCAATGA
*
5222636 TCGCCGCCACCTTCTTCT
1 TCGCCACCACCTTCTTCT
5222654 TCGCCACCACCTTCTTCT
1 TCGCCACCACCTTCTTCT
*
5222672 TCACCACCA
1 TCGCCACCA
5222681 ACCATATCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.13, C:0.51, G:0.07, T:0.29
Consensus pattern (18 bp):
TCGCCACCACCTTCTTCT
Done.