Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold101
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: 827217
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.34
Warning! 25308 characters in sequence are not A, C, G, or T
File 1 of 6
Found at i:7673 original size:17 final size:17
Alignment explanation
Indices: 7653--7692 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
7643 AATAATAAAG
*
7653 ATATTTATGTTGGATAT
1 ATATTTATATTGGATAT
*
7670 ATATTTATATTTGATAT
1 ATATTTATATTGGATAT
*
7687 TTATTT
1 ATATTT
7693 TTTGAATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.10, T:0.60
Consensus pattern (17 bp):
ATATTTATATTGGATAT
Found at i:8220 original size:3 final size:3
Alignment explanation
Indices: 8212--8239 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
8202 AAATAACCAT
8212 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
8240 ACTATGTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:8343 original size:22 final size:23
Alignment explanation
Indices: 8304--8349 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
8294 ATTAAAATAG
*
8304 ATATATAATTTTTAAATTCTTTTT
1 ATATATAATATTTAAATT-TTTTT
8328 ATAT-TAATATTT-AATTTTTTT
1 ATATATAATATTTAAATTTTTTT
8349 A
1 A
8350 CTTGAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 6 0.29
22 4 0.19
23 7 0.33
24 4 0.19
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (23 bp):
ATATATAATATTTAAATTTTTTT
Found at i:12706 original size:36 final size:36
Alignment explanation
Indices: 12631--12706 Score: 91
Period size: 36 Copynumber: 2.1 Consensus size: 36
12621 AGATTTGTTC
* *
12631 AATC-TTTTAATCAATTGCACATAGATATCATATAA
1 AATCTTTTTAATCAATTGCACATAGATATAATACAA
* * * *
12666 AATCTTTTTAATCTATTGTATATAGATATAATACAT
1 AATCTTTTTAATCAATTGCACATAGATATAATACAA
12702 AATCT
1 AATCT
12707 ATGTTTGCAT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
35 4 0.12
36 30 0.88
ACGTcount: A:0.41, C:0.12, G:0.05, T:0.42
Consensus pattern (36 bp):
AATCTTTTTAATCAATTGCACATAGATATAATACAA
Found at i:14549 original size:13 final size:13
Alignment explanation
Indices: 14533--14564 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
14523 ATGATGTTCG
14533 AAAAGAAAAAAAA
1 AAAAGAAAAAAAA
14546 AAAAGAAAAAAAA
1 AAAAGAAAAAAAA
*
14559 GAAAGA
1 AAAAGA
14565 GGTTATAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (13 bp):
AAAAGAAAAAAAA
Found at i:15502 original size:13 final size:14
Alignment explanation
Indices: 15476--15505 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
15466 GTAATTTAAT
15476 AAATTGGTAAAAAG
1 AAATTGGTAAAAAG
15490 AAATTGG-AAAAAG
1 AAATTGGTAAAAAG
15503 AAA
1 AAA
15506 AAATATAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.63, C:0.00, G:0.20, T:0.17
Consensus pattern (14 bp):
AAATTGGTAAAAAG
Found at i:16121 original size:26 final size:26
Alignment explanation
Indices: 16074--16136 Score: 81
Period size: 26 Copynumber: 2.4 Consensus size: 26
16064 ATCAATATTG
* * * * *
16074 ACAAACAACAAGAATCATCATTTTTT
1 ACAAACAAAAAAAACCACCATTTTTA
16100 ACAAACAAAAAAAACCACCATTTTTA
1 ACAAACAAAAAAAACCACCATTTTTA
16126 ACAAACAAAAA
1 ACAAACAAAAA
16137 TGGTGGCTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.57, C:0.21, G:0.02, T:0.21
Consensus pattern (26 bp):
ACAAACAAAAAAAACCACCATTTTTA
Found at i:22800 original size:22 final size:24
Alignment explanation
Indices: 22765--22811 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
22755 AATTTTATTA
*
22765 ATATTTTTAAATTAA-AATAAATAT
1 ATATTTTT-AATTAATAAAAAATAT
22789 ATATTTTT-ATTAATAAAAAATAT
1 ATATTTTTAATTAATAAAAAATAT
22812 TTCAAATGGG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 5 0.24
23 8 0.38
24 8 0.38
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (24 bp):
ATATTTTTAATTAATAAAAAATAT
Found at i:23733 original size:24 final size:24
Alignment explanation
Indices: 23697--23752 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
23687 CTACCAAAAA
23697 AATATTAAAAAATTATTT-TAAATT
1 AATATTAAAAAA-TATTTATAAATT
* * *
23721 AATATTTATAAATATTTATAATTT
1 AATATTAAAAAATATTTATAAATT
23745 AAT-TTAAA
1 AATATTAAA
23753 TAATTTTTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
23 8 0.31
24 18 0.69
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (24 bp):
AATATTAAAAAATATTTATAAATT
Found at i:24469 original size:16 final size:17
Alignment explanation
Indices: 24442--24481 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
24432 TTTAATGTAT
24442 TTAAATATATTTTA-AAA
1 TTAAA-ATATTTTATAAA
*
24459 TTAAAATATTTTATGAA
1 TTAAAATATTTTATAAA
24476 TTAAAA
1 TTAAAA
24482 ATTAAATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 8 0.38
17 13 0.62
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (17 bp):
TTAAAATATTTTATAAA
Found at i:24482 original size:18 final size:17
Alignment explanation
Indices: 24442--24483 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
24432 TTTAATGTAT
*
24442 TTAAATATATTTTAAAA
1 TTAAAAATATTTTAAAA
*
24459 TT-AAAATATTTTATGAA
1 TTAAAAATATTTTA-AAA
24476 TTAAAAAT
1 TTAAAAAT
24484 TAAATTTATC
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 10 0.48
17 6 0.29
18 5 0.24
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (17 bp):
TTAAAAATATTTTAAAA
Found at i:33077 original size:34 final size:34
Alignment explanation
Indices: 33009--33225 Score: 285
Period size: 34 Copynumber: 6.4 Consensus size: 34
32999 GATGTGCTAT
* * *
33009 TTGTTGATTAAAT-GGTGATTTAGTAGTTTACCA
1 TTGTTGATTAAATGGGAGATTTGGTAGCTTACCA
* * * *
33042 TTGTTGATTAAATGGGTGATTTGGTGGTTTGCCA
1 TTGTTGATTAAATGGGAGATTTGGTAGCTTACCA
*
33076 TTGTTGACTAAAT-GGAGATTTGGTAGCTTACCA
1 TTGTTGATTAAATGGGAGATTTGGTAGCTTACCA
*
33109 TTGTTGATTAAATGGGAAATTTGGTAGCTTACCA
1 TTGTTGATTAAATGGGAGATTTGGTAGCTTACCA
* *
33143 TTGTTGATTAAATGGGTGATTTGGTGGCTTACCA
1 TTGTTGATTAAATGGGAGATTTGGTAGCTTACCA
* * **
33177 TTGTTGACTAAATGGGAGATTTGGTAGGTTGTCA
1 TTGTTGATTAAATGGGAGATTTGGTAGCTTACCA
33211 TTGTTGATTAAATGG
1 TTGTTGATTAAATGG
33226 TGGTTTTTAC
Statistics
Matches: 162, Mismatches: 20, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
33 41 0.25
34 121 0.75
ACGTcount: A:0.24, C:0.07, G:0.27, T:0.41
Consensus pattern (34 bp):
TTGTTGATTAAATGGGAGATTTGGTAGCTTACCA
Found at i:33117 original size:67 final size:66
Alignment explanation
Indices: 33009--33227 Score: 303
Period size: 67 Copynumber: 3.3 Consensus size: 66
32999 GATGTGCTAT
* * *
33009 TTGTTGATTAAATGGTGATTTAGTAGTTTACCATTGTTGATTAAATGGGTGATTTGGTGGTTTGC
1 TTGTTGATTAAATGGTGATTTGGTAGCTTACCATTGTTGATTAAATGGGAGATTTGGTGG-TTGC
33074 CA
65 CA
* * * * *
33076 TTGTTGACTAAATGGAGATTTGGTAGCTTACCATTGTTGATTAAATGGGAAATTTGGTAGCTTAC
1 TTGTTGATTAAATGGTGATTTGGTAGCTTACCATTGTTGATTAAATGGGAGATTTGGT-GGTTGC
33141 CA
65 CA
* *
33143 TTGTTGATTAAATGGGTGATTTGGTGGCTTACCATTGTTGACTAAATGGGAGATTTGGTAGGTTG
1 TTGTTGATTAAAT-GGTGATTTGGTAGCTTACCATTGTTGATTAAATGGGAGATTTGGT-GGTTG
*
33208 TCA
64 CCA
33211 TTGTTGATTAAATGGTG
1 TTGTTGATTAAATGGTG
33228 GTTTTTACCA
Statistics
Matches: 134, Mismatches: 16, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
67 73 0.54
68 61 0.46
ACGTcount: A:0.24, C:0.07, G:0.27, T:0.41
Consensus pattern (66 bp):
TTGTTGATTAAATGGTGATTTGGTAGCTTACCATTGTTGATTAAATGGGAGATTTGGTGGTTGCC
A
Found at i:33183 original size:101 final size:101
Alignment explanation
Indices: 33009--33227 Score: 343
Period size: 101 Copynumber: 2.2 Consensus size: 101
32999 GATGTGCTAT
* * *
33009 TTGTTGATTAAATGGTGATTTAGTAGTTTACCATTGTTGATTAAATGGGTGATTTGGTGGTTTGC
1 TTGTTGATTAAATGGTGATTTAGTAGCTTACCATTGTTGATTAAATGGGTGATTTGGTGGCTTAC
33074 CATTGTTGACTAAAT-GGAGATTTGGTAGCTTACCA
66 CATTGTTGACTAAATGGGAGATTTGGTAGCTTACCA
*
33109 TTGTTGATTAAATGG-GAAATTTGGTAGCTTACCATTGTTGATTAAATGGGTGATTTGGTGGCTT
1 TTGTTGATTAAATGGTG--ATTTAGTAGCTTACCATTGTTGATTAAATGGGTGATTTGGTGGCTT
* **
33173 ACCATTGTTGACTAAATGGGAGATTTGGTAGGTTGTCA
64 ACCATTGTTGACTAAATGGGAGATTTGGTAGCTTACCA
33211 TTGTTGATTAAATGGTG
1 TTGTTGATTAAATGGTG
33228 GTTTTTACCA
Statistics
Matches: 108, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
99 1 0.01
100 15 0.14
101 59 0.55
102 32 0.30
103 1 0.01
ACGTcount: A:0.24, C:0.07, G:0.27, T:0.41
Consensus pattern (101 bp):
TTGTTGATTAAATGGTGATTTAGTAGCTTACCATTGTTGATTAAATGGGTGATTTGGTGGCTTAC
CATTGTTGACTAAATGGGAGATTTGGTAGCTTACCA
Found at i:37711 original size:34 final size:34
Alignment explanation
Indices: 37642--37859 Score: 287
Period size: 34 Copynumber: 6.5 Consensus size: 34
37632 AAGTGGGAGA
* * *
37642 ATTGTTGATTAAAT-GGTGATTTAGTAGTTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* * * *
37675 ATTGTTGATTAAATGGGTGATTTGGTGGTTTGCC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
*
37709 ATTGTTGACTAAAT-GGAGATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
*
37742 ATTGTTGATTAAATGGGAAATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* *
37776 ATTGTTGATTAAATGGGTGATTTGGTGGCTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* * **
37810 ATTGTTGACTAAATGGGAGATTTGGTAGGTTGTC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
37844 ATTGTTGATTAAATGG
1 ATTGTTGATTAAATGG
37860 TGGTTTTTAC
Statistics
Matches: 163, Mismatches: 20, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
33 42 0.26
34 121 0.74
ACGTcount: A:0.25, C:0.07, G:0.27, T:0.41
Consensus pattern (34 bp):
ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
Found at i:37750 original size:67 final size:66
Alignment explanation
Indices: 37642--37861 Score: 305
Period size: 67 Copynumber: 3.3 Consensus size: 66
37632 AAGTGGGAGA
* * *
37642 ATTGTTGATTAAATGGTGATTTAGTAGTTTACCATTGTTGATTAAATGGGTGATTTGGTGGTTTG
1 ATTGTTGATTAAATGGTGATTTGGTAGCTTACCATTGTTGATTAAATGGGAGATTTGGTGG-TTG
37707 CC
65 CC
* * * * *
37709 ATTGTTGACTAAATGGAGATTTGGTAGCTTACCATTGTTGATTAAATGGGAAATTTGGTAGCTTA
1 ATTGTTGATTAAATGGTGATTTGGTAGCTTACCATTGTTGATTAAATGGGAGATTTGGT-GGTTG
37774 CC
65 CC
* *
37776 ATTGTTGATTAAATGGGTGATTTGGTGGCTTACCATTGTTGACTAAATGGGAGATTTGGTAGGTT
1 ATTGTTGATTAAAT-GGTGATTTGGTAGCTTACCATTGTTGATTAAATGGGAGATTTGGT-GGTT
*
37841 GTC
64 GCC
37844 ATTGTTGATTAAATGGTG
1 ATTGTTGATTAAATGGTG
37862 GTTTTTACCA
Statistics
Matches: 135, Mismatches: 16, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
67 74 0.55
68 61 0.45
ACGTcount: A:0.25, C:0.07, G:0.27, T:0.41
Consensus pattern (66 bp):
ATTGTTGATTAAATGGTGATTTGGTAGCTTACCATTGTTGATTAAATGGGAGATTTGGTGGTTGC
C
Found at i:37788 original size:101 final size:101
Alignment explanation
Indices: 37642--37861 Score: 345
Period size: 101 Copynumber: 2.2 Consensus size: 101
37632 AAGTGGGAGA
* * *
37642 ATTGTTGATTAAATGGTGATTTAGTAGTTTACCATTGTTGATTAAATGGGTGATTTGGTGGTTTG
1 ATTGTTGATTAAATGGTGATTTAGTAGCTTACCATTGTTGATTAAATGGGTGATTTGGTGGCTTA
37707 CCATTGTTGACTAAAT-GGAGATTTGGTAGCTTACC
66 CCATTGTTGACTAAATGGGAGATTTGGTAGCTTACC
*
37742 ATTGTTGATTAAATGG-GAAATTTGGTAGCTTACCATTGTTGATTAAATGGGTGATTTGGTGGCT
1 ATTGTTGATTAAATGGTG--ATTTAGTAGCTTACCATTGTTGATTAAATGGGTGATTTGGTGGCT
* **
37806 TACCATTGTTGACTAAATGGGAGATTTGGTAGGTTGTC
64 TACCATTGTTGACTAAATGGGAGATTTGGTAGCTTACC
37844 ATTGTTGATTAAATGGTG
1 ATTGTTGATTAAATGGTG
37862 GTTTTTACCA
Statistics
Matches: 109, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
99 1 0.01
100 16 0.15
101 59 0.54
102 32 0.29
103 1 0.01
ACGTcount: A:0.25, C:0.07, G:0.27, T:0.41
Consensus pattern (101 bp):
ATTGTTGATTAAATGGTGATTTAGTAGCTTACCATTGTTGATTAAATGGGTGATTTGGTGGCTTA
CCATTGTTGACTAAATGGGAGATTTGGTAGCTTACC
Found at i:40234 original size:34 final size:34
Alignment explanation
Indices: 40188--40372 Score: 241
Period size: 34 Copynumber: 5.5 Consensus size: 34
40178 GTAAAAACCA
* *
40188 CCATTTAATCAACAATGGCAACCTACCAAATCTC
1 CCATTTAATCAACAATGGTAACCTACCAAATCAC
*
40222 CCATTTAGTCAACAATGGTAAGCC-ACCAAATCAC
1 CCATTTAATCAACAATGGTAA-CCTACCAAATCAC
* **
40256 CCATTTAATCAACAATGGTAAGCTACCAAATTTC
1 CCATTTAATCAACAATGGTAACCTACCAAATCAC
* *
40290 CCATTTAGTCAACAATGGCAAACC-ACCAAATCAC
1 CCATTTAATCAACAATGG-TAACCTACCAAATCAC
* *
40324 CCATTTAATCAACAATGGTAAACTACTAAATCA-
1 CCATTTAATCAACAATGGTAACCTACCAAATCAC
40357 CCATTTAATCAACAAT
1 CCATTTAATCAACAAT
40373 TCTCCCACTT
Statistics
Matches: 131, Mismatches: 16, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
33 20 0.15
34 106 0.81
35 5 0.04
ACGTcount: A:0.41, C:0.28, G:0.08, T:0.24
Consensus pattern (34 bp):
CCATTTAATCAACAATGGTAACCTACCAAATCAC
Found at i:40273 original size:68 final size:68
Alignment explanation
Indices: 40188--40372 Score: 282
Period size: 68 Copynumber: 2.7 Consensus size: 68
40178 GTAAAAACCA
* * * *
40188 CCATTTAATCAACAATGGCAACCTACCAAATCTCCCATTTAGTCAACAATGGTAAGCCACCAAAT
1 CCATTTAATCAACAATGGTAAACTACCAAATCTCCCATTTAGTCAACAATGGCAAACCACCAAAT
40253 CAC
66 CAC
* *
40256 CCATTTAATCAACAATGGTAAGCTACCAAATTTCCCATTTAGTCAACAATGGCAAACCACCAAAT
1 CCATTTAATCAACAATGGTAAACTACCAAATCTCCCATTTAGTCAACAATGGCAAACCACCAAAT
40321 CAC
66 CAC
* * *
40324 CCATTTAATCAACAATGGTAAACTACTAAATC-ACCATTTAATCAACAAT
1 CCATTTAATCAACAATGGTAAACTACCAAATCTCCCATTTAGTCAACAAT
40373 TCTCCCACTT
Statistics
Matches: 107, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
67 15 0.14
68 92 0.86
ACGTcount: A:0.41, C:0.28, G:0.08, T:0.24
Consensus pattern (68 bp):
CCATTTAATCAACAATGGTAAACTACCAAATCTCCCATTTAGTCAACAATGGCAAACCACCAAAT
CAC
Found at i:40330 original size:102 final size:101
Alignment explanation
Indices: 40188--40372 Score: 291
Period size: 102 Copynumber: 1.8 Consensus size: 101
40178 GTAAAAACCA
* * *
40188 CCATTTAATCAACAATGGCAACCTACCAAATCTCCCATTTAGTCAACAATGGTAAGCCACCAAAT
1 CCATTTAATCAACAATGGCAACCTACCAAATCACCCATTTAATCAACAATGGTAAACCACCAAAT
40253 CACCCATTTAATCAACAATGGTAAGCTACCAAATTTC
66 CA-CCATTTAATCAACAATGGTAAGCTACCAAATTTC
* * *
40290 CCATTTAGTCAACAATGGCAAACC-ACCAAATCACCCATTTAATCAACAATGGTAAACTACTAAA
1 CCATTTAATCAACAATGGC-AACCTACCAAATCACCCATTTAATCAACAATGGTAAACCACCAAA
40354 TCACCATTTAATCAACAAT
65 TCACCATTTAATCAACAAT
40373 TCTCCCACTT
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
101 16 0.21
102 56 0.74
103 4 0.05
ACGTcount: A:0.41, C:0.28, G:0.08, T:0.24
Consensus pattern (101 bp):
CCATTTAATCAACAATGGCAACCTACCAAATCACCCATTTAATCAACAATGGTAAACCACCAAAT
CACCATTTAATCAACAATGGTAAGCTACCAAATTTC
Found at i:44501 original size:19 final size:19
Alignment explanation
Indices: 44445--44501 Score: 87
Period size: 19 Copynumber: 3.0 Consensus size: 19
44435 TACAGTAACC
* *
44445 GTATACTTGAATAGTACCC
1 GTATACGTGAATAGTACCT
*
44464 ATATACGTGAATAGTACCT
1 GTATACGTGAATAGTACCT
44483 GTATACGTGAATAGTACCT
1 GTATACGTGAATAGTACCT
44502 CGATAACCAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.32
Consensus pattern (19 bp):
GTATACGTGAATAGTACCT
Found at i:44845 original size:34 final size:34
Alignment explanation
Indices: 44799--44984 Score: 234
Period size: 34 Copynumber: 5.5 Consensus size: 34
44789 GTAAAAACCA
* *
44799 CCATTTAATCAACAATGGCAACCTACCAAATCTC
1 CCATTTAATCAACAATGGTAACCTACCAAATCAC
*
44833 CCATTTAGTCAACAATGGTAAGCC-ACCAAATCAC
1 CCATTTAATCAACAATGGTAA-CCTACCAAATCAC
* * **
44867 CCATTTTATCAACAATGGTAAGCTACCAAATTTC
1 CCATTTAATCAACAATGGTAACCTACCAAATCAC
* *
44901 CCATTTAGTCAACAATGGCAAACC-ACCAAATCAC
1 CCATTTAATCAACAATGG-TAACCTACCAAATCAC
* *
44935 CCATTTAATCAACAATGGTAAACTACTAAATCA-
1 CCATTTAATCAACAATGGTAACCTACCAAATCAC
44968 CCATTTAATCAACAATG
1 CCATTTAATCAACAATG
44985 AACAAATTCT
Statistics
Matches: 130, Mismatches: 18, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
33 21 0.16
34 104 0.80
35 5 0.04
ACGTcount: A:0.40, C:0.27, G:0.08, T:0.25
Consensus pattern (34 bp):
CCATTTAATCAACAATGGTAACCTACCAAATCAC
Found at i:44893 original size:68 final size:68
Alignment explanation
Indices: 44799--44984 Score: 275
Period size: 68 Copynumber: 2.8 Consensus size: 68
44789 GTAAAAACCA
* * * *
44799 CCATTTAATCAACAATGGCAACCTACCAAATCTCCCATTTAGTCAACAATGGTAAGCCACCAAAT
1 CCATTTAATCAACAATGGTAAACTACCAAATCTCCCATTTAGTCAACAATGGCAAACCACCAAAT
44864 CAC
66 CAC
* * *
44867 CCATTTTATCAACAATGGTAAGCTACCAAATTTCCCATTTAGTCAACAATGGCAAACCACCAAAT
1 CCATTTAATCAACAATGGTAAACTACCAAATCTCCCATTTAGTCAACAATGGCAAACCACCAAAT
44932 CAC
66 CAC
* * *
44935 CCATTTAATCAACAATGGTAAACTACTAAATC-ACCATTTAATCAACAATG
1 CCATTTAATCAACAATGGTAAACTACCAAATCTCCCATTTAGTCAACAATG
44985 AACAAATTCT
Statistics
Matches: 106, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
67 16 0.15
68 90 0.85
ACGTcount: A:0.40, C:0.27, G:0.08, T:0.25
Consensus pattern (68 bp):
CCATTTAATCAACAATGGTAAACTACCAAATCTCCCATTTAGTCAACAATGGCAAACCACCAAAT
CAC
Found at i:44941 original size:102 final size:101
Alignment explanation
Indices: 44799--44984 Score: 284
Period size: 102 Copynumber: 1.8 Consensus size: 101
44789 GTAAAAACCA
* * *
44799 CCATTTAATCAACAATGGCAACCTACCAAATCTCCCATTTAGTCAACAATGGTAAGCCACCAAAT
1 CCATTTAATCAACAATGGCAACCTACCAAATCACCCATTTAATCAACAATGGTAAACCACCAAAT
*
44864 CACCCATTTTATCAACAATGGTAAGCTACCAAATTTC
66 CA-CCATTTAATCAACAATGGTAAGCTACCAAATTTC
* * *
44901 CCATTTAGTCAACAATGGCAAACC-ACCAAATCACCCATTTAATCAACAATGGTAAACTACTAAA
1 CCATTTAATCAACAATGGC-AACCTACCAAATCACCCATTTAATCAACAATGGTAAACCACCAAA
44965 TCACCATTTAATCAACAATG
65 TCACCATTTAATCAACAATG
44985 AACAAATTCT
Statistics
Matches: 76, Mismatches: 7, Indels: 3
0.88 0.08 0.03
Matches are distributed among these distances:
101 16 0.21
102 56 0.74
103 4 0.05
ACGTcount: A:0.40, C:0.27, G:0.08, T:0.25
Consensus pattern (101 bp):
CCATTTAATCAACAATGGCAACCTACCAAATCACCCATTTAATCAACAATGGTAAACCACCAAAT
CACCATTTAATCAACAATGGTAAGCTACCAAATTTC
Found at i:45287 original size:2 final size:2
Alignment explanation
Indices: 45280--45312 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
45270 GTTAACAAAC
45280 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
45313 GAAATTTTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:45852 original size:2 final size:2
Alignment explanation
Indices: 45776--45833 Score: 89
Period size: 2 Copynumber: 29.0 Consensus size: 2
45766 AATCCTTTTG
* * *
45776 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT AC AT AT AC
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
45818 AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT
45834 GGCTATATGA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:47630 original size:49 final size:49
Alignment explanation
Indices: 47566--47746 Score: 251
Period size: 49 Copynumber: 3.7 Consensus size: 49
47556 GTTTCGTGAG
* * * *
47566 AAAATCAAGTTTTTTAAGGTTAGTATTT-TACTTTTTGTTAATATTGACC
1 AAAATCGAGTCTTTTAAAGTTAGT-TTTGTACTTTTTGTCAATATTGACC
47615 AAAATCGAGTCTTTTAAAGTCT-GTTTTGTACTTTTTGTCAATATTGACC
1 AAAATCGAGTCTTTTAAAGT-TAGTTTTGTACTTTTTGTCAATATTGACC
*
47664 AAAATCGAGTCTTTTAAAGTTTGTTTTGTACTTTTTGTCAATATTGACC
1 AAAATCGAGTCTTTTAAAGTTAGTTTTGTACTTTTTGTCAATATTGACC
* **
47713 AAAATTGAGTCTTTTAGGGTTAGTTTTGTA-TTTT
1 AAAATCGAGTCTTTTAAAGTTAGTTTTGTACTTTT
47747 AAAGTCGAGT
Statistics
Matches: 121, Mismatches: 8, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
48 8 0.07
49 112 0.93
50 1 0.01
ACGTcount: A:0.27, C:0.10, G:0.15, T:0.48
Consensus pattern (49 bp):
AAAATCGAGTCTTTTAAAGTTAGTTTTGTACTTTTTGTCAATATTGACC
Found at i:47823 original size:49 final size:47
Alignment explanation
Indices: 47765--47952 Score: 137
Period size: 49 Copynumber: 3.9 Consensus size: 47
47755 GTCTTCAAAG
* **
47765 GTTTGGTACTTTTTGTCAAAATCGACCAAAATTGAGCTTTTTGAGGTTA
1 GTTTTGTACTTTTAATCAAAATCGACCAAAATTGAGC-TTTT-AGGTTA
* * * *
47814 TTTTTGTACTTTTCATTAAAA-CGGACCAAAATTG-TCTTTTAGGTTA
1 GTTTTGTACTTTTAATCAAAATC-GACCAAAATTGAGCTTTTAGGTTA
* * ** *
47860 GTTTTGCACTTTCAATCAAAATTAACCAAAATTGATTCTTTTAGGGTTA
1 GTTTTGTACTTTTAATCAAAATCGACCAAAATTGA-GCTTTTA-GGTTA
* * ** * * * *
47909 GTTTTATGCTTACAATCAAAACCAACCAAAATCGAGCTTCTAGG
1 GTTTTGTACTTTTAATCAAAATCGACCAAAATTGAGCTTTTAGG
47953 GTTATGTGGG
Statistics
Matches: 112, Mismatches: 22, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
46 32 0.29
47 6 0.05
48 14 0.12
49 60 0.54
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.39
Consensus pattern (47 bp):
GTTTTGTACTTTTAATCAAAATCGACCAAAATTGAGCTTTTAGGTTA
Found at i:50526 original size:21 final size:18
Alignment explanation
Indices: 50501--50546 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 18
50491 ATAAAGAGAG
50501 AAAAAGTAAAGAAAAAGACA
1 AAAAAG-AAAGAAAAAGA-A
50521 AGAAAAG-AA-AAAAAGAA
1 A-AAAAGAAAGAAAAAGAA
50538 AAAAAGAAA
1 AAAAAGAAA
50547 AGAGAGTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
16 5 0.21
17 4 0.17
18 7 0.29
19 2 0.08
20 1 0.04
21 5 0.21
ACGTcount: A:0.80, C:0.02, G:0.15, T:0.02
Consensus pattern (18 bp):
AAAAAGAAAGAAAAAGAA
Found at i:50536 original size:8 final size:8
Alignment explanation
Indices: 50512--50547 Score: 54
Period size: 8 Copynumber: 4.2 Consensus size: 8
50502 AAAAGTAAAG
50512 AAAAAGACA
1 AAAAAGA-A
50521 AGAAAAGAA
1 A-AAAAGAA
50530 AAAAAGAA
1 AAAAAGAA
50538 AAAAAGAA
1 AAAAAGAA
50546 AA
1 AA
50548 GAGAGTATTC
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
8 17 0.65
9 3 0.12
10 6 0.23
ACGTcount: A:0.83, C:0.03, G:0.14, T:0.00
Consensus pattern (8 bp):
AAAAAGAA
Found at i:51233 original size:76 final size:76
Alignment explanation
Indices: 51151--51291 Score: 187
Period size: 76 Copynumber: 1.9 Consensus size: 76
51141 TTTCCTGAAA
* * * *
51151 TATTTTCATGCATATTAGA-GA-CTATTTAGCAATTTTCATGCATGTTAGGGTTTTTTAGGTTAT
1 TATTTTCATGCAAATTA-ATGATC-ACTTAGCAATTTTCATGCATGTTAGGGTTATTTAGGCTAT
51214 TTGGGTCATTAGC
64 TTGGGTCATTAGC
* * *
51227 TATTTTCATGCAAATTAATGATCACTTAGCAATTTTCATGCCTTTTATGGTTATTTAGGCTATTT
1 TATTTTCATGCAAATTAATGATCACTTAGCAATTTTCATGCATGTTAGGGTTATTTAGGCTATTT
51292 TATATAATCT
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
75 1 0.02
76 54 0.96
77 1 0.02
ACGTcount: A:0.25, C:0.12, G:0.16, T:0.47
Consensus pattern (76 bp):
TATTTTCATGCAAATTAATGATCACTTAGCAATTTTCATGCATGTTAGGGTTATTTAGGCTATTT
GGGTCATTAGC
Found at i:51523 original size:49 final size:48
Alignment explanation
Indices: 51468--51767 Score: 308
Period size: 49 Copynumber: 6.2 Consensus size: 48
51458 AAATCAAGTT
* *
51468 GTTTTGTACTTTTTGTCAATACTGACCAAAATTGAGTCTTTTAGGGTTA
1 GTTTTGTACTTTTTATCAA-ATTGACCAAAATTGAGTCTTTTAGGGTTA
* * * * * **
51517 GCTTTGTA-TTTTTCGTCACAATTGA-CAAAGTCGAGTC-TTCAAAG---
1 GTTTTGTACTTTTT-ATCA-AATTGACCAAAATTGAGTCTTTTAGGGTTA
* * * *
51561 GTTTTGTAATTTTTAACAAAATCGACTAAAATTGAGTCTTTTAGGGTTA
1 GTTTTGTACTTTTTATC-AAATTGACCAAAATTGAGTCTTTTAGGGTTA
* * *
51610 TTTTTGTACTTTCTATCCAAACTT-ACCAAAATTGTGTCTTTTAGGGTTA
1 GTTTTGTACTTTTTAT-CAAA-TTGACCAAAATTGAGTCTTTTAGGGTTA
*
51659 GTTTTGTACTTTTTATCAAAATTGACCAAAATTGATTCTTTTAGGGTTA
1 GTTTTGTACTTTTTATC-AAATTGACCAAAATTGAGTCTTTTAGGGTTA
*
51708 GTTTTGTACTTTTTATCAAAATTGACCAAAATTGATTCTTTTAGGGTTA
1 GTTTTGTACTTTTTATC-AAATTGACCAAAATTGAGTCTTTTAGGGTTA
*
51757 GTTTTGGACTT
1 GTTTTGTACTT
51768 ACAATCAAAA
Statistics
Matches: 209, Mismatches: 29, Indels: 26
0.79 0.11 0.10
Matches are distributed among these distances:
44 13 0.06
45 15 0.07
46 4 0.02
47 4 0.02
48 18 0.09
49 152 0.73
50 3 0.01
ACGTcount: A:0.27, C:0.12, G:0.16, T:0.45
Consensus pattern (48 bp):
GTTTTGTACTTTTTATCAAATTGACCAAAATTGAGTCTTTTAGGGTTA
Found at i:53892 original size:22 final size:24
Alignment explanation
Indices: 53866--53924 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 24
53856 TTGTTTGTTG
* *
53866 TTCATGAACATAT-TTTTTAT-TA
1 TTCATGAACATATCGTATTATATA
* * *
53888 TTCATAAACGTATCGTATTATATG
1 TTCATGAACATATCGTATTATATA
53912 TTCATGAACATAT
1 TTCATGAACATAT
53925 ATATTTAAGG
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
22 11 0.39
23 5 0.18
24 12 0.43
ACGTcount: A:0.34, C:0.12, G:0.08, T:0.46
Consensus pattern (24 bp):
TTCATGAACATATCGTATTATATA
Found at i:53929 original size:23 final size:23
Alignment explanation
Indices: 53864--53944 Score: 67
Period size: 23 Copynumber: 3.5 Consensus size: 23
53854 TTTTGTTTGT
* *
53864 TGTTCATGAACATATTTTTTAT-
1 TGTTCATGAACATATATATTATA
* * * *
53886 TATTCATAAACGTATCGTATTATA
1 TGTTCATGAACATAT-ATATTATA
53910 TGTTCATGAACATATATATT-TAA
1 TGTTCATGAACATATATATTAT-A
*
53933 GGTTCATGAACA
1 TGTTCATGAACA
53945 AATTTATTTA
Statistics
Matches: 46, Mismatches: 10, Indels: 5
0.75 0.16 0.08
Matches are distributed among these distances:
22 13 0.28
23 21 0.46
24 12 0.26
ACGTcount: A:0.35, C:0.11, G:0.11, T:0.43
Consensus pattern (23 bp):
TGTTCATGAACATATATATTATA
Found at i:53952 original size:23 final size:23
Alignment explanation
Indices: 53911--53955 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
53901 CGTATTATAT
*
53911 GTTCATGAACATATATATTTAAG
1 GTTCATGAACAAATATATTTAAG
*
53934 GTTCATGAACAAATTTATTTAA
1 GTTCATGAACAAATATATTTAA
53956 TTTAAATTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.40, C:0.09, G:0.11, T:0.40
Consensus pattern (23 bp):
GTTCATGAACAAATATATTTAAG
Found at i:57176 original size:34 final size:35
Alignment explanation
Indices: 57098--57177 Score: 99
Period size: 34 Copynumber: 2.3 Consensus size: 35
57088 TTATTAAGTG
* * *
57098 TGTTAGGTGAAACATATTAGGTGTGTTAGGTGATG
1 TGTTAGGTGAGACATATTAGGTGTGTTAGGTAATA
* * *
57133 TATTTGGTGAGA-ATGTTAGGTGTGTTAGGTAATA
1 TGTTAGGTGAGACATATTAGGTGTGTTAGGTAATA
57167 TGTTAGGTGAG
1 TGTTAGGTGAG
57178 CTAGATATTT
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
34 28 0.76
35 9 0.24
ACGTcount: A:0.25, C:0.01, G:0.35, T:0.39
Consensus pattern (35 bp):
TGTTAGGTGAGACATATTAGGTGTGTTAGGTAATA
Found at i:61113 original size:30 final size:30
Alignment explanation
Indices: 61079--61156 Score: 104
Period size: 30 Copynumber: 2.6 Consensus size: 30
61069 AAGGTTATTT
61079 GGATCATTTAGCTATTTTCATGCAAATTAA
1 GGATCATTTAGCTATTTTCATGCAAATTAA
* **
61109 GGATCATTTAGCAATTTTCATGCATTTTAA
1 GGATCATTTAGCTATTTTCATGCAAATTAA
*
61139 GG-TTATTTAGGCTATTTT
1 GGATCATTTA-GCTATTTT
61157 ATATAATCTA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
29 6 0.14
30 36 0.86
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (30 bp):
GGATCATTTAGCTATTTTCATGCAAATTAA
Found at i:61353 original size:49 final size:49
Alignment explanation
Indices: 61272--61591 Score: 226
Period size: 49 Copynumber: 6.6 Consensus size: 49
61262 GTTTCGTGAG
* * *
61272 AAAATCAAGTTTTTTAAGGTTAGTATTT-TACTTTTTGTTAATATTTACC
1 AAAATCAAGTCTTTTAAGGTTAGT-TTTGTACTTTTTGTCAATATTGACC
* * *
61321 AAAATCGAGTCTTTTAAGGTTTGTTTTGTACTTTTTGTCAATATTGAGC
1 AAAATCAAGTCTTTTAAGGTTAGTTTTGTACTTTTTGTCAATATTGACC
* * *
61370 AAAATCAAGTGTTTTAGGGTTAGTTTTGTA-TTTTTCGTCACA-ATTGACT
1 AAAATCAAGTCTTTTAAGGTTAGTTTTGTACTTTTT-GTCA-ATATTGACC
* * * * *
61419 AAAGTCGAGTC-TTCAAAG---GTTTTGTACTTTTTGTCAAAATTGACC
1 AAAATCAAGTCTTTTAAGGTTAGTTTTGTACTTTTTGTCAATATTGACC
** * * * * * * **
61464 AAAATTGAG-CTTTTTAGGGTTATTTTTATACTTGTTATCAAAACGGACC
1 AAAATCAAGTC-TTTTAAGGTTAGTTTTGTACTTTTTGTCAATATTGACC
*** * *** *
61513 AAAATTGTGTCTTTT-AGGTTAGTTTTGCACTTTCAATCAAAATTGACC
1 AAAATCAAGTCTTTTAAGGTTAGTTTTGTACTTTTTGTCAATATTGACC
** *
61561 AAAATTGATTCTTTTAAGGTTAGTTTTGTAC
1 AAAATCAAGTCTTTTAAGGTTAGTTTTGTAC
61592 CTACAATCAA
Statistics
Matches: 216, Mismatches: 43, Indels: 24
0.76 0.15 0.08
Matches are distributed among these distances:
44 2 0.01
45 25 0.12
46 9 0.04
48 49 0.23
49 129 0.60
50 2 0.01
ACGTcount: A:0.28, C:0.11, G:0.16, T:0.44
Consensus pattern (49 bp):
AAAATCAAGTCTTTTAAGGTTAGTTTTGTACTTTTTGTCAATATTGACC
Found at i:61525 original size:94 final size:94
Alignment explanation
Indices: 61343--61517 Score: 201
Period size: 94 Copynumber: 1.9 Consensus size: 94
61333 TTTAAGGTTT
* * * * *
61343 GTTTTGTACTTTTTGTCAATATTGAGCAAAATCAAGTGTTTTAGGGTTAGTTTTGTATTTTTCGT
1 GTTTTGTACTTTTTGTCAAAATTGACCAAAATCAAGTGTTTTAGGGTTAGTTTTATATTGTTCAT
* ** * *
61408 CACAATTGACTAAAGTCGAGTCTTCAAAG
66 CAAAACGGACCAAAATCGAGTCTTCAAAG
** *
61437 GTTTTGTACTTTTTGTCAAAATTGACCAAAATTGAGCT-TTTTAGGGTTATTTTTATACTTGTT-
1 GTTTTGTACTTTTTGTCAAAATTGACCAAAATCAAG-TGTTTTAGGGTTAGTTTTATA-TTGTTC
61500 ATCAAAACGGACCAAAAT
64 ATCAAAACGGACCAAAAT
61518 TGTGTCTTTT
Statistics
Matches: 66, Mismatches: 13, Indels: 4
0.80 0.16 0.05
Matches are distributed among these distances:
94 61 0.92
95 5 0.08
ACGTcount: A:0.29, C:0.12, G:0.17, T:0.42
Consensus pattern (94 bp):
GTTTTGTACTTTTTGTCAAAATTGACCAAAATCAAGTGTTTTAGGGTTAGTTTTATATTGTTCAT
CAAAACGGACCAAAATCGAGTCTTCAAAG
Found at i:61611 original size:49 final size:48
Alignment explanation
Indices: 61500--61614 Score: 142
Period size: 49 Copynumber: 2.4 Consensus size: 48
61490 TATACTTGTT
* * *
61500 ATCAAAACGGACCAAAATTGTGTCTTTTAGGTTAGTTTTGCACTTTCA
1 ATCAAAACCGACCAAAATTGTGTCTTTTAGGTTAGTTTTGCACCTACA
** *
61548 ATCAAAATTGACCAAAATTGAT-TCTTTTAAGGTTAGTTTTGTACCTACA
1 ATCAAAACCGACCAAAATTG-TGTCTTTT-AGGTTAGTTTTGCACCTACA
*
61597 ATCAAAACCAACCAAAAT
1 ATCAAAACCGACCAAAAT
61615 AAAGCTTCTA
Statistics
Matches: 57, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
48 24 0.42
49 33 0.58
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.34
Consensus pattern (48 bp):
ATCAAAACCGACCAAAATTGTGTCTTTTAGGTTAGTTTTGCACCTACA
Found at i:67328 original size:2 final size:2
Alignment explanation
Indices: 67271--67309 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
67261 ATCCTTTTGG
* *
67271 TA TA TA TA TA TA TA TA TA CA TA TA CA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
67310 GGCTATATGA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:69120 original size:49 final size:49
Alignment explanation
Indices: 69039--69357 Score: 215
Period size: 49 Copynumber: 6.6 Consensus size: 49
69029 GTTTCGTGAG
* * *
69039 AAAATCAAGTTTTTTAAGGTTAGTATTT-TACTTTTTGTTAATATTTACC
1 AAAATCAAGTCTTTTAAGGTTAGT-TTTGTACTTTTTGTCAATATTGACC
* * *
69088 AAAATCGAGTCTTTTAAGGTTTGTTTTGTACTTTTTGTCAATATTGAGC
1 AAAATCAAGTCTTTTAAGGTTAGTTTTGTACTTTTTGTCAATATTGACC
* * *
69137 AAAATCAAGTGTTTTAGGGTTAGTTTTGTA-TTTTTCGTCACA-ATTGACT
1 AAAATCAAGTCTTTTAAGGTTAGTTTTGTACTTTTT-GTCA-ATATTGACC
* * * * *
69186 AAAGTCGAGTC-TTCAAAG---GTTTTGTACTTTTTGTCAAAATTGACC
1 AAAATCAAGTCTTTTAAGGTTAGTTTTGTACTTTTTGTCAATATTGACC
** * * * * * * * **
69231 AAAATTGAGTTTTTTAGGGTTATTTTTATACTTGTTATCAAAACGGACC
1 AAAATCAAGTCTTTTAAGGTTAGTTTTGTACTTTTTGTCAATATTGACC
*** * *** *
69280 AAAATTGTGTC-TTT-AGGTTAGTTTTGCACTTTCAATCAAAATTGACC
1 AAAATCAAGTCTTTTAAGGTTAGTTTTGTACTTTTTGTCAATATTGACC
** * *
69327 AAAATTGATTCTTTTAAGGTTACTTTTGTAC
1 AAAATCAAGTCTTTTAAGGTTAGTTTTGTAC
69358 CTACAATCAA
Statistics
Matches: 213, Mismatches: 46, Indels: 22
0.76 0.16 0.08
Matches are distributed among these distances:
44 1 0.00
45 26 0.12
46 9 0.04
47 33 0.15
48 18 0.08
49 125 0.59
50 1 0.00
ACGTcount: A:0.29, C:0.11, G:0.16, T:0.45
Consensus pattern (49 bp):
AAAATCAAGTCTTTTAAGGTTAGTTTTGTACTTTTTGTCAATATTGACC
Found at i:69292 original size:94 final size:94
Alignment explanation
Indices: 69085--69353 Score: 211
Period size: 94 Copynumber: 2.8 Consensus size: 94
69075 GTTAATATTT
* * * ** *
69085 ACCAAAATCGAGTCTTTTAAGGTTTGTTTTGTACTTTTTGTCAATATTGAGCAAAATCAAGTGTT
1 ACCAAAATCGAGTC--TTAAAG--TGTTTTGTACTTTTTGTCAAAATTGACCAAAATTGAGTTTT
* * * * * **
69150 TTAGGGTTAGTTTTGTATTTTTCGTCACAATTG
62 TTAGGGTTACTTTTATATTGTTCATCAAAACGG
* *
69183 ACTAAAGTCGAGTCTTCAAAG-GTTTTGTACTTTTTGTCAAAATTGACCAAAATTGAGTTTTTTA
1 ACCAAAATCGAGTCTT-AAAGTGTTTTGTACTTTTTGTCAAAATTGACCAAAATTGAGTTTTTTA
*
69247 GGGTTATTTTTATACTTGTT-ATCAAAACGG
65 GGGTTACTTTTATA-TTGTTCATCAAAACGG
* * * * * ***
69277 ACCAAAATTGTGTCTTTAGGTTAGTTTTGCACTTTCAATCAAAATTGACCAAAATTGA-TTCTTT
1 ACCAAAATCGAGTCTTAAAG-T-GTTTTGTACTTTTTGTCAAAATTGACCAAAATTGAGTT-TTT
*
69341 TAAGGTTACTTTT
63 TAGGGTTACTTTT
69354 GTACCTACAA
Statistics
Matches: 138, Mismatches: 27, Indels: 14
0.77 0.15 0.08
Matches are distributed among these distances:
93 2 0.01
94 68 0.49
95 6 0.04
96 47 0.34
97 3 0.02
98 12 0.09
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.43
Consensus pattern (94 bp):
ACCAAAATCGAGTCTTAAAGTGTTTTGTACTTTTTGTCAAAATTGACCAAAATTGAGTTTTTTAG
GGTTACTTTTATATTGTTCATCAAAACGG
Found at i:69377 original size:49 final size:47
Alignment explanation
Indices: 69267--69380 Score: 122
Period size: 49 Copynumber: 2.4 Consensus size: 47
69257 TATACTTGTT
* * * *
69267 ATCAAAACGGACCAAAATTGTGTCTTTAGGTTAGTTTTGCACTTTCA
1 ATCAAAACCGACCAAAATTGTGTCTTTAGGTTACTTTTGCACCTACA
** *
69314 ATCAAAATTGACCAAAATTGAT-TCTTTTAAGGTTACTTTTGTACCTACA
1 ATCAAAACCGACCAAAATTG-TGTC-TTT-AGGTTACTTTTGCACCTACA
*
69363 ATCAAAACCAACCAAAAT
1 ATCAAAACCGACCAAAAT
69381 AAAGCTTCTA
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
47 20 0.36
48 4 0.07
49 31 0.56
ACGTcount: A:0.37, C:0.18, G:0.11, T:0.33
Consensus pattern (47 bp):
ATCAAAACCGACCAAAATTGTGTCTTTAGGTTACTTTTGCACCTACA
Found at i:71152 original size:23 final size:22
Alignment explanation
Indices: 71087--71177 Score: 76
Period size: 23 Copynumber: 4.0 Consensus size: 22
71077 TTTTTTTTGT
*
71087 TGTTCATGAACATAT-TTTTTA
1 TGTTCATGAACATATATATTTA
* * *
71108 GTATTCATAAACGTATCATATTATA
1 -TGTTCATGAACATAT-ATATT-TA
71133 TGTTCATGAACATATATATTTAA
1 TGTTCATGAACATATATATTT-A
* * *
71156 GGTTCATGAACAAATTTATTTA
1 TGTTCATGAACATATATATTTA
71178 ATTTAAATTG
Statistics
Matches: 55, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
22 14 0.25
23 24 0.44
24 15 0.27
25 2 0.04
ACGTcount: A:0.36, C:0.10, G:0.10, T:0.44
Consensus pattern (22 bp):
TGTTCATGAACATATATATTTA
Found at i:75052 original size:15 final size:15
Alignment explanation
Indices: 75032--75064 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
75022 ATTTATAATA
*
75032 TATTTTAAT-TTTAT
1 TATTTTTATATTTAT
75046 TATTTTTATATTTAT
1 TATTTTTATATTTAT
75061 TATT
1 TATT
75065 GAAAAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (15 bp):
TATTTTTATATTTAT
Found at i:80579 original size:15 final size:15
Alignment explanation
Indices: 80559--80591 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
80549 ATTTATAATA
*
80559 TATTTTAAT-TTTAT
1 TATTTTTATATTTAT
80573 TATTTTTATATTTAT
1 TATTTTTATATTTAT
80588 TATT
1 TATT
80592 GAAAAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (15 bp):
TATTTTTATATTTAT
Found at i:81888 original size:33 final size:34
Alignment explanation
Indices: 81822--81889 Score: 86
Period size: 34 Copynumber: 2.0 Consensus size: 34
81812 ATAATTTAAC
81822 AATAATATTAATTTATGTTTTATTTCATTTATTTAT
1 AATAATATT-ATTTATGTTTTATTT-ATTTATTTAT
*
81858 AATAATATT-TTTATTTTTTATTT-TTATATTTA
1 AATAATATTATTTATGTTTTATTTATT-TATTTA
81890 ACATTGAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
32 2 0.07
33 6 0.20
34 13 0.43
36 9 0.30
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.65
Consensus pattern (34 bp):
AATAATATTATTTATGTTTTATTTATTTATTTAT
Found at i:82973 original size:34 final size:34
Alignment explanation
Indices: 82927--83111 Score: 248
Period size: 34 Copynumber: 5.5 Consensus size: 34
82917 GTAAAAACCA
*
82927 CCATTTAATCAACAATGGCAACCTACCAAATCTC
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
* *
82961 CCATTTAGTCAACAATGGTAAACC-ACCAAATCAC
1 CCATTTAATCAACAATGGT-AACCTACCAAATCTC
* *
82995 CCATTTAATCAATAATGGTAAGCTACCAAATCTC
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
* * *
83029 CTATTTAATCAACAATGGTAAGCTACCAAATTTC
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
* * *
83063 CCATTTAGTCAACAATGGTAAACTACCAAATC-A
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
83096 CCATTTAATCAACAAT
1 CCATTTAATCAACAAT
83112 TCTCCCACTT
Statistics
Matches: 133, Mismatches: 16, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
33 18 0.14
34 111 0.83
35 4 0.03
ACGTcount: A:0.40, C:0.26, G:0.08, T:0.26
Consensus pattern (34 bp):
CCATTTAATCAACAATGGTAACCTACCAAATCTC
Found at i:87204 original size:19 final size:19
Alignment explanation
Indices: 87177--87239 Score: 90
Period size: 19 Copynumber: 3.3 Consensus size: 19
87167 TCACGTGTAC
* *
87177 AGTAACCGTATACTTGAAT
1 AGTACCCGTATACGTGAAT
87196 AGTACCCGTATACGTGAAT
1 AGTACCCGTATACGTGAAT
**
87215 AGTACCTATATACGTGAAT
1 AGTACCCGTATACGTGAAT
87234 AGTACC
1 AGTACC
87240 TCGACAACCA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 40 1.00
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (19 bp):
AGTACCCGTATACGTGAAT
Found at i:87592 original size:34 final size:34
Alignment explanation
Indices: 87546--87730 Score: 248
Period size: 34 Copynumber: 5.5 Consensus size: 34
87536 GTAAAAACCA
*
87546 CCATTTAATCAACAATGGCAACCTACCAAATCTC
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
* *
87580 CCATTTAGTCAACAATGGTAAACC-ACCAAATCAC
1 CCATTTAATCAACAATGGT-AACCTACCAAATCTC
* *
87614 CCATTTAATCAATAATGGTAAGCTACCAAATCTC
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
* * *
87648 CTATTTAATCAACAATGGTAAGCTACCAAATTTC
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
* * *
87682 CCATTTAGTCAACAATGGTAAACTACCAAATC-A
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
87715 CCATTTAATCAACAAT
1 CCATTTAATCAACAAT
87731 AATAAGTGCA
Statistics
Matches: 133, Mismatches: 16, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
33 18 0.14
34 111 0.83
35 4 0.03
ACGTcount: A:0.40, C:0.26, G:0.08, T:0.26
Consensus pattern (34 bp):
CCATTTAATCAACAATGGTAACCTACCAAATCTC
Found at i:88346 original size:2 final size:2
Alignment explanation
Indices: 88339--88367 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
88329 CATAAAAGGA
88339 AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
88368 TAGATGTTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:90306 original size:30 final size:29
Alignment explanation
Indices: 90270--90326 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 29
90260 TTCCTAAAAT
90270 ATTTTCATGCATATTAGAGACTATTTAGCA
1 ATTTTCATGCATATTAGAG-CTATTTAGCA
* *
90300 ATTTTCATGCATTTTAGAGTTATTTAG
1 ATTTTCATGCATATTAGAGCTATTTAG
90327 GTTATTTGGG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 7 0.28
30 18 0.72
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (29 bp):
ATTTTCATGCATATTAGAGCTATTTAGCA
Found at i:90600 original size:38 final size:38
Alignment explanation
Indices: 90549--90623 Score: 114
Period size: 38 Copynumber: 2.0 Consensus size: 38
90539 TTTAAGGCTA
*
90549 GTTTTATACTTTTTGTCAATATTGACCAAAATCGAGTT
1 GTTTTATACTTTTTGTCAATATCGACCAAAATCGAGTT
* * *
90587 GTTTTATATTTTTTGTCTATATCGACCAAAATTGAGT
1 GTTTTATACTTTTTGTCAATATCGACCAAAATCGAGT
90624 CTTTTAAGGT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.28, C:0.12, G:0.13, T:0.47
Consensus pattern (38 bp):
GTTTTATACTTTTTGTCAATATCGACCAAAATCGAGTT
Found at i:90723 original size:94 final size:96
Alignment explanation
Indices: 90607--90838 Score: 242
Period size: 98 Copynumber: 2.4 Consensus size: 96
90597 TTTTGTCTAT
* * * * * *
90607 ATCGACCAAAATTGAGTCTTTTAAGGTTAGTTTTT-TATTTTTCAT-CACAATTGACTAAAGTCG
1 ATCGACCAAAATTGAGT-TTTTAGGGTTAGTTTTTGTACTTTCCATCCA-AACTGACCAAAATCG
90670 AGTC-TTCAAAG-GTTTTGTACTTTCTATCAAA
64 AGTCTTTCAAAGTGTTTTGTACTTTCTATCAAA
* *
90701 ATCGACCAAAATTGAGCTTTTTAGGGTTA-TTTTTGTACTTTCCATCCAAACTGACCAAAATTGT
1 ATCGACCAAAATTGAG-TTTTTAGGGTTAGTTTTTGTACTTTCCATCCAAACTGACCAAAATCGA
* * * *
90765 GTCTTTTAGAGTTAGTTTTGTACTTTTTGTCAAA
65 GTCTTTCAAAG-T-GTTTTGTACTTTCTATCAAA
* *
90799 ATTGACCAAAATTGATTTTTTTAGGGTTAG-TTTTGTACTT
1 ATCGACCAAAATTGA-GTTTTTAGGGTTAGTTTTTGTACTT
90839 ACAATCAAAA
Statistics
Matches: 115, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
93 5 0.04
94 48 0.42
95 8 0.07
98 54 0.47
ACGTcount: A:0.28, C:0.14, G:0.15, T:0.44
Consensus pattern (96 bp):
ATCGACCAAAATTGAGTTTTTAGGGTTAGTTTTTGTACTTTCCATCCAAACTGACCAAAATCGAG
TCTTTCAAAGTGTTTTGTACTTTCTATCAAA
Found at i:90847 original size:49 final size:49
Alignment explanation
Indices: 90681--90848 Score: 203
Period size: 49 Copynumber: 3.4 Consensus size: 49
90671 GTCTTCAAAG
* **
90681 GTTTTGTACTTTCTATCAAAATCGACCAAAATTGAGCTTTTTAGGGTTA
1 GTTTTGTACTTTCTATCAAAATTGACCAAAATTGATTTTTTTAGGGTTA
* * * * * *
90730 TTTTTGTACTTTCCATCCAAACTGACCAAAATTG-TGTCTTTTAGAGTTA
1 GTTTTGTACTTTCTATCAAAATTGACCAAAATTGAT-TTTTTTAGGGTTA
* *
90779 GTTTTGTACTTTTTGTCAAAATTGACCAAAATTGATTTTTTTAGGGTTA
1 GTTTTGTACTTTCTATCAAAATTGACCAAAATTGATTTTTTTAGGGTTA
* *
90828 GTTTTGTACTTACAATCAAAA
1 GTTTTGTACTTTCTATCAAAA
90849 CCAACCAAAA
Statistics
Matches: 96, Mismatches: 21, Indels: 4
0.79 0.17 0.03
Matches are distributed among these distances:
49 95 0.99
50 1 0.01
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (49 bp):
GTTTTGTACTTTCTATCAAAATTGACCAAAATTGATTTTTTTAGGGTTA
Found at i:90856 original size:98 final size:98
Alignment explanation
Indices: 90681--90859 Score: 259
Period size: 98 Copynumber: 1.8 Consensus size: 98
90671 GTCTTCAAAG
* * *
90681 GTTTTGTACTTTCTATCAAAATCGACCAAAATTGAGCTTTTTAGGGTTATTTTTGTACTTTCCAT
1 GTTTTGTACTTTCTATCAAAATCGACCAAAATTGAGCTTTTTAGGGTTAGTTTTGTACTTACAAT
* **
90746 CCAAACTGACCAAAATTGTGTCTTTTAGAGTTA
66 CAAAACCAACCAAAATTGTGTCTTTTAGAGTTA
* * * **
90779 GTTTTGTACTTTTTGTCAAAATTGACCAAAATTGATTTTTTTAGGGTTAGTTTTGTACTTACAAT
1 GTTTTGTACTTTCTATCAAAATCGACCAAAATTGAGCTTTTTAGGGTTAGTTTTGTACTTACAAT
90844 CAAAACCAACCAAAAT
66 CAAAACCAACCAAAAT
90860 AAAGCTTCTA
Statistics
Matches: 70, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
98 70 1.00
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.41
Consensus pattern (98 bp):
GTTTTGTACTTTCTATCAAAATCGACCAAAATTGAGCTTTTTAGGGTTAGTTTTGTACTTACAAT
CAAAACCAACCAAAATTGTGTCTTTTAGAGTTA
Found at i:91662 original size:2 final size:2
Alignment explanation
Indices: 91655--91682 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
91645 CATTACGACA
91655 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
91683 TAATATAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:96043 original size:2 final size:2
Alignment explanation
Indices: 96036--96060 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
96026 GTTAACAAAC
96036 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
96061 GAATTTTAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:96585 original size:2 final size:2
Alignment explanation
Indices: 96524--96566 Score: 68
Period size: 2 Copynumber: 21.5 Consensus size: 2
96514 ATCCTTTTGG
* *
96524 TA TA TA TA TA TA TA TA TA TA CA TA TA CA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
96566 T
1 T
96567 GGCTATATGA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:98382 original size:49 final size:49
Alignment explanation
Indices: 98301--98620 Score: 210
Period size: 49 Copynumber: 6.6 Consensus size: 49
98291 GTTTCGTGAG
* * *
98301 AAAATCAAGTTTTTTAAGGTTAGTATTT-TACTTTTTGTTAATATTTACC
1 AAAATCAAGTCTTTTAAGGTTAGT-TTTGTACTTTTTGTCAATATTGACC
* * *
98350 AAAATCGAGTCTTTTAAGGTTTGTTTTGTACTTTTTGTCAATATTGAGC
1 AAAATCAAGTCTTTTAAGGTTAGTTTTGTACTTTTTGTCAATATTGACC
* * * *
98399 AAAATCAAGTGTTTCAGGGTTAGTTTTGTA-TTTTTCGTCACA-ATTGACT
1 AAAATCAAGTCTTTTAAGGTTAGTTTTGTACTTTTT-GTCA-ATATTGACC
* * * * *
98448 AAAGTCGAGTC-TTCAAAG---GTTTTGTACTTTTTGTCAAAATTGACC
1 AAAATCAAGTCTTTTAAGGTTAGTTTTGTACTTTTTGTCAATATTGACC
** * * * * * * **
98493 AAAATTGAG-CTTTTTAGGGTTATTTTTATACTTGTTATCAAAACGGACC
1 AAAATCAAGTC-TTTTAAGGTTAGTTTTGTACTTTTTGTCAATATTGACC
*** * *** *
98542 AAAATTGTGTCTTTT-AGGTTAGTTTTGCACTTTCAATCAAAATTGACC
1 AAAATCAAGTCTTTTAAGGTTAGTTTTGTACTTTTTGTCAATATTGACC
* *
98590 AAAAT-AGATTCTTTTAGGGTTAGTTTTGTAC
1 AAAATCA-AGTCTTTTAAGGTTAGTTTTGTAC
98621 CTACAATCAA
Statistics
Matches: 213, Mismatches: 45, Indels: 26
0.75 0.16 0.09
Matches are distributed among these distances:
44 2 0.01
45 25 0.12
46 9 0.04
48 48 0.23
49 127 0.60
50 2 0.01
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (49 bp):
AAAATCAAGTCTTTTAAGGTTAGTTTTGTACTTTTTGTCAATATTGACC
Found at i:98640 original size:49 final size:48
Alignment explanation
Indices: 98529--98644 Score: 135
Period size: 49 Copynumber: 2.4 Consensus size: 48
98519 TATACTTGTT
* * * *
98529 ATCAAAACGGACCAAAATTGTGTCTTTTAGGTTAGTTTTGCACTTTCA
1 ATCAAAACCGACCAAAATAGTGTCTTTTAGGTTAGTTTTGCACCTACA
** *
98577 ATCAAAATTGACCAAAATAGAT-TCTTTTAGGGTTAGTTTTGTACCTACA
1 ATCAAAACCGACCAAAATAG-TGTCTTTTA-GGTTAGTTTTGCACCTACA
*
98626 ATCAAAACCAACCAAAATA
1 ATCAAAACCGACCAAAATA
98645 AAGCTTCTAG
Statistics
Matches: 57, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
48 24 0.42
49 33 0.58
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (48 bp):
ATCAAAACCGACCAAAATAGTGTCTTTTAGGTTAGTTTTGCACCTACA
Found at i:106306 original size:2 final size:2
Alignment explanation
Indices: 106299--106325 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
106289 TTTACATTGC
106299 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
106326 CACACACACG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:107822 original size:2 final size:2
Alignment explanation
Indices: 107817--107848 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
107807 TCATATAGCC
*
107817 AT AT AT AT AT AT AT AC AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
107849 CAAAAGGATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:108086 original size:2 final size:2
Alignment explanation
Indices: 108079--108114 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
108069 ATGTTAAAAT
*
108079 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
108115 GTTTGTTAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:109656 original size:2 final size:2
Alignment explanation
Indices: 109649--109701 Score: 56
Period size: 2 Copynumber: 26.5 Consensus size: 2
109639 CATCAAATTA
* *
109649 AT AT AT AT AT AA AT AT AT AT AT ACT GT CAT AT -T A- AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT A-T AT -AT AT AT AT AT AT AT AT
109691 AT AT AT AT AT A
1 AT AT AT AT AT A
109702 CACACGGTCG
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
1 2 0.05
2 39 0.91
3 2 0.05
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (2 bp):
AT
Found at i:112848 original size:13 final size:13
Alignment explanation
Indices: 112816--112849 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
112806 TTTATTATTA
112816 CAATTAAAAAATT
1 CAATTAAAAAATT
112829 -AAGTTAAAAAATT
1 CAA-TTAAAAAATT
112842 CAATTAAA
1 CAATTAAA
112850 TGATTGCATG
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
12 2 0.11
13 15 0.79
14 2 0.11
ACGTcount: A:0.62, C:0.06, G:0.03, T:0.29
Consensus pattern (13 bp):
CAATTAAAAAATT
Found at i:114841 original size:48 final size:49
Alignment explanation
Indices: 114789--114894 Score: 151
Period size: 48 Copynumber: 2.2 Consensus size: 49
114779 GATAAAAATT
* *
114789 CAAAACTAGCCCTAAAAGACTTAATTTTGGTCAATATTGAC-AAAAGTA
1 CAAAACTAACCCTAAAAAACTTAATTTTGGTCAATATTGACAAAAAGTA
* * *
114837 CAAAACAAACCTTAAAAAACTTGATTTTGGTCAATATTGACAAAAAGTA
1 CAAAACTAACCCTAAAAAACTTAATTTTGGTCAATATTGACAAAAAGTA
*
114886 TAAAACTAA
1 CAAAACTAA
114895 TCTTAAAAGA
Statistics
Matches: 50, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
48 36 0.72
49 14 0.28
ACGTcount: A:0.48, C:0.15, G:0.10, T:0.26
Consensus pattern (49 bp):
CAAAACTAACCCTAAAAAACTTAATTTTGGTCAATATTGACAAAAAGTA
Found at i:114902 original size:49 final size:48
Alignment explanation
Indices: 114801--114913 Score: 163
Period size: 49 Copynumber: 2.3 Consensus size: 48
114791 AAACTAGCCC
*
114801 TAAAAGACTTAATTTTGGTCAATATTGACAAAAGTACAAAACAAACCT
1 TAAAAGACTTGATTTTGGTCAATATTGACAAAAGTACAAAACAAACCT
* * * *
114849 TAAAAAACTTGATTTTGGTCAATATTGACAAAAAGTATAAAACTAATCT
1 TAAAAGACTTGATTTTGGTCAATATTGAC-AAAAGTACAAAACAAACCT
*
114898 TAAAAGACTCGATTTT
1 TAAAAGACTTGATTTT
114914 CTCATGAAAC
Statistics
Matches: 57, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
48 27 0.47
49 30 0.53
ACGTcount: A:0.46, C:0.12, G:0.11, T:0.31
Consensus pattern (48 bp):
TAAAAGACTTGATTTTGGTCAATATTGACAAAAGTACAAAACAAACCT
Found at i:116904 original size:2 final size:2
Alignment explanation
Indices: 116897--116932 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
116887 ATCTAATTTA
116897 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
116933 TCCTTTTATG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:118236 original size:6 final size:6
Alignment explanation
Indices: 118225--118254 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
118215 AAACAATAAG
118225 GGTTTA GGTTTA GGTTTA GGTTTA GGTTTA
1 GGTTTA GGTTTA GGTTTA GGTTTA GGTTTA
118255 AGTAATTTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.33, T:0.50
Consensus pattern (6 bp):
GGTTTA
Found at i:118356 original size:27 final size:24
Alignment explanation
Indices: 118297--118357 Score: 59
Period size: 27 Copynumber: 2.3 Consensus size: 24
118287 TTTTCAATGT
118297 TAAATATAAAAATAAAAAATAAAAA
1 TAAAT-TAAAAATAAAAAATAAAAA
* *
118322 TATTATTATAAATAAATGAAATAAAACA
1 TA-AATTAAAAATAAA--AAATAAAA-A
118350 TAAATTAA
1 TAAATTAA
118358 TATTATTGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
25 11 0.39
26 2 0.07
27 12 0.43
28 3 0.11
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.28
Consensus pattern (24 bp):
TAAATTAAAAATAAAAAATAAAAA
Found at i:123378 original size:23 final size:23
Alignment explanation
Indices: 123351--123395 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
123341 TCAATTTAAA
*
123351 TTAAATAAATTTGTTCATGAACC
1 TTAAATAAATATGTTCATGAACC
*
123374 TTAAATATATATGTTCATGAAC
1 TTAAATAAATATGTTCATGAAC
123396 ATATAATACG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.40, C:0.11, G:0.09, T:0.40
Consensus pattern (23 bp):
TTAAATAAATATGTTCATGAACC
Found at i:125576 original size:49 final size:49
Alignment explanation
Indices: 125521--125698 Score: 162
Period size: 49 Copynumber: 3.6 Consensus size: 49
125511 TAGAAGCTCG
* * *
125521 TTTTGGTTGGTTTTGATTGTAAGTACAAAACTAACCTTAAAAAAATCAA
1 TTTTGGTCGATTTTGATTGAAAGTACAAAACTAACCTTAAAAAAATCAA
* * *
125570 TTTTGGTCAATTTTGATTGAAAGTAAAAAAACTAA-CTTAAAAGACA-CAA
1 TTTTGGTCGATTTTGATTGAAAGT-ACAAAACTAACCTTAAAA-AAATCAA
* * * ** * * **
125619 TTTTGATCGGTTTAGATAAAAAGTACAAAAATAACCCTAAAAAGCTCAA
1 TTTTGGTCGATTTTGATTGAAAGTACAAAACTAACCTTAAAAAAATCAA
***
125668 TTTTGGTCGATTTTGACAAAAAGTACAAAAC
1 TTTTGGTCGATTTTGATTGAAAGTACAAAAC
125699 CTTTGAAGAC
Statistics
Matches: 103, Mismatches: 22, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
48 9 0.09
49 83 0.81
50 11 0.11
ACGTcount: A:0.43, C:0.12, G:0.13, T:0.31
Consensus pattern (49 bp):
TTTTGGTCGATTTTGATTGAAAGTACAAAACTAACCTTAAAAAAATCAA
Found at i:126013 original size:30 final size:30
Alignment explanation
Indices: 125979--126054 Score: 82
Period size: 30 Copynumber: 2.5 Consensus size: 30
125969 TAGATTATAT
*
125979 AAAATAGCCTAAATGA-ACTTAAAATGCATG
1 AAAATAG-CTAAATGATACTTAAAATGCAAG
* * * **
126009 AAAATTGCTAAATCATCCTTAATTTGCAAG
1 AAAATAGCTAAATGATACTTAAAATGCAAG
126039 AAAATAGCTAAATGAT
1 AAAATAGCTAAATGAT
126055 CCAAATAACC
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
29 7 0.19
30 30 0.81
ACGTcount: A:0.47, C:0.13, G:0.12, T:0.28
Consensus pattern (30 bp):
AAAATAGCTAAATGATACTTAAAATGCAAG
Found at i:126118 original size:30 final size:29
Alignment explanation
Indices: 126064--126120 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 29
126054 TCCAAATAAC
*
126064 CTAAATAACCCTAAAATGCTTGAAAATTG
1 CTAAATAACCCTAAAATGCATGAAAATTG
* *
126093 CTAAATAGTCCCTAATATGCATGAAAAT
1 CTAAATA-ACCCTAAAATGCATGAAAAT
126121 ATTTCAGGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 7 0.29
30 17 0.71
ACGTcount: A:0.44, C:0.18, G:0.11, T:0.28
Consensus pattern (29 bp):
CTAAATAACCCTAAAATGCATGAAAATTG
Found at i:127741 original size:49 final size:48
Alignment explanation
Indices: 127594--127871 Score: 205
Period size: 49 Copynumber: 5.8 Consensus size: 48
127584 TTTTGATTGT
* * **
127594 AAGTACAAAACTAACCTTAAAAGAATCAATTTTGGTCAATTTTGATTGA
1 AAGTACAAAACTAACCCTAAAAGACTCAATTTTGGTC-ATTTTGATAAA
* *
127643 AAGTACAAAACTAA-CCTAAAAGACACAATTTTGGTCAGTTTAGATAAA
1 AAGTACAAAACTAACCCTAAAAGACTCAATTTTGGTCA-TTTTGATAAA
* *
127691 AAGTACAAAAATAACCCTACAAAG-CTCAATTTTGGTCGATTTTGACAAA
1 AAGTACAAAACTAACCCTA-AAAGACTCAATTTTGGTC-ATTTTGATAAA
* ** * * * *
127740 AAGTATAAAAGCT-----TTGAAGACTCGACTTTTAGTCAATTGTGACGAAA
1 AAGTACAAAA-CTAACCCTAAAAGACTC-AATTTTGGTC-ATTTTGA-TAAA
* * * *
127787 AA-TACAAAACTAACCCTAAAATACTCAATTTTGCTCAATATTGACAAA
1 AAGTACAAAACTAACCCTAAAAGACTCAATTTTGGTC-ATTTTGATAAA
* * * *
127835 AAGCACAAAACAAACCTTAAAAGACTCGA-TTTGGTCA
1 AAGTACAAAACTAACCCTAAAAGACTCAATTTTGGTCA
127872 ATATTAACAA
Statistics
Matches: 180, Mismatches: 35, Indels: 30
0.73 0.14 0.12
Matches are distributed among these distances:
44 3 0.02
45 6 0.03
46 20 0.11
47 7 0.04
48 50 0.28
49 81 0.45
50 13 0.07
ACGTcount: A:0.44, C:0.17, G:0.12, T:0.27
Consensus pattern (48 bp):
AAGTACAAAACTAACCCTAAAAGACTCAATTTTGGTCATTTTGATAAA
Found at i:127901 original size:48 final size:48
Alignment explanation
Indices: 127790--127919 Score: 127
Period size: 48 Copynumber: 2.7 Consensus size: 48
127780 GACGAAAAAT
* * * * *
127790 ACAAAACTAACCCTAAAATACTCAATTTTGCTCAATATTGACAAAAAGC
1 ACAAAACAAACCTTAAAAAACTCGA-TTTGCTCAATATTAACAAAAAGC
* * *
127839 ACAAAACAAACCTTAAAAGACTCGATTTGGTCAATATTAACAAAAAGT
1 ACAAAACAAACCTTAAAAAACTCGATTTGCTCAATATTAACAAAAAGC
* * * *
127887 A-AAATACTAGCCTTAAAAAACTTGATTTTCTCA
1 ACAAA-ACAAACCTTAAAAAACTCGATTTGCTCA
127920 GGAAACTTTA
Statistics
Matches: 67, Mismatches: 13, Indels: 3
0.81 0.16 0.04
Matches are distributed among these distances:
47 3 0.04
48 43 0.64
49 21 0.31
ACGTcount: A:0.47, C:0.19, G:0.08, T:0.26
Consensus pattern (48 bp):
ACAAAACAAACCTTAAAAAACTCGATTTGCTCAATATTAACAAAAAGC
Found at i:128106 original size:30 final size:30
Alignment explanation
Indices: 128031--128108 Score: 95
Period size: 30 Copynumber: 2.6 Consensus size: 30
128021 TAGATTATAT
*
128031 AAAATAGCCTAAAT-AACCTTAAAATGCATA
1 AAAATAG-CTAAATGATCCTTAAAATGCATA
* ** *
128061 AAAATTGCTAAATGATCCTTAATTTGCATG
1 AAAATAGCTAAATGATCCTTAAAATGCATA
128091 AAAATAGCTAAATGATCC
1 AAAATAGCTAAATGATCC
128109 AAATAACCTT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
29 6 0.15
30 35 0.85
ACGTcount: A:0.46, C:0.15, G:0.10, T:0.28
Consensus pattern (30 bp):
AAAATAGCTAAATGATCCTTAAAATGCATA
Found at i:135385 original size:64 final size:64
Alignment explanation
Indices: 135262--135385 Score: 185
Period size: 64 Copynumber: 1.9 Consensus size: 64
135252 AATTATTGTT
* * * *
135262 AAAAAAATAAATTAGATAGATTCATTAAATTAATTAAATTTAAAGTTAATTAATGATTCGAACA
1 AAAAAAATAAATTAAATAGATTCATTAAATTAATTAAATCTAAAATTAATTAATAATTCGAACA
* * *
135326 AAAAAAATAAATTAAATCGATTCATTAAATTAATTAAATCTAAAATTGATTATTAATTCG
1 AAAAAAATAAATTAAATAGATTCATTAAATTAATTAAATCTAAAATTAATTAATAATTCG
135386 GTCTGTTACA
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
64 53 1.00
ACGTcount: A:0.52, C:0.06, G:0.06, T:0.35
Consensus pattern (64 bp):
AAAAAAATAAATTAAATAGATTCATTAAATTAATTAAATCTAAAATTAATTAATAATTCGAACA
Found at i:135582 original size:17 final size:17
Alignment explanation
Indices: 135562--135615 Score: 65
Period size: 16 Copynumber: 3.2 Consensus size: 17
135552 CCACTTAATC
135562 AAATATATATTTCTATT
1 AAATATATATTTCTATT
* *
135579 AAATATTTA-TTATATT
1 AAATATATATTTCTATT
*
135595 TAATATATATTTACTATT
1 AAATATATATTT-CTATT
135613 AAA
1 AAA
135616 ATTATTTAGT
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
16 13 0.45
17 10 0.34
18 6 0.21
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (17 bp):
AAATATATATTTCTATT
Found at i:135603 original size:33 final size:38
Alignment explanation
Indices: 135563--135635 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 38
135553 CACTTAATCA
135563 AATATATATTT-CTATT-AAA-TATTTA-TT-ATATTT
1 AATATATATTTACTATTAAAATTATTTAGTTAATATTT
135596 AATATATATTTACTATTAAAATTATTTAGTTAATATTT
1 AATATATATTTACTATTAAAATTATTTAGTTAATATTT
135634 AA
1 AA
135636 ATTTTTTATT
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
33 11 0.31
34 5 0.14
35 3 0.09
36 6 0.17
37 2 0.06
38 8 0.23
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.53
Consensus pattern (38 bp):
AATATATATTTACTATTAAAATTATTTAGTTAATATTT
Found at i:135638 original size:20 final size:18
Alignment explanation
Indices: 135577--135637 Score: 54
Period size: 20 Copynumber: 3.3 Consensus size: 18
135567 TATATTTCTA
135577 TTAAATATTTATT-ATAT
1 TTAAATATTTATTAATAT
* *
135594 TT-AATATATATTTACTAT
1 TTAAATATTTA-TTAATAT
*
135612 TAAAATTATTTAGTTAATAT
1 TTAAA-TATTTA-TTAATAT
135632 TTAAAT
1 TTAAAT
135638 TTTTTATTTT
Statistics
Matches: 33, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
16 7 0.21
17 4 0.12
18 4 0.12
19 3 0.09
20 15 0.45
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (18 bp):
TTAAATATTTATTAATAT
Found at i:136105 original size:24 final size:24
Alignment explanation
Indices: 136075--136131 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
136065 TCATTGCAAC
*
136075 TATATTTTAGATTT-TTTTAAAATA
1 TATATTTAAGATTTATTTT-AAATA
* *
136099 TATATTTAATATTTATTTTTAATA
1 TATATTTAAGATTTATTTTAAATA
136123 TATATTTAA
1 TATATTTAA
136132 ATATAAATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 25 0.86
25 4 0.14
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.60
Consensus pattern (24 bp):
TATATTTAAGATTTATTTTAAATA
Found at i:136115 original size:11 final size:11
Alignment explanation
Indices: 136095--136136 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
136085 ATTTTTTTAA
136095 AATATATATTT
1 AATATATATTT
*
136106 AATATTTATTTTT
1 AATA--TATATTT
136119 AATATATATTT
1 AATATATATTT
136130 AA-ATATA
1 AATATATA
136137 AATATATGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
10 5 0.19
11 12 0.44
13 10 0.37
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (11 bp):
AATATATATTT
Found at i:136119 original size:13 final size:13
Alignment explanation
Indices: 136088--136129 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
136078 ATTTTAGATT
*
136088 TTTTTAAAATATA
1 TTTTTAATATATA
* *
136101 TATTTAATATTTA
1 TTTTTAATATATA
136114 TTTTTAATATATA
1 TTTTTAATATATA
136127 TTT
1 TTT
136130 AAATATAAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TTTTTAATATATA
Found at i:136524 original size:27 final size:28
Alignment explanation
Indices: 136494--136574 Score: 75
Period size: 27 Copynumber: 3.0 Consensus size: 28
136484 AAATTATCGT
136494 AATAAATTATAATAAATATT-AATTATA
1 AATAAATTATAATAAATATTAAATTATA
* *
136521 AAT--ATT-TAAAAAAAATTAAAATTATA
1 AATAAATTATAATAAATATT-AAATTATA
*
136547 AA-ATAATTATTAT-AATATTAAATTATA
1 AATA-AATTATAATAAATATTAAATTATA
136574 A
1 A
136575 TCACTATTTA
Statistics
Matches: 43, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
24 9 0.21
25 3 0.07
26 9 0.21
27 12 0.28
28 8 0.19
29 2 0.05
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (28 bp):
AATAAATTATAATAAATATTAAATTATA
Found at i:137650 original size:29 final size:30
Alignment explanation
Indices: 137595--137651 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 30
137585 TTCAATTTAA
*
137595 AAATTTATATTATTATTTAAATTTAATAAT
1 AAATTTATATTATTATTTAAATATAATAAT
* **
137625 AAATTTA-ATTTTTATTTTTATATAATA
1 AAATTTATATTATTATTTAAATATAATA
137652 TTTATATATT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 16 0.70
30 7 0.30
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (30 bp):
AAATTTATATTATTATTTAAATATAATAAT
Found at i:137654 original size:19 final size:19
Alignment explanation
Indices: 137632--137676 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
137622 AATAAATTTA
137632 ATTTTTAT-TTTTATATAAT
1 ATTTTTATATTTT-TATAAT
*
137651 ATTTATATATTTTTATAAT
1 ATTTTTATATTTTTATAAT
*
137670 AATTTTA
1 ATTTTTA
137677 AATTAAAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 18 0.82
20 4 0.18
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
ATTTTTATATTTTTATAAT
Found at i:137663 original size:21 final size:21
Alignment explanation
Indices: 137637--137676 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
137627 ATTTAATTTT
137637 TATTTTTAT-ATAATATTTATA
1 TATTTTTATAATAAT-TTTATA
137658 TATTTTTATAATAATTTTA
1 TATTTTTATAATAATTTTA
137677 AATTAAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
TATTTTTATAATAATTTTATA
Found at i:138169 original size:61 final size:61
Alignment explanation
Indices: 138056--138174 Score: 186
Period size: 61 Copynumber: 2.0 Consensus size: 61
138046 ATAATCTCAC
* * *
138056 ATTAATTAGTTAAGAATTTAAATTATGATTTATAAAGTAAAGTCGTCCTTCTTTTATTTAT
1 ATTAATTAGTTAAAAATTTAAATTATGATTTATAAAGTAAACTCATCCTTCTTTTATTTAT
*
138117 ATTAATTAGTTAAAAATTTAAATTATGATTTATAAAGTAAGACT-ATCTTTCTTTTATT
1 ATTAATTAGTTAAAAATTTAAATTATGATTTATAAAGTAA-ACTCATCCTTCTTTTATT
138175 GAAGTATCTT
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
61 51 0.96
62 2 0.04
ACGTcount: A:0.38, C:0.06, G:0.08, T:0.48
Consensus pattern (61 bp):
ATTAATTAGTTAAAAATTTAAATTATGATTTATAAAGTAAACTCATCCTTCTTTTATTTAT
Found at i:138420 original size:15 final size:15
Alignment explanation
Indices: 138392--138439 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
138382 GACATGACAT
*
138392 AAAAT-ATAACATAA
1 AAAATGATAAAATAA
*
138406 AACATGATAAAATAA
1 AAAATGATAAAATAA
* *
138421 AAAATTATAATATAA
1 AAAATGATAAAATAA
138436 AAAA
1 AAAA
138440 AATATAAATA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
14 4 0.14
15 24 0.86
ACGTcount: A:0.71, C:0.04, G:0.02, T:0.23
Consensus pattern (15 bp):
AAAATGATAAAATAA
Found at i:138569 original size:28 final size:28
Alignment explanation
Indices: 138505--138590 Score: 88
Period size: 28 Copynumber: 3.1 Consensus size: 28
138495 AATTTATTAT
*
138505 AAATATA-AAATATATTAAATATAAT-TA
1 AAATATATAAATATA-TAAATATAATAAA
* *
138532 TAATATTATAAATACATAAATATAATAAA
1 AAATA-TATAAATATATAAATATAATAAA
*
138561 AAATATATAAAT-TATAAAATTTAATAAA
1 AAATATATAAATATAT-AAATATAATAAA
138589 AA
1 AA
138591 TTACACGTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
27 6 0.12
28 32 0.65
29 11 0.22
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.35
Consensus pattern (28 bp):
AAATATATAAATATATAAATATAATAAA
Found at i:140017 original size:29 final size:29
Alignment explanation
Indices: 139983--140041 Score: 75
Period size: 28 Copynumber: 2.0 Consensus size: 29
139973 ATTAAAATTT
139983 TTATAAATATAAAAAAAAAT-TAAACATAA
1 TTAT-AATATAAAAAAAAATATAAACATAA
* * *
140012 TTATAATATAATAAAATATATAAATATAA
1 TTATAATATAAAAAAAAATATAAACATAA
140041 T
1 T
140042 ATGAATACAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 13 0.50
29 13 0.50
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (29 bp):
TTATAATATAAAAAAAAATATAAACATAA
Found at i:140987 original size:19 final size:19
Alignment explanation
Indices: 140948--141031 Score: 108
Period size: 19 Copynumber: 4.7 Consensus size: 19
140938 TTTCAACGAT
140948 TTGTATCGATACATAAAGTG
1 TTGTATCGATACAT-AAGTG
140968 TTGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
140987 TTGTATCGATAC--AA---
1 TTGTATCGATACATAAGTG
*
141001 -TGTATCGATACATAAGTT
1 TTGTATCGATACATAAGTG
141019 TTGTATCGATACA
1 TTGTATCGATACA
141032 ATGTAAGCTA
Statistics
Matches: 58, Mismatches: 0, Indels: 13
0.82 0.00 0.18
Matches are distributed among these distances:
13 11 0.19
15 2 0.03
17 2 0.03
19 29 0.50
20 14 0.24
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.37
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:141006 original size:13 final size:13
Alignment explanation
Indices: 140988--141012 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
140978 ACATAAGTGT
140988 TGTATCGATACAA
1 TGTATCGATACAA
141001 TGTATCGATACA
1 TGTATCGATACA
141013 TAAGTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:141010 original size:32 final size:32
Alignment explanation
Indices: 140969--141036 Score: 127
Period size: 32 Copynumber: 2.1 Consensus size: 32
140959 CATAAAGTGT
140969 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
141001 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
141033 TGTA
1 TGTA
141037 AGCTACTGCC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:141092 original size:13 final size:13
Alignment explanation
Indices: 141074--141098 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
141064 ATTACTCAAA
141074 TGTATCGATACAT
1 TGTATCGATACAT
141087 TGTATCGATACA
1 TGTATCGATACA
141099 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:141148 original size:52 final size:52
Alignment explanation
Indices: 141110--141235 Score: 216
Period size: 52 Copynumber: 2.4 Consensus size: 52
141100 TGATCTTTGC
141110 ATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAATGT
1 ATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAATGT
* * *
141162 ATCGATACATGCAGACAAATTTGCCTAGATGTATTGATACACTATAAAATGT
1 ATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAATGT
*
141214 ATCGATACATACAGGCAAATTT
1 ATCGATACATGCAGGCAAATTT
141236 TCATATTTTG
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 69 1.00
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.29
Consensus pattern (52 bp):
ATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAATGT
Found at i:146063 original size:19 final size:19
Alignment explanation
Indices: 146041--146087 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
146031 TGTCTTTATA
146041 TCATATTTGTATTA-ATTTT
1 TCATATTT-TATTATATTTT
*
146060 TCATGTTTTATTATA-TTT
1 TCATATTTTATTATATTTT
146078 TCATTATTTT
1 TCA-TATTTT
146088 TTGTGTCATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
18 11 0.46
19 13 0.54
ACGTcount: A:0.23, C:0.06, G:0.04, T:0.66
Consensus pattern (19 bp):
TCATATTTTATTATATTTT
Found at i:146279 original size:30 final size:30
Alignment explanation
Indices: 146219--146313 Score: 79
Period size: 30 Copynumber: 3.2 Consensus size: 30
146209 TGTTACATCT
* *
146219 AAATAAATCCTTAATATTTAATTTATACCC
1 AAATAAATCCTTAACATTTAATTTACACCC
146249 AAATAAAT-CTATAACATTTGAA-TTACACCC
1 AAATAAATCCT-TAACATTT-AATTTACACCC
* * * * *
146279 -AAGAAAGCTTTTAACATTTAATTTAAACCT
1 AAATAAATC-CTTAACATTTAATTTACACCC
146309 AAATA
1 AAATA
146314 CACCTTTTAA
Statistics
Matches: 51, Mismatches: 8, Indels: 11
0.73 0.11 0.16
Matches are distributed among these distances:
29 9 0.18
30 36 0.71
31 6 0.12
ACGTcount: A:0.46, C:0.16, G:0.03, T:0.35
Consensus pattern (30 bp):
AAATAAATCCTTAACATTTAATTTACACCC
Found at i:146953 original size:14 final size:14
Alignment explanation
Indices: 146936--146970 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
146926 AAACAACAAA
*
146936 TTTTATTTTTTGAT
1 TTTTATTTTTTAAT
*
146950 TTTTTTTTTTTAAT
1 TTTTATTTTTTAAT
146964 TTTTATT
1 TTTTATT
146971 GTGTACAAAG
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:0.14, C:0.00, G:0.03, T:0.83
Consensus pattern (14 bp):
TTTTATTTTTTAAT
Found at i:147929 original size:22 final size:23
Alignment explanation
Indices: 147884--147930 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
147874 ATTATAAACG
*
147884 TTAAAATTTTTAAATAATTCATT
1 TTAAAATTTTTAAATAATTAATT
**
147907 TTAAAATTTTTTCAT-ATTAATT
1 TTAAAATTTTTAAATAATTAATT
147929 TT
1 TT
147931 TTTAAAAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.57
Consensus pattern (23 bp):
TTAAAATTTTTAAATAATTAATT
Found at i:148143 original size:14 final size:15
Alignment explanation
Indices: 148112--148145 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
148102 TATTTTATCA
*
148112 TTTAAAAATATTATT
1 TTTAAAAATAATATT
*
148127 TTTAAAATTAATATT
1 TTTAAAAATAATATT
148142 TTTA
1 TTTA
148146 TATTTTTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TTTAAAAATAATATT
Found at i:148745 original size:3 final size:3
Alignment explanation
Indices: 148737--148778 Score: 66
Period size: 3 Copynumber: 14.0 Consensus size: 3
148727 AGATTTTTGA
* *
148737 TAT TAT TAT TAT TAG TAT TAT TAT TAT TAG TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
148779 ATGCCATGCT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:148757 original size:15 final size:15
Alignment explanation
Indices: 148737--148778 Score: 84
Period size: 15 Copynumber: 2.8 Consensus size: 15
148727 AGATTTTTGA
148737 TATTATTATTATTAG
1 TATTATTATTATTAG
148752 TATTATTATTATTAG
1 TATTATTATTATTAG
148767 TATTATTATTAT
1 TATTATTATTAT
148779 ATGCCATGCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (15 bp):
TATTATTATTATTAG
Found at i:149859 original size:16 final size:16
Alignment explanation
Indices: 149838--149868 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
149828 TTTGTGCTTA
149838 ATATGACTGCTGTTGG
1 ATATGACTGCTGTTGG
*
149854 ATATGATTGCTGTTG
1 ATATGACTGCTGTTG
149869 TTGGGAGCTT
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:0.19, C:0.10, G:0.29, T:0.42
Consensus pattern (16 bp):
ATATGACTGCTGTTGG
Found at i:150071 original size:20 final size:20
Alignment explanation
Indices: 150046--150091 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
150036 AAGAATTGAA
*
150046 GAGGGATACAAGAGAGGGAT
1 GAGGGATACAAGAGAGGGAG
**
150066 GAGGGATACTTGAGAGGGAG
1 GAGGGATACAAGAGAGGGAG
150086 GAGGGA
1 GAGGGA
150092 GCCTCTATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.35, C:0.04, G:0.50, T:0.11
Consensus pattern (20 bp):
GAGGGATACAAGAGAGGGAG
Found at i:150229 original size:27 final size:27
Alignment explanation
Indices: 150168--150238 Score: 99
Period size: 27 Copynumber: 2.6 Consensus size: 27
150158 AAACAAGCCT
* *
150168 CCATATTTGACAAATACAAAGGAAACCA
1 CCATTTTTGACAAACACAAA-GAAACCA
150196 CCATTTTTGACAAACACAAA-ATAACCA
1 CCATTTTTGACAAACACAAAGA-AACCA
150223 CCATTTTTGACAAACA
1 CCATTTTTGACAAACA
150239 AGTGGGTGGC
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
26 1 0.03
27 21 0.52
28 18 0.45
ACGTcount: A:0.46, C:0.24, G:0.07, T:0.23
Consensus pattern (27 bp):
CCATTTTTGACAAACACAAAGAAACCA
Found at i:153613 original size:20 final size:20
Alignment explanation
Indices: 153588--153633 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
153578 AAGCATTGAA
*
153588 GAGGGATACAAGAGAGGGAT
1 GAGGGATACAAGAGAGGGAG
**
153608 GAGGGATACTTGAGAGGGAG
1 GAGGGATACAAGAGAGGGAG
153628 GAGGGA
1 GAGGGA
153634 GCCTCTATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.35, C:0.04, G:0.50, T:0.11
Consensus pattern (20 bp):
GAGGGATACAAGAGAGGGAG
Found at i:153783 original size:24 final size:27
Alignment explanation
Indices: 153710--153780 Score: 99
Period size: 27 Copynumber: 2.6 Consensus size: 27
153700 AAACAAGCCT
* *
153710 CCATATTTGACAAATACAAAGGA-AACCA
1 CCATTTTTGACAAACACAAA--ATAACCA
153738 CCATTTTTGACAAACACAAAATAACCA
1 CCATTTTTGACAAACACAAAATAACCA
153765 CCATTTTTGACAAACA
1 CCATTTTTGACAAACA
153781 AATGGGTGGC
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
26 1 0.03
27 21 0.52
28 18 0.45
ACGTcount: A:0.46, C:0.24, G:0.07, T:0.23
Consensus pattern (27 bp):
CCATTTTTGACAAACACAAAATAACCA
Found at i:156778 original size:21 final size:22
Alignment explanation
Indices: 156733--156786 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
156723 TGGACATGTT
156733 AAAAATGCATGAAACATAATAA
1 AAAAATGCATGAAACATAATAA
156755 AAAAATGCATGAAACATAAT-A
1 AAAAATGCATGAAACATAATAA
156776 AAAAATGCATG
1 AAAAATGCATG
156787 GTCAAAGGCT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 12 0.38
22 20 0.62
ACGTcount: A:0.61, C:0.09, G:0.11, T:0.19
Consensus pattern (22 bp):
AAAAATGCATGAAACATAATAA
Found at i:157747 original size:20 final size:20
Alignment explanation
Indices: 157700--157774 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
157690 AAAAAGACAT
*
157700 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
157719 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
157740 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
157760 AATGTATCGATACAT
1 AATGTATCGATACAT
157775 CAAGGTAAAA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:157768 original size:40 final size:39
Alignment explanation
Indices: 157697--157774 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
157687 GGTAAAAAGA
* *
157697 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
157736 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
157775 CAAGGTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:158479 original size:28 final size:28
Alignment explanation
Indices: 158410--161333 Score: 2109
Period size: 28 Copynumber: 104.5 Consensus size: 28
158400 ACTGATTTGC
*
158410 GTGGGCTTTAAAAGGGTGCCACTGACTT
1 GTGGGCTTTGAAAGGGTGCCACTGACTT
* * *
158438 GCGTGAGCTTTGAAAGGATGCCACTGACTC
1 --GTGGGCTTTGAAAGGGTGCCACTGACTT
*
158468 GTGGGCTTTGAAAGAGTGCCACTGACTT
1 GTGGGCTTTGAAAGGGTGCCACTGACTT
* *
158496 GTGGGCTTTGAAA-GGTACCACTGACTC
1 GTGGGCTTTGAAAGGGTGCCACTGACTT
* * *
158523 GTGGGCTTTGAAAAGGTACCACTGACTC
1 GTGGGCTTTGAAAGGGTGCCACTGACTT
158551 GTGGGC-TTGAAAGGGTGCCACTGACTT
1 GTGGGCTTTGAAAGGGTGCCACTGACTT
* *
158578 GTGGGCTTTGAAAGAGTGCCACTGACTC
1 GTGGGCTTTGAAAGGGTGCCACTGACTT
* *
158606 GTGGGCTTTGAAAAGGTGTCACTGACTT
1 GTGGGCTTTGAAAGGGTGCCACTGACTT
* *
158634 GCGTGGGCTTTGAAAGAGTGTCACTGACTTGT
1 --GTGGGCTTTGAAAGGGTGCCACTGAC-T-T
*
158666 GTGGGCTTTAAAAGGGTGCCACTGACTT
1 GTGGGCTTTGAAAGGGTGCCACTGACTT
* *
158694 GTGGGCTTTGAAAGAGTGCCACTGAATT
1 GTGGGCTTTGAAAGGGTGCCACTGACTT
* * *
158722 GTGGGCTTCGCAATGGTGCCACTGACTT
1 GTGGGCTTTGAAAGGGTGCCACTGACTT
*
158750 GTGGGCTTCGAAAGGGTGCCACTGACTT
1 GTGGGCTTTGAAAGGGTGCCACTGACTT
* *
158778 GTGGGCTCTGAAAGGGTGCCACTAACTT
1 GTGGGCTTTGAAAGGGTGCCACTGACTT
158806 GTGGGCTTTGAAAGGGTGCCACTGACTT
1 GTGGGCTTTGAAAGGGTGCCACTGACTT
* *
158834 GTGGGCTTTGAAAAGAGTGCCACTGATTT
1 GTGGGCTTTG-AAAGGGTGCCACTGACTT
*
158863 GTGGGCTTTGAAAAGAGTGCCACTGACTT
1 GTGGGCTTTG-AAAGGGTGCCACTGACTT
*
158892 GTGGGCTTTGAAAAGAGTGCCACTGACTT
1 GTGGGCTTTG-AAAGGGTGCCACTGACTT
158921 GTGGGCTTTGAAAGGAGTGCCACTGACTTGT
1 GTGGGCTTTGAAAGG-GTGCCACTGAC-T-T
*
158952 GTGGGCTTTAAAAGGGTGCCACTGACTT
1 GTGGGCTTTGAAAGGGTGCCACTGACTT
* *
158980 GTGGGCTTTGAAAGAGTGCCACTGAATT
1 GTGGGCTTTGAAAGGGTGCCACTGACTT
* * * *
159008 GTGGGCTTCGCAATGGTGCCACTAACTT
1 GTGGGCTTTGAAAGGGTGCCACTGACTT
* *
159036 GTGGGCTTCGAAAGGGTGCTACTGACTT
1 GTGGGCTTTGAAAGGGTGCCACTGACTT
159064 GCGTGGGCTTTGAAAAGGGTGCCACTGACTT
1 --GTGGGCTTTG-AAAGGGTGCCACTGACTT
159095 GTGGGCTTTGAAAGGGTGCCACTGACTT
1 GTGGGCTTTGAAAGGGTGCCACTGACTT
* *
159123 GTGGGCTTTGAAAAGAGTGCCACTAACTT
1 GTGGGCTTTG-AAAGGGTGCCACTGACTT
* *
159152 GTGGGCTTTAAAAGGGTGCCACTAACTT
1 GTGGGCTTTGAAAGGGTGCCACTGACTT
159180 GCGTGGGCTTTGAAAGGGGTGCCACTGACTT
1 --GTGGGCTTTGAAA-GGGTGCCACTGACTT
* *
159211 ATGGGCTTTGAAAGGGTGCCACCGACTTGT
1 GTGGGCTTTGAAAGGGTGCCACTGAC-T-T
*
159241 GTGGGCTTTGAAAGGATGCCACTGACTT
1 GTGGGCTTTGAAAGGGTGCCACTGACTT
* * *
159269 GTGGGCTTTGAAAGAGTGCTACTGACTC
1 GTGGGCTTTGAAAGGGTGCCACTGACTT
* *
159297 GTGGGCTTTGAAAAGGTACCACTGACTT
1 GTGGGCTTTGAAAGGGTGCCACTGACTT
* *
159325 GCGTGAGCTTTAAAAGGAGTGCCACTGACTTGT
1 --GTGGGCTTTGAAAGG-GTGCCACTGAC-T-T
*
159358 GTGGGCTTTAAAAGGGTGCCACTGACTT
1 GTGGGCTTTGAAAGGGTGCCACTGACTT
* *
159386 GTGGGCTTTGAAAGAGTGCCACTGAATT
1 GTGGGCTTTGAAAGGGTGCCACTGACTT
* * *
159414 GTGGGCTTCGCAATGGTGCCACTGACTT
1 GTGGGCTTTGAAAGGGTGCCACTGACTT
*
159442 GTGGGCTTCGAAAGGGTGCCACTGACTT
1 GTGGGCTTTGAAAGGGTGCCACTGACTT
* *
159470 GTGGGCTCTGAAAGGGTGCCACTAACTT
1 GTGGGCTTTGAAAGGGTGCCACTGACTT
159498 GTGGGCTTTGAAAGGGTGCCACTGACTT
1 GTGGGCTTTGAAAGGGTGCCACTGACTT
** * *
159526 GTGGGCTTTGAAAAAAGTGCCACTAATTT
1 GTGGGCTTTG-AAAGGGTGCCACTGACTT
* *
159555 ATGGGCTTTGAAAAGAGTGCCACTGACTT
1 GTGGGCTTTG-AAAGGGTGCCACTGACTT
159584 GTGGGCTTTGAAAGGAGTGCCACTGACTT
1 GTGGGCTTTGAAAGG-GTGCCACTGACTT
159613 GTGGGCTTTGAAAGGAGTGCCACTGACTTGT
1 GTGGGCTTTGAAAGG-GTGCCACTGAC-T-T
* *
159644 GTGGGCTTTAAAAGGGTGCCACTCACTT
1 GTGGGCTTTGAAAGGGTGCCACTGACTT
* *
159672 GTGGGCTTTGAAAGAGTGCCACTGAATT
1 GTGGGCTTTGAAAGGGTGCCACTGACTT
* * *
159700 GTGGGCTTCGCAATGGTGCCACTGACTT
1 GTGGGCTTTGAAAGGGTGCCACTGACTT
*
159728 GTGGGCTTCGAAAGGGTGCCACTGACTT
1 GTGGGCTTTGAAAGGGTGCCACTGACTT
* *
159756 GCGTGGGCTTTGAAAATGGTGCCATTGACTT
1 --GTGGGCTTTG-AAAGGGTGCCACTGACTT
159787 GTGGGCTTTGAAAGGGTGCCACTGACTT
1 GTGGGCTTTGAAAGGGTGCCACTGACTT
* *
159815 GTGGGCTTTGAAAAGAGTGCCACTAACTT
1 GTGGGCTTTG-AAAGGGTGCCACTGACTT
* *
159844 GTGGGCTTTAAAAGGGTGCCACTAACTT
1 GTGGGCTTTGAAAGGGTGCCACTGACTT
159872 GCGTGGGCTTTGAAAGGGGTGCCACTGACTT
1 --GTGGGCTTTGAAA-GGGTGCCACTGACTT
159903 GTGGGCTTTGAAAGGGGTGCCACTGACTT
1 GTGGGCTTTGAAA-GGGTGCCACTGACTT
*
159932 GTGGGCTTTGAAAGGGTGCCACCGACTT
1 GTGGGCTTTGAAAGGGTGCCACTGACTT
* *
159960 GTGTAGGCTTTGAAAAGTGTTGCCACCGACTTGT
1 GTG--GGCTTTG-AAAG-GGTGCCACTGAC-T-T
*
159994 GTGGGCTTTGAAATGGGTTGCCACCGACTTGT
1 GTGGGCTTTGAAA-GGG-TGCCACTGAC-T-T
* *
160026 GTGGGCTTTGAAATGGGTGCCACAGAGTT
1 GTGGGCTTTGAAA-GGGTGCCACTGACTT
** * * * *
160055 GTGGATTTTAAAAGAGTGCCACGGAGTT
1 GTGGGCTTTGAAAGGGTGCCACTGACTT
** * * *
160083 GTGGATTTTAAAAGGGTGCCACAGAGTT
1 GTGGGCTTTGAAAGGGTGCCACTGACTT
* * * *
160111 GTGGAC-TTAAAAGGGTGCCACGGAGTT
1 GTGGGCTTTGAAAGGGTGCCACTGACTT
* * * *
160138 GTGGTC-TTAAAAGGGATGCCACGGAGTT
1 GTGGGCTTTGAAAGGG-TGCCACTGACTT
* * *
160166 GTGGAC-TT---A---TGCCACGGAGTT
1 GTGGGCTTTGAAAGGGTGCCACTGACTT
* * * *
160187 GTGGAC-TTAAAAGGGTGCCACAGAGTT
1 GTGGGCTTTGAAAGGGTGCCACTGACTT
* * *
160214 GTGGAC-TTAAAAGGGTGCCA-TGGAGTT
1 GTGGGCTTTGAAAGGGTGCCACT-GACTT
* * * *
160241 GTGGAC-TTAAAAGGATGCCAC-GAAGTT
1 GTGGGCTTTGAAAGGGTGCCACTG-ACTT
* * * *
160268 GTGGAC-TTAAAAGGGATGCCACAGAGTT
1 GTGGGCTTTGAAAGGG-TGCCACTGACTT
* * * * *
160296 GTGGAC-TTAAAAGGGTACCACGGAGTT
1 GTGGGCTTTGAAAGGGTGCCACTGACTT
* * * * *
160323 GTGGAC-TTAAAAGGGTACCACGGAGTT
1 GTGGGCTTTGAAAGGGTGCCACTGACTT
* * * * *
160350 GTGGAC-TTAAAAGGGTGTCACGGAGTT
1 GTGGGCTTTGAAAGGGTGCCACTGACTT
* ** *
160377 GTGGAC-TAAAAAGGGTGCCA-TAGAGTT
1 GTGGGCTTTGAAAGGGTGCCACT-GACTT
* * * * *
160404 GTGGAC-TTAAAAGAGTGCCACAGAGTT
1 GTGGGCTTTGAAAGGGTGCCACTGACTT
* * ** * *
160431 GTGGAC-TTAAAAGATATGCCACGGAGTT
1 GTGGGCTTTGAAAG-GGTGCCACTGACTT
* * * * *
160459 ATGGAC-TTAAAAGGGTGCCACGGAGTT
1 GTGGGCTTTGAAAGGGTGCCACTGACTT
* * * *
160486 GTGGAC-TTAAAAGGGTGCCACGGAGTT
1 GTGGGCTTTGAAAGGGTGCCACTGACTT
* * * *
160513 GTGGTC-TTAAAAGGGATGCCACGGAGTT
1 GTGGGCTTTGAAAGGG-TGCCACTGACTT
* * * *
160541 GTGGAC-TTAAAAGGGTGCCACGGAGTT
1 GTGGGCTTTGAAAGGGTGCCACTGACTT
* * * *
160568 GTGGAC-TTAAAAGGGTGCCACAGAGTT
1 GTGGGCTTTGAAAGGGTGCCACTGACTT
* * ** * *
160595 GTGGAC-TTAAAAGAATGCCACGGAGTT
1 GTGGGCTTTGAAAGGGTGCCACTGACTT
* * * *
160622 GTGGACTTTAAAAGGATGCCAC-GAAGTT
1 GTGGGCTTTGAAAGGGTGCCACTG-ACTT
* * *
160650 GTGGAC-TT---A---TGCCACGGAGTT
1 GTGGGCTTTGAAAGGGTGCCACTGACTT
* * *
160671 GTGGAC-TTAAAAGGGATGCCA-TAGAGTT
1 GTGGGCTTTGAAAGGG-TGCCACT-GACTT
* * * *
160699 GTGGAC-TTAAAAGGGTGCCACGGAGTT
1 GTGGGCTTTGAAAGGGTGCCACTGACTT
* * * *
160726 GTGGAC-TTAAAAGGGATGCCACGGAGTT
1 GTGGGCTTTGAAAGGG-TGCCACTGACTT
* * * * *
160754 GTGGAC-TTAAAAGGTTGCCACGGAGTT
1 GTGGGCTTTGAAAGGGTGCCACTGACTT
* * * *
160781 GTGGAC-TTAAAAGGGTGCCACGGAGTT
1 GTGGGCTTTGAAAGGGTGCCACTGACTT
* * * *
160808 GTGGAC-TTAAAAGGGTGCCACGGAGTT
1 GTGGGCTTTGAAAGGGTGCCACTGACTT
* * ** *
160835 GTGGAC-TTAAAAGAATGCCAC-GAAGTT
1 GTGGGCTTTGAAAGGGTGCCACTG-ACTT
* * * *
160862 GTGGACTTTAAAAGGATGCCAC-GAAGTT
1 GTGGGCTTTGAAAGGGTGCCACTG-ACTT
* * *
160890 GTGGAC-TT---A---TGCCACGGAGTT
1 GTGGGCTTTGAAAGGGTGCCACTGACTT
* * *
160911 GTGGAC-TTAAAAGGGTGCCAC-GAAGTT
1 GTGGGCTTTGAAAGGGTGCCACTG-ACTT
* * * * *
160938 GTGGAC-TTAAAATGGTGCCACGGAGTT
1 GTGGGCTTTGAAAGGGTGCCACTGACTT
* * *
160965 GTGGAC-TTAAAAGGGATGCCAC-GAAGTT
1 GTGGGCTTTGAAAGGG-TGCCACTG-ACTT
* * * *
160993 GTGGAC-TTAAAAGGGTGCCACGGAGTT
1 GTGGGCTTTGAAAGGGTGCCACTGACTT
* * * *
161020 GTGGAC-TTAAAAGGGTGCCACGGAGTT
1 GTGGGCTTTGAAAGGGTGCCACTGACTT
* * * *
161047 GTGGACTTTAAAAGGGTGCCACGGAGTT
1 GTGGGCTTTGAAAGGGTGCCACTGACTT
* * ** * *
161075 GTGGAC-TTAAAAGAATGCCACGGAGTT
1 GTGGGCTTTGAAAGGGTGCCACTGACTT
* * * *
161102 GTGGAC-TTAAAAGGGTGCCACGGAGTT
1 GTGGGCTTTGAAAGGGTGCCACTGACTT
* ** * *
161129 GTGGAC-TAAAAAGGGTGCCACAGAGTT
1 GTGGGCTTTGAAAGGGTGCCACTGACTT
* * * * * *
161156 GTAGACTATAAAAGGGTGCCACGGAGTT
1 GTGGGCTTTGAAAGGGTGCCACTGACTT
* * * *
161184 GTGGAC-TTAAAAGGGTGCCACAGAGTT
1 GTGGGCTTTGAAAGGGTGCCACTGACTT
* ** * * * *
161211 GTGGACTTAAAAAAGATGCCACGGAGTT
1 GTGGGCTTTGAAAGGGTGCCACTGACTT
* * * * *
161239 ATGGAC-TTAAAAGGGTGCCACGGAGTT
1 GTGGGCTTTGAAAGGGTGCCACTGACTT
* * * *
161266 GTGGAC-TTAAAAGGGATGCCACGGAATT
1 GTGGGCTTTGAAAGGG-TGCCACTGACTT
* * * *
161294 GTGGAC-TTAAAAGGGTGCCACGGAGTT
1 GTGGGCTTTGAAAGGGTGCCACTGACTT
*
161321 GTGGACTTT-AAAG
1 GTGGGCTTTGAAAG
161334 AGGTCACAGT
Statistics
Matches: 2592, Mismatches: 211, Indels: 185
0.87 0.07 0.06
Matches are distributed among these distances:
21 56 0.02
22 2 0.00
24 5 0.00
25 1 0.00
26 3 0.00
27 764 0.29
28 1056 0.41
29 324 0.12
30 191 0.07
31 132 0.05
32 52 0.02
33 2 0.00
34 4 0.00
ACGTcount: A:0.24, C:0.17, G:0.33, T:0.26
Consensus pattern (28 bp):
GTGGGCTTTGAAAGGGTGCCACTGACTT
Found at i:158714 original size:116 final size:114
Alignment explanation
Indices: 158378--160113 Score: 1998
Period size: 116 Copynumber: 15.0 Consensus size: 114
158368 TTACCACACA
*** * * *
158378 TGTGGGCTTTGAAAAGAGTTTTACTGATTTGCGTGGGCTTTAAAAGGGTGCCACTGACTTGCGTG
1 TGTGGGCTTTGAAAAG-GTGCCACTGACTT--GTGGGCTTTGAAAGAGTGCCACTGACTT--GTG
* * *
158443 AGCTTTGAAAGGATGCCACTGACTCGTGGGCTTTGAAAGAGTGCCACTGAC-T-
61 GGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTG
* * * *
158495 TGTGGGCTTTG-AAAGGTACCACTGACTCGTGGGCTTTGAAA-AGGTACCACTGACTCGTGGGC-
1 TGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAGA-GTGCCACTGACTTGTGGGCT
158557 TTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGAC-T-
65 TTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTG
* * *
158605 CGTGGGCTTTGAAAAGGTGTCACTGACTTGCGTGGGCTTTGAAAGAGTGTCACTGACTTGTGTGG
1 TGTGGGCTTTGAAAAGGTGCCACTGACTT--GTGGGCTTTGAAAGAGTGCCACTGAC-T-TGTGG
* *
158670 GCTTTAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGA-AT-
62 GCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTG
* * * * * *
158721 TGTGGGCTTCGCAATGGTGCCACTGACTTGTGGGCTTCGAAAGGGTGCCACTGACTTGTGGGCTC
1 TGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTT
* *
158786 TGAAAGGGTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGAC-T-
66 TGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTG
*
158833 TGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGC
1 TGTGGGCTTTGAAAAG-GTGCCACTGACTTGTGGGCTTTG-AAAGAGTGCCACTGACTTGTGGGC
*
158898 TTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTG
64 TTTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAA-GAGTGCCACTGACTTG
*
158951 TGTGGGCTTT-AAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGAATTGTGGGCT
1 TGTGGGCTTTGAAAA-GGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCT
* * * * * * *
159015 TCGCAATGGTGCCACTAACTTGTGGGCTTCGAAAGGGTGCTACTGACTTG
65 TTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTG
* *
159065 CGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCT
1 TGTGGGCTTTGAAAA-GGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCT
* * * * *
159130 TTGAAAAGAGTGCCACTAACTTGTGGGCTTTAAAAGGGTGCCACTAACTTG
65 TTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTG
* * * * *
159181 CGTGGGCTTTGAAAGGGGTGCCACTGACTTATGGGCTTTGAAAGGGTGCCACCGACTTGTGTGGG
1 TGTGGGCTTTGAAA-AGGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGAC-T-TGTGGG
* *
159246 CTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGAGTGCTACTGAC-T-
63 CTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTG
* * * *
159296 CGTGGGCTTTGAAAAGGTACCACTGACTTGCGTGAGCTTTAAAAGGAGTGCCACTGACTTGTGTG
1 TGTGGGCTTTGAAAAGGTGCCACTGACTT--GTGGGCTTTGAAA-GAGTGCCACTGAC-T-TGTG
* *
159361 GGCTTTAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGA-AT-
61 GGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTG
* * * * * *
159413 TGTGGGCTTCGCAATGGTGCCACTGACTTGTGGGCTTCGAAAGGGTGCCACTGACTTGTGGGCTC
1 TGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTT
* *
159478 TGAAAGGGTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGAC-T-
66 TGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTG
* * * *
159525 TGTGGGCTTTGAAAAAAGTGCCACTAATTTATGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGC
1 TGTGGGCTTTG-AAAAGGTGCCACTGACTTGTGGGCTTTG-AAAGAGTGCCACTGACTTGTGGGC
159590 TTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTG
64 TTTGAAAGG-GTGCCACTGACTTGTGGGCTTTGAAA-GAGTGCCACTGACTTG
* *
159643 TGTGGGCTTT-AAAAGGGTGCCACTCACTTGTGGGCTTTGAAAGAGTGCCACTGAATTGTGGGCT
1 TGTGGGCTTTGAAAA-GGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCT
* * * * *
159707 TCGCAATGGTGCCACTGACTTGTGGGCTTCGAAAGGGTGCCACTGACTTG
65 TTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTG
* * *
159757 CGTGGGCTTTGAAAATGGTGCCATTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCT
1 TGTGGGCTTTGAAAA-GGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCT
* * * * *
159822 TTGAAAAGAGTGCCACTAACTTGTGGGCTTTAAAAGGGTGCCACTAACTTG
65 TTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTG
* * *
159873 CGTGGGCTTTGAAAGGGGTGCCACTGACTTGTGGGCTTTGAAAGGGGTGCCACTGACTTGTGGGC
1 TGTGGGCTTTGAAA-AGGTGCCACTGACTTGTGGGCTTTGAAA-GAGTGCCACTGACTTGTGGGC
* * *
159938 TTTGAAAGGGTGCCACCGACTTGTGTAGGCTTTGAAAAGTGTTGCCACCGACTTG
64 TTTGAAAGGGTGCCACTGACTTGTG--GGCTTTG-AAAGAG-TGCCACTGACTTG
* * * * *
159993 TGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTGCCACAGAGTTGTG
1 TGTGGGCTTTGAAA-AGG-TGCCACTGAC-T-TGTGGGCTTTGAAA-GAGTGCCACTGACTTGTG
** * * * * ** * * * *
160058 GATTTTAAAAGAGTGCCACGGAGTTGTGGATTTTAAAAGGGTGCCACAGAGTTG
61 GGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTG
160112 TG
1 TG
160114 GACTTAAAAG
Statistics
Matches: 1415, Mismatches: 159, Indels: 88
0.85 0.10 0.05
Matches are distributed among these distances:
110 56 0.04
111 19 0.01
112 125 0.09
113 89 0.06
114 154 0.11
115 248 0.18
116 358 0.25
117 212 0.15
118 38 0.03
119 18 0.01
120 32 0.02
121 13 0.01
122 1 0.00
123 52 0.04
ACGTcount: A:0.21, C:0.18, G:0.33, T:0.28
Consensus pattern (114 bp):
TGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTT
TGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTG
Found at i:160137 original size:55 final size:54
Alignment explanation
Indices: 160040--161333 Score: 1877
Period size: 55 Copynumber: 24.0 Consensus size: 54
160030 GCTTTGAAAT
* * * *
160040 GGGTGCCACAGAGTTGTGGATTTTAAAAGAGTGCCACGGAGTTGTGGATTTTAAAA
1 GGGTGCCACGGAGTTGTGGA-CTTAAAAGGGTGCCACGGAGTTGTGGA-CTTAAAA
* *
160096 GGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGTCTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
160150 GGGATGCCACGGAGTTGTGGACTT---A---TGCCACGGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
* *
160199 GGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCATGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
* * *
160253 GGATGCCACGAAGTTGTGGACTTAAAAGGGATGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAA
* *
160308 GGGTACCACGGAGTTGTGGACTTAAAAGGGTACCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
* * **
160362 GGGTGTCACGGAGTTGTGGACTAAAAAGGGTGCCATAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
* * ** *
160416 GAGTGCCACAGAGTTGTGGACTTAAAAGATATGCCACGGAGTTATGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAAG-GGTGCCACGGAGTTGTGGACTTAAAA
*
160471 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGTCTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
160525 GGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
* **
160580 GGGTGCCACAGAGTTGTGGACTTAAAAGAATGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAA
* *
160635 GGATGCCACGAAGTTGTGGACTT---A---TGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
**
160683 GGGATGCCATAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
*
160738 GGGATGCCACGGAGTTGTGGACTTAAAAGGTTGCCACGGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
160793 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
** * * *
160847 GAATGCCACGAAGTTGTGGACTTTAAAAGGATGCCACGAAGTTGTGGACTT---A
1 GGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
*
160899 ---TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGAAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
* *
160950 TGGTGCCACGGAGTTGTGGACTTAAAAGGGATGCCACGAAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAA
161005 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAA
**
161060 GGGTGCCACGGAGTTGTGGACTTAAAAGAATGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
* * *
161114 GGGTGCCACGGAGTTGTGGACTAAAAAGGGTGCCACAGAGTTGTAGACTATAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACT-TAAAA
*
161169 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTT-AAAA
* * *
161224 AGATGCCACGGAGTTATGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
* *
161278 GGGATGCCACGGAATTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
161333 G
1 G
161334 AGGTCACAGT
Statistics
Matches: 1127, Mismatches: 81, Indels: 61
0.89 0.06 0.05
Matches are distributed among these distances:
48 55 0.05
49 78 0.07
51 2 0.00
52 4 0.00
54 388 0.34
55 580 0.51
56 20 0.02
ACGTcount: A:0.29, C:0.14, G:0.33, T:0.23
Consensus pattern (54 bp):
GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
Found at i:160179 original size:21 final size:21
Alignment explanation
Indices: 160153--160195 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
160143 CTTAAAAGGG
160153 ATGCCACGGAGTTGTGGACTT
1 ATGCCACGGAGTTGTGGACTT
160174 ATGCCACGGAGTTGTGGACTT
1 ATGCCACGGAGTTGTGGACTT
160195 A
1 A
160196 AAAGGGTGCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.21, C:0.19, G:0.33, T:0.28
Consensus pattern (21 bp):
ATGCCACGGAGTTGTGGACTT
Found at i:160310 original size:82 final size:81
Alignment explanation
Indices: 160040--161333 Score: 1816
Period size: 82 Copynumber: 16.0 Consensus size: 81
160030 GCTTTGAAAT
* * * * *
160040 GGGTGCCACAGAGTTGTGGATTTTAAAAGAGTGCCACGGAGTTGTGGATTTTAAAAGGGTGCCAC
1 GGGTGCCACGGAGTTGTGGA-CTTAAAAGGGTGCCACGGAGTTGTGGA-CTTAAAAGGATGCCAC
*
160105 AGAGTTGTGGACTTAAAA
64 GGAGTTGTGGACTTAAAA
*
160123 GGGTGCCACGGAGTTGTGGTCTTAAAAGGGATGCCACGGAGTTGTGGACTT------ATGCCACG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGATGCCACG
160182 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
* * *
160199 GGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCATGGAGTTGTGGACTTAAAAGGATGCCACGA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGATGCCACGG
160264 AGTTGTGGACTTAAAA
66 AGTTGTGGACTTAAAA
* * * *
160280 GGGATGCCACAGAGTTGTGGACTTAAAAGGGTACCACGGAGTTGTGGACTTAAAAGGGTACCACG
1 GGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGATGCCACG
160345 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
* * ** *
160362 GGGTGTCACGGAGTTGTGGACTAAAAAGGGTGCCATAGAGTTGTGGACTTAAAA-GAGTGCCACA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGA-TGCCACG
160426 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
** * *
160443 GATATGCCACGGAGTTATGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
1 G-GGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGATGCCACG
*
160508 GAGTTGTGGTCTTAAAA
65 GAGTTGTGGACTTAAAA
* *
160525 GGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACA
1 GGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGATGCCACG
160590 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
** * *
160607 GAATGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGAAGTTGTGGACTT------ATGCCACG
1 GGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGATGCCACG
160666 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
**
160683 GGGATGCCATAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGATGCCAC
1 GGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA-GGATGCCAC
160748 GGAGTTGTGGACTTAAAA
64 GGAGTTGTGGACTTAAAA
* *
160766 GGTTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGATGCCACGG
160831 AGTTGTGGACTTAAAA
66 AGTTGTGGACTTAAAA
** * * *
160847 GAATGCCACGAAGTTGTGGACTTTAAAAGGATGCCACGAAGTTGTGGACTT------ATGCCACG
1 GGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGATGCCACG
160906 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
* *
160923 GGGTGCCACGAAGTTGTGGACTTAAAATGGTGCCACGGAGTTGTGGACTTAAAAGGGATGCCACG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA-GGATGCCACG
*
160988 AAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
*
161005 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGATGCCACG
161070 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
** * * *
161087 GAATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTAAAAAGGGTGCCACAG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGATGCCACGG
*
161152 AGTTGTAGACTATAAAA
66 AGTTGTGGACT-TAAAA
* *
161169 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAAAGATGCCACG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTT-AAAAGGATGCCACG
*
161234 GAGTTATGGACTTAAAA
65 GAGTTGTGGACTTAAAA
* *
161251 GGGTGCCACGGAGTTGTGGACTTAAAAGGGATGCCACGGAATTGTGGACTTAAAAGGGTGCCACG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGATGCCACG
*
161316 GAGTTGTGGACTTTAAA
65 GAGTTGTGGACTTAAAA
161333 G
1 G
161334 AGGTCACAGT
Statistics
Matches: 1086, Mismatches: 92, Indels: 67
0.87 0.07 0.05
Matches are distributed among these distances:
75 45 0.04
76 145 0.13
77 16 0.01
80 1 0.00
81 182 0.17
82 589 0.54
83 108 0.10
ACGTcount: A:0.29, C:0.14, G:0.33, T:0.23
Consensus pattern (81 bp):
GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGATGCCACGG
AGTTGTGGACTTAAAA
Found at i:160663 original size:21 final size:21
Alignment explanation
Indices: 160637--160679 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
160627 CTTTAAAAGG
160637 ATGCCACGAAGTTGTGGACTT
1 ATGCCACGAAGTTGTGGACTT
*
160658 ATGCCACGGAGTTGTGGACTT
1 ATGCCACGAAGTTGTGGACTT
160679 A
1 A
160680 AAAGGGATGC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.28
Consensus pattern (21 bp):
ATGCCACGAAGTTGTGGACTT
Done.