Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D04
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: 56598092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1600000 characters in sequence are not A, C, G, or T
File 116 of 185
Found at i:36292216 original size:27 final size:27
Alignment explanation
Indices: 36292178--36292244 Score: 89
Period size: 27 Copynumber: 2.5 Consensus size: 27
36292168 TTATAATACT
* *
36292178 GGTGCCGCCAATGACTTTGGCACCATC
1 GGTGCCGCCAATCACATTGGCACCATC
* * *
36292205 GGTGCTGCCAATCACATTGGCACCTTT
1 GGTGCCGCCAATCACATTGGCACCATC
36292232 GGTGCCGCCAATC
1 GGTGCCGCCAATC
36292245 TCTTTCCCTC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.18, C:0.33, G:0.25, T:0.24
Consensus pattern (27 bp):
GGTGCCGCCAATCACATTGGCACCATC
Found at i:36292742 original size:15 final size:15
Alignment explanation
Indices: 36292724--36292755 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
36292714 GGCTAGGGGT
36292724 ATTGGGCTTAGGCTA
1 ATTGGGCTTAGGCTA
*
36292739 ATTGGGTTTAGGCTA
1 ATTGGGCTTAGGCTA
36292754 AT
1 AT
36292756 AGGGTTTACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.22, C:0.09, G:0.31, T:0.38
Consensus pattern (15 bp):
ATTGGGCTTAGGCTA
Found at i:36292760 original size:15 final size:15
Alignment explanation
Indices: 36292731--36292763 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
36292721 GGTATTGGGC
*
36292731 TTAGGCTAATTGGGT
1 TTAGGCTAATAGGGT
36292746 TTAGGCTAATAGGGT
1 TTAGGCTAATAGGGT
36292761 TTA
1 TTA
36292764 CTGTTGTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.24, C:0.06, G:0.30, T:0.39
Consensus pattern (15 bp):
TTAGGCTAATAGGGT
Found at i:36297391 original size:13 final size:12
Alignment explanation
Indices: 36297343--36297392 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
36297333 TAATGATAAT
36297343 AATA-ATAAAAA
1 AATAGATAAAAA
*
36297354 AATAAATAAAAA
1 AATAGATAAAAA
* *
36297366 TATAGA-AATAA
1 AATAGATAAAAA
36297377 AATACGATAAAAA
1 AATA-GATAAAAA
36297390 AAT
1 AAT
36297393 GAAGACAATT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
11 11 0.35
12 13 0.42
13 7 0.23
ACGTcount: A:0.74, C:0.02, G:0.04, T:0.20
Consensus pattern (12 bp):
AATAGATAAAAA
Found at i:36297473 original size:8 final size:8
Alignment explanation
Indices: 36297452--36297483 Score: 55
Period size: 8 Copynumber: 3.9 Consensus size: 8
36297442 AAATGGATAA
36297452 ATAAAAAT
1 ATAAAAAT
36297460 AGTAAAAAT
1 A-TAAAAAT
36297469 ATAAAAAT
1 ATAAAAAT
36297477 ATAAAAA
1 ATAAAAA
36297484 ACAACAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 15 0.65
9 8 0.35
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (8 bp):
ATAAAAAT
Found at i:36297484 original size:17 final size:17
Alignment explanation
Indices: 36297452--36297483 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
36297442 AAATGGATAA
36297452 ATAAAAATAGTAAAAAT
1 ATAAAAATAGTAAAAAT
36297469 ATAAAAATA-TAAAAA
1 ATAAAAATAGTAAAAA
36297484 ACAACAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (17 bp):
ATAAAAATAGTAAAAAT
Found at i:36298920 original size:44 final size:44
Alignment explanation
Indices: 36298838--36298993 Score: 140
Period size: 44 Copynumber: 3.6 Consensus size: 44
36298828 TTTCAGTATG
* * * * *
36298838 CTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTA
1 CTCCACTGCAACTTTAGGGAGATAAGACTTGTGACTTCAATCTA
* *
36298882 CTCCACTGCAACTTTAGGGAGATAAGACTTGTAACTTCAACCTA
1 CTCCACTGCAACTTTAGGGAGATAAGACTTGTGACTTCAATCTA
* * * * * * *
36298926 TTCAATTGCAACATTAAGGAGATAAG--TTTTGA-TAT-GATCTA
1 CTCCACTGCAACTTTAGGGAGATAAGACTTGTGACT-TCAATCTA
*
36298967 CTCTACTGCAACTTTAGGGAGATAAGA
1 CTCCACTGCAACTTTAGGGAGATAAGA
36298994 TCTGTAATTT
Statistics
Matches: 89, Mismatches: 21, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
41 26 0.29
42 5 0.06
44 58 0.65
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.29
Consensus pattern (44 bp):
CTCCACTGCAACTTTAGGGAGATAAGACTTGTGACTTCAATCTA
Found at i:36299165 original size:143 final size:143
Alignment explanation
Indices: 36298962--36299767 Score: 1062
Period size: 143 Copynumber: 5.6 Consensus size: 143
36298952 TTTTGATATG
* * * * * * *
36298962 ATCTACTCTACTGCAACTTTAGGGAGATAAGATCTG---TAATTTATAGCTTTAATCTGTTCCAT
1 ATCTGCTCCACTGCAACTTCAGGAAGATAAGATCCGCCATAATTTGTAGCTTTAATCTGTTCCAC
* * * ***
36299024 TGCAACT-TCAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCCACTACAACTTCAAAAAGATAA
66 TGCAA-TGCCAGGGAAATAAGATTCGCTGTCTTCAGTCTGCTCCGCTACAACTTCAGGGAGATAA
36299088 GGCTGGTGGCTTCA
130 GGCTGGTGGCTTCA
* * *
36299102 ACCTGCTCCACTGCAACTTCAGGAAGATAAGATCCGTCATAATTTGTAGATTTAATCTGTTCCAC
1 ATCTGCTCCACTGCAACTTCAGGAAGATAAGATCCGCCATAATTTGTAGCTTTAATCTGTTCCAC
* * * *
36299167 TGCAACGCCAGAGAAATAAGATTCGTTGTCTTCAGTCTGCTTCGCTACAACTTCAGGGAGATAAG
66 TGCAATGCCAGGGAAATAAGATTCGCTGTCTTCAGTCTGCTCCGCTACAACTTCAGGGAGATAAG
* *
36299232 GATGGTGGATTCA
131 GCTGGTGGCTTCA
* * * ** *
36299245 ATCTGCTCCATTACAACTTCAGGAAGATAAGATCTGTAATAATTTGTAGCTTTAATGTGTTCCAC
1 ATCTGCTCCACTGCAACTTCAGGAAGATAAGATCCGCCATAATTTGTAGCTTTAATCTGTTCCAC
** * * * *
36299310 TGCAATGCCAGGGAAATAAGATTCATTTTCTTCAGTCTACTCTGCTACAACTTCAAGGAGATAAG
66 TGCAATGCCAGGGAAATAAGATTCGCTGTCTTCAGTCTGCTCCGCTACAACTTCAGGGAGATAAG
*
36299375 GCTAGTGGCTTCA
131 GCTGGTGGCTTCA
* ** **
36299388 ATCTGCTCCACTTCAACTTCAGGAAGATAAGATCTACCATAATTTGTATTTTTAATCTGTTCCAC
1 ATCTGCTCCACTGCAACTTCAGGAAGATAAGATCCGCCATAATTTGTAGCTTTAATCTGTTCCAC
* *
36299453 TGCAATGCCAGGGAAATAAGATTCGCTGTCTTCAGTCTGCTCCGCTGCAACTTCAGGGAAATAAG
66 TGCAATGCCAGGGAAATAAGATTCGCTGTCTTCAGTCTGCTCCGCTACAACTTCAGGGAGATAAG
36299518 GCTGGTGGCTTCA
131 GCTGGTGGCTTCA
* * * *
36299531 ATTTGCTCCACTGCAACTTCAGGAAGATAAGATCCGCCATAATTTATAGGTTTAATCTATTCCAC
1 ATCTGCTCCACTGCAACTTCAGGAAGATAAGATCCGCCATAATTTGTAGCTTTAATCTGTTCCAC
* * * * *
36299596 TGCAACGCCAGGGAAAAATAAGATTCGTTGTCTTCAGTCTGCTCCGCTGCAATTTTAGGGAGATA
66 TGCAATGCCAGGG--AAATAAGATTCGCTGTCTTCAGTCTGCTCCGCTACAACTTCAGGGAGATA
36299661 AGGCTGGTGGCTTCA
129 AGGCTGGTGGCTTCA
* * *
36299676 ATCTGCTCCACTGCAACTTCATGAAGATAAGATCTGCCAGAATTTGTAGCTTTAATCTGTTCCAC
1 ATCTGCTCCACTGCAACTTCAGGAAGATAAGATCCGCCATAATTTGTAGCTTTAATCTGTTCCAC
*
36299741 TACAATGCCAGGGAAATAAGATTCGCT
66 TGCAATGCCAGGGAAATAAGATTCGCT
36299768 ATAATGACTT
Statistics
Matches: 581, Mismatches: 79, Indels: 9
0.87 0.12 0.01
Matches are distributed among these distances:
140 30 0.05
143 421 0.72
145 130 0.22
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (143 bp):
ATCTGCTCCACTGCAACTTCAGGAAGATAAGATCCGCCATAATTTGTAGCTTTAATCTGTTCCAC
TGCAATGCCAGGGAAATAAGATTCGCTGTCTTCAGTCTGCTCCGCTACAACTTCAGGGAGATAAG
GCTGGTGGCTTCA
Found at i:36299516 original size:45 final size:44
Alignment explanation
Indices: 36299441--36299563 Score: 124
Period size: 44 Copynumber: 2.8 Consensus size: 44
36299431 TTGTATTTTT
* * *
36299441 AATCTGTTCCACTGCAA-TGCCAGGGAAATAAGATTCGCTGTCTTC
1 AATCTGCTCCACTGCAACT-TCAGGGAAATAAGATT-GCTGGCTTC
* * ** *
36299486 AGTCTGCTCCGCTGCAACTTCAGGGAAATAAGGCTGGTGGCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAAATAAGATTGCTGGCTTC
*
36299530 AATTTGCTCCACTGCAACTTCA-GGAAGATAAGAT
1 AATCTGCTCCACTGCAACTTCAGGGAA-ATAAGAT
36299564 CCGCCATAAT
Statistics
Matches: 63, Mismatches: 13, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
43 4 0.06
44 31 0.49
45 27 0.43
46 1 0.02
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.27
Consensus pattern (44 bp):
AATCTGCTCCACTGCAACTTCAGGGAAATAAGATTGCTGGCTTC
Found at i:36300649 original size:17 final size:16
Alignment explanation
Indices: 36300627--36300678 Score: 68
Period size: 17 Copynumber: 3.1 Consensus size: 16
36300617 GGCCTCTCCC
36300627 TTTCTTTTTCTTTCTTT
1 TTTCTTTTTCTTT-TTT
36300644 TTTCTTTTATCTTTTTT
1 TTTCTTTT-TCTTTTTT
*
36300661 CTCTCTTTTTCTTTTTT
1 -TTTCTTTTTCTTTTTT
36300678 T
1 T
36300679 AAGTGAAGTA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
16 1 0.03
17 19 0.59
18 12 0.38
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTCTTTTTCTTTTTT
Found at i:36303264 original size:5 final size:5
Alignment explanation
Indices: 36303254--36303293 Score: 50
Period size: 5 Copynumber: 8.4 Consensus size: 5
36303244 AATGCATTTG
36303254 ATGCA ATGCA ATGCTA ATGC- ATG-A ATGCA ATG-A ATGCA AT
1 ATGCA ATGCA ATGC-A ATGCA ATGCA ATGCA ATGCA ATGCA AT
36303294 AAATGCAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
4 10 0.32
5 16 0.52
6 5 0.16
ACGTcount: A:0.40, C:0.15, G:0.20, T:0.25
Consensus pattern (5 bp):
ATGCA
Found at i:36303288 original size:9 final size:9
Alignment explanation
Indices: 36303258--36303301 Score: 54
Period size: 9 Copynumber: 4.8 Consensus size: 9
36303248 CATTTGATGC
36303258 AATGCAATG
1 AATGCAATG
36303267 CTAATGC-ATG
1 --AATGCAATG
36303277 AATGCAATG
1 AATGCAATG
*
36303286 AATGCAATA
1 AATGCAATG
36303295 AATGCAA
1 AATGCAA
36303302 AAAAGAGGCG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
8 5 0.16
9 18 0.58
10 3 0.10
11 5 0.16
ACGTcount: A:0.45, C:0.14, G:0.18, T:0.23
Consensus pattern (9 bp):
AATGCAATG
Found at i:36305409 original size:11 final size:9
Alignment explanation
Indices: 36305375--36305419 Score: 51
Period size: 9 Copynumber: 5.2 Consensus size: 9
36305365 AAATGGATAA
36305375 ATAAAA-AT
1 ATAAAATAT
36305383 AGTAAAATAT
1 A-TAAAATAT
36305393 ATAAAATAT
1 ATAAAATAT
36305402 ATAAAA-A-
1 ATAAAATAT
*
36305409 ACAAAATAT
1 ATAAAATAT
36305418 AT
1 AT
36305420 TTAAGGAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
7 5 0.16
8 3 0.10
9 20 0.65
10 3 0.10
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (9 bp):
ATAAAATAT
Found at i:36307116 original size:48 final size:48
Alignment explanation
Indices: 36306980--36307119 Score: 131
Period size: 48 Copynumber: 2.9 Consensus size: 48
36306970 AAGGTGGAAG
* * * * * *
36306980 TATATGGCAGTTTATCTACATTAATGTGACACGGCTCACAATTCTGAT
1 TATATGGCAGTTTATCTACGTTACTGTGACACTGTTCATAATTTTGAT
* * * * *
36307028 TATATGGCAGTTTATCTACGACT-CTCGTGGC-TTGTCCATAATTTTGTT
1 TATATGGCAGTTTATCTACG-TTACT-GTGACACTGTTCATAATTTTGAT
* *
36307076 TATATGGCAGTTTATTTGCGTTACTGTGACACTGTTCATAATTT
1 TATATGGCAGTTTATCTACGTTACTGTGACACTGTTCATAATTT
36307120 GGTGTGTTTG
Statistics
Matches: 71, Mismatches: 17, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
47 5 0.07
48 61 0.86
49 5 0.07
ACGTcount: A:0.24, C:0.17, G:0.18, T:0.41
Consensus pattern (48 bp):
TATATGGCAGTTTATCTACGTTACTGTGACACTGTTCATAATTTTGAT
Found at i:36310156 original size:40 final size:40
Alignment explanation
Indices: 36310112--36310373 Score: 328
Period size: 39 Copynumber: 6.7 Consensus size: 40
36310102 GCTCCTCGTT
* *
36310112 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
36310152 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
*
36310192 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
36310231 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
36310270 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
36310309 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
36310350 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
36310374 CATCATTCAA
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
38 2 0.01
39 126 0.62
40 64 0.32
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:36318189 original size:40 final size:40
Alignment explanation
Indices: 36318145--36318406 Score: 319
Period size: 39 Copynumber: 6.7 Consensus size: 40
36318135 GCTCCTCGTT
* *
36318145 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
36318185 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
*
36318225 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
36318264 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
*
36318303 CAAATGCCTTCGGG-CTTAGCCCAGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
36318342 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
36318383 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
36318407 CATCATTCAA
Statistics
Matches: 201, Mismatches: 13, Indels: 17
0.87 0.06 0.07
Matches are distributed among these distances:
38 2 0.01
39 125 0.62
40 63 0.31
41 11 0.05
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:36354874 original size:25 final size:26
Alignment explanation
Indices: 36354839--36354887 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
36354829 TAATGGACAT
*
36354839 TCAAAGAAGTGCTATAAATATTTTCA
1 TCAAAGAAGTGCTATAAACATTTTCA
*
36354865 TCAAA-AAGTGTTATAAACATTTT
1 TCAAAGAAGTGCTATAAACATTTT
36354888 ATTATTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 16 0.76
26 5 0.24
ACGTcount: A:0.43, C:0.10, G:0.10, T:0.37
Consensus pattern (26 bp):
TCAAAGAAGTGCTATAAACATTTTCA
Found at i:36354974 original size:29 final size:29
Alignment explanation
Indices: 36354932--36354989 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
36354922 TAAGATTCTG
*
36354932 ATGTTCATTAAAAGTAAAACTTTATTTTA
1 ATGTCCATTAAAAGTAAAACTTTATTTTA
36354961 ATGTCCATTAAAAGTAAAACTTTATTTTA
1 ATGTCCATTAAAAGTAAAACTTTATTTTA
36354990 TTTATGCTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.41, C:0.09, G:0.07, T:0.43
Consensus pattern (29 bp):
ATGTCCATTAAAAGTAAAACTTTATTTTA
Found at i:36362568 original size:222 final size:210
Alignment explanation
Indices: 36362259--36362686 Score: 649
Period size: 222 Copynumber: 2.0 Consensus size: 210
36362249 TTTTATTTTT
* * * *
36362259 TTCGTATTTTTATATCTGATTCTGACACGAAAAAAATAAAAAAATTTTGTATTGTGTACAGGGTG
1 TTCGTAATTTTATATCTGATTCTGACACAAAAAAAATAAAAAAATTTAGTACTGTGTACAGGGTG
* *
36362324 CCGACCATTGACAGGCCAGCACCCAAAAAATTTTTTTTAATTTTTTTTCGTATTTTTATATCTGA
66 CCGACCATTGACAGGCCAGCACCCAAAAAAATTTTTTTAATTTCTTTTCGTATTTTTATATCTGA
36362389 TTCTGACACGAAAAAAATAAAAGAAAAAAATTTTTTTTGTACTGTGTACTGGGTGCCAGCCATTG
131 TTCTGACACGAAAAAAAT---A-AAAAAAA----TTTTGTACTGTGTACTGGGTGCCAGCCATTG
36362454 ACAGGCCAGCACCCAAAAAAAAA
188 ACAGGCCAGCACCCAAAAAAAAA
**
36362477 TTCGTAATTTTATATCTGATTCTGACACAAAAAAAATAAAAAAAAAAATTTAGTACTGTGTATTG
1 TTCGTAATTTTATATCTGATTCTGACACAAAAAAAAT----AAAAAAATTTAGTACTGTGTACAG
*
36362542 GGTGCCGGCCATTGACAGGCCAGCACCCAAAAAAATTTTTTTAATTTCTTTTCGTATTTTTATAT
62 GGTGCCGACCATTGACAGGCCAGCACCCAAAAAAATTTTTTTAATTTCTTTTCGTATTTTTATAT
*
36362607 CTGATTCTGACACGAAAAAAATAAAAAAAATTTTGTACTGTGTACTGGGTGCCGGCCATTGACAG
127 CTGATTCTGACACGAAAAAAATAAAAAAAATTTTGTACTGTGTACTGGGTGCCAGCCATTGACAG
*
36362672 GTCAGCACCCAAAAA
192 GCCAGCACCCAAAAA
36362687 TTTTTTTTTA
Statistics
Matches: 195, Mismatches: 11, Indels: 12
0.89 0.05 0.06
Matches are distributed among these distances:
214 48 0.25
218 42 0.22
219 1 0.01
222 104 0.53
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.32
Consensus pattern (210 bp):
TTCGTAATTTTATATCTGATTCTGACACAAAAAAAATAAAAAAATTTAGTACTGTGTACAGGGTG
CCGACCATTGACAGGCCAGCACCCAAAAAAATTTTTTTAATTTCTTTTCGTATTTTTATATCTGA
TTCTGACACGAAAAAAATAAAAAAAATTTTGTACTGTGTACTGGGTGCCAGCCATTGACAGGCCA
GCACCCAAAAAAAAA
Found at i:36362705 original size:115 final size:114
Alignment explanation
Indices: 36362186--36362714 Score: 600
Period size: 112 Copynumber: 4.7 Consensus size: 114
36362176 TAAAAATACG
* * **
36362186 AAAAAAAAATTTTGTACTGTGTACTGGGTGCC-GACATTGACAGGCCAGCACCC-AAAATTTTTT
1 AAAAAAAAATTTAGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAAATTTT
* *
36362249 TTTTA-TT-TTTTTCGTATTTTTATATCTGATTCTGACACGAAAAAAAT
66 TTTAATTTCTTTTTCGTATTTTTATATCTGATTCTGACACAAAAAAAAT
* * * * *
36362296 --AAAAAAATTTTGTATTGTGTACAGGGTGCCGACCATTGACAGGCCAGCACCCAAAAAATTTTT
1 AAAAAAAAATTTAGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAAATTTT
*
36362359 TTTAATTT-TTTTTCGTATTTTTATATCTGATTCTGACACGAAAAAAATAA
66 TTTAATTTCTTTTTCGTATTTTTATATCTGATTCTGACAC-AAAAAAA-AT
* *
36362409 AAGAAAAAAATTTTTTTTGTACTGTGTACTGGGTGCCAGCCATTGACAGGCCAGCACCCAAAAAA
1 AA-AAAAAAA----TTTAGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAA
*
36362474 A-------AA-------TTCGTAATTTTATATCTGATTCTGACACAAAAAAAAT
61 ATTTTTTTAATTTCTTTTTCGTATTTTTATATCTGATTCTGACACAAAAAAAAT
*
36362514 AAAAAAAAAAATTTAGTACTGTGTATTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAAATT
1 --AAAAAAAAATTTAGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAAATT
*
36362579 TTTTTAATTTC-TTTTCGTATTTTTATATCTGATTCTGACACGAAAAAAAT
64 TTTTTAATTTCTTTTTCGTATTTTTATATCTGATTCTGACACAAAAAAAAT
* * **
36362629 -AAAAAAAATTTTGTACTGTGTACTGGGTGCCGGCCATTGACAGGTCAGCACCCAAAAATTTTTT
1 AAAAAAAAATTTAGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAAATTTT
36362693 TTTAATTTTTTCTTTTTCGTAT
66 TTTAA---TTTCTTTTTCGTAT
36362715 ATCCGTCTAT
Statistics
Matches: 363, Mismatches: 25, Indels: 56
0.82 0.06 0.13
Matches are distributed among these distances:
102 49 0.13
105 1 0.00
106 14 0.04
107 29 0.08
108 28 0.08
109 21 0.06
110 13 0.04
111 33 0.09
112 70 0.19
113 3 0.01
115 39 0.11
116 16 0.04
120 47 0.13
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (114 bp):
AAAAAAAAATTTAGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAAATTTT
TTTAATTTCTTTTTCGTATTTTTATATCTGATTCTGACACAAAAAAAAT
Found at i:36365992 original size:17 final size:17
Alignment explanation
Indices: 36365970--36366003 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
36365960 TATTAAAGTA
36365970 AAGTATAAGTCAAATGG
1 AAGTATAAGTCAAATGG
36365987 AAGTATAAGTCAAATGG
1 AAGTATAAGTCAAATGG
36366004 CGTATAAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.06, G:0.24, T:0.24
Consensus pattern (17 bp):
AAGTATAAGTCAAATGG
Found at i:36377839 original size:22 final size:22
Alignment explanation
Indices: 36377801--36377843 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
36377791 ACCACAATGC
36377801 AAACAATCCATCAAGCATCAACA
1 AAACAATCCATCAAGCA-CAACA
36377824 AAACAAT-CAT-ATAGCACAAC
1 AAACAATCCATCA-AGCACAAC
36377844 CTCAATAGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 5 0.26
22 7 0.37
23 7 0.37
ACGTcount: A:0.53, C:0.28, G:0.05, T:0.14
Consensus pattern (22 bp):
AAACAATCCATCAAGCACAACA
Found at i:36378142 original size:39 final size:39
Alignment explanation
Indices: 36377925--36378143 Score: 305
Period size: 39 Copynumber: 5.6 Consensus size: 39
36377915 CATATTCACT
*
36377925 TTTAAGCATATATCACATTACAT-ATATAATCACATAACA
1 TTTAAGCATATATCACAATAC-TCATATAATCACATAACA
*
36377964 TTTAAGCATATATCACAATACTCTTATAATCACATAACA
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
* *
36378003 TTTAAACATATATCACAATACTAATATAATCACATAACA
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
* * *
36378042 TTTAAGCGTATATCATAATACTCATATAATTACATAACA
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
* * * *
36378081 CTCAAGCATGTATCACAATACTCTTATAATCACATAACA
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
* *
36378120 TTCAAGCATATATCACAGTACTCA
1 TTTAAGCATATATCACAATACTCA
36378144 AAACCATGTT
Statistics
Matches: 158, Mismatches: 21, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
38 1 0.01
39 157 0.99
ACGTcount: A:0.44, C:0.20, G:0.04, T:0.32
Consensus pattern (39 bp):
TTTAAGCATATATCACAATACTCATATAATCACATAACA
Found at i:36383133 original size:35 final size:36
Alignment explanation
Indices: 36383094--36383161 Score: 95
Period size: 35 Copynumber: 1.9 Consensus size: 36
36383084 TAGTAGCACA
*
36383094 ATATAATCT-CTGTCATATGGCATGAA-AACATATCT
1 ATAT-ATCTACTGTCACATGGCATGAATAACATATCT
*
36383129 ATATATTTACTGTCACATGGCATGAATAACATA
1 ATATATCTACTGTCACATGGCATGAATAACATA
36383162 CCCTCGTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
34 3 0.10
35 20 0.69
36 6 0.21
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (36 bp):
ATATATCTACTGTCACATGGCATGAATAACATATCT
Found at i:36386523 original size:21 final size:22
Alignment explanation
Indices: 36386499--36386541 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
36386489 TTTTTGACAT
36386499 TTTGACTTTTT-TTTTCTCTTG
1 TTTGACTTTTTCTTTTCTCTTG
**
36386520 TTTGGTTTTTTCTTTTCTCTTG
1 TTTGACTTTTTCTTTTCTCTTG
36386542 GTTGGAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.02, C:0.14, G:0.12, T:0.72
Consensus pattern (22 bp):
TTTGACTTTTTCTTTTCTCTTG
Found at i:36386530 original size:22 final size:22
Alignment explanation
Indices: 36386505--36386546 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
36386495 ACATTTTGAC
*
36386505 TTTTT-TTTTCTCTTGTTTGGT
1 TTTTTCTTTTCTCTTGGTTGGT
36386526 TTTTTCTTTTCTCTTGGTTGG
1 TTTTTCTTTTCTCTTGGTTGG
36386547 AAAAACTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.00, C:0.12, G:0.17, T:0.71
Consensus pattern (22 bp):
TTTTTCTTTTCTCTTGGTTGGT
Found at i:36391424 original size:27 final size:27
Alignment explanation
Indices: 36391391--36391612 Score: 270
Period size: 27 Copynumber: 8.3 Consensus size: 27
36391381 CCCTAAAATA
* *
36391391 GGTAAAATAACCAAAATACCCCTATAG
1 GGTAAAATGACCGAAATACCCCTATAG
*
36391418 GATAAAATGACCGAAATA-CCCTATAG
1 GGTAAAATGACCGAAATACCCCTATAG
** *
36391444 GGTAAAATGATTGAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCTATAG
* * *
36391471 GGTAAAATAATCGAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCTATAG
* *
36391498 GGTAAAATGATCGAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCTATAG
* *
36391525 GGTAAAATGATCAAAATACCCCTATAG
1 GGTAAAATGACCGAAATACCCCTATAG
* *
36391552 GGTAGAATGACCAAAATACCCC-ATAG
1 GGTAAAATGACCGAAATACCCCTATAG
*
36391578 GGTAAAATAACCGAAATA-CCCTCATAG
1 GGTAAAATGACCGAAATACCCCT-ATAG
36391605 GGTAAAAT
1 GGTAAAAT
36391613 AAATGTTATA
Statistics
Matches: 175, Mismatches: 17, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
25 3 0.02
26 42 0.24
27 130 0.74
ACGTcount: A:0.44, C:0.20, G:0.16, T:0.19
Consensus pattern (27 bp):
GGTAAAATGACCGAAATACCCCTATAG
Found at i:36391575 original size:80 final size:80
Alignment explanation
Indices: 36391391--36391612 Score: 311
Period size: 80 Copynumber: 2.8 Consensus size: 80
36391381 CCCTAAAATA
* *
36391391 GGTAAAATAACCAAAATACCCCTATAGGATAAAATGACCGAAATA-CCCTATAGGGTAAAATGAT
1 GGTAAAATAACCAAAATACCCC-ATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGAT
**
36391455 TGAAATACCCCCATAG
65 CAAAATACCCCCATAG
* * *
36391471 GGTAAAATAATCGAAATACCCCCATAGGGTAAAATGATCGAAATACCCCCATAGGGTAAAATGAT
1 GGTAAAATAACCAAAATA-CCCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGAT
*
36391536 CAAAATACCCCTATAG
65 CAAAATACCCCCATAG
* * * *
36391552 GGTAGAATGACCAAAATACCCCATAGGGTAAAATAACCGAAATACCCTCATAGGGTAAAAT
1 GGTAAAATAACCAAAATACCCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAAT
36391613 AAATGTTATA
Statistics
Matches: 125, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
80 76 0.61
81 49 0.39
ACGTcount: A:0.44, C:0.20, G:0.16, T:0.19
Consensus pattern (80 bp):
GGTAAAATAACCAAAATACCCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGATC
AAAATACCCCCATAG
Found at i:36395001 original size:6 final size:6
Alignment explanation
Indices: 36394990--36395019 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
36394980 AAAGATAATC
36394990 ACACAT ACACAT ACACAT ACACAT ACACAT
1 ACACAT ACACAT ACACAT ACACAT ACACAT
36395020 GGAAGTAAGA
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:0.50, C:0.33, G:0.00, T:0.17
Consensus pattern (6 bp):
ACACAT
Found at i:36403364 original size:44 final size:45
Alignment explanation
Indices: 36403316--36403403 Score: 115
Period size: 44 Copynumber: 2.0 Consensus size: 45
36403306 ATCCGTATGT
** * *
36403316 ATGAATCTGCTATGATCATGAAG-TTCTTTTATGAATCTACATGA
1 ATGAATCCACTATGATCATAAAGTTTCTTCTATGAATCTACATGA
* *
36403360 ATGAATCCACTATGTTCATAAAGTTTCTTCTATGAATCTGCATG
1 ATGAATCCACTATGATCATAAAGTTTCTTCTATGAATCTACATG
36403404 TTTGTATCAG
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
44 19 0.51
45 18 0.49
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.39
Consensus pattern (45 bp):
ATGAATCCACTATGATCATAAAGTTTCTTCTATGAATCTACATGA
Found at i:36403471 original size:45 final size:45
Alignment explanation
Indices: 36403430--36403515 Score: 129
Period size: 45 Copynumber: 1.9 Consensus size: 45
36403420 CCATGAAGTT
* *
36403430 TCTTCTATGAATTTGCATTTATGA-GTCCACCATATCTATGAATCA
1 TCTTCTATGAATTCGCATGTAT-ATGTCCACCATATCTATGAATCA
*
36403475 TCTTCTATGAATTCGTATGTATATGTCCACCATATCTATGA
1 TCTTCTATGAATTCGCATGTATATGTCCACCATATCTATGA
36403516 TTCTTTTTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
44 1 0.03
45 36 0.97
ACGTcount: A:0.28, C:0.20, G:0.12, T:0.41
Consensus pattern (45 bp):
TCTTCTATGAATTCGCATGTATATGTCCACCATATCTATGAATCA
Found at i:36403540 original size:45 final size:45
Alignment explanation
Indices: 36403430--36403541 Score: 113
Period size: 45 Copynumber: 2.5 Consensus size: 45
36403420 CCATGAAGTT
* * *
36403430 TCTTCTATGAATTTGCATTTATGA-GTCCACCATATCTATGAATCA
1 TCTTCTATCAATTCGCATGTAT-ATGTCCACCATATCTATGAATCA
* * *
36403475 TCTTCTATGAATTCGTATGTATATGTCCACCATATCTATGATTC-
1 TCTTCTATCAATTCGCATGTATATGTCCACCATATCTATGAATCA
*
36403519 T-TTTTATACAAGTTCGCATGTAT
1 TCTTCTAT-CAA-TTCGCATGTAT
36403542 GAGTCTGTTA
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
43 5 0.09
44 4 0.07
45 48 0.84
ACGTcount: A:0.27, C:0.19, G:0.12, T:0.43
Consensus pattern (45 bp):
TCTTCTATCAATTCGCATGTATATGTCCACCATATCTATGAATCA
Found at i:36408378 original size:20 final size:20
Alignment explanation
Indices: 36408355--36408405 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
36408345 CAGGGACACT
* *
36408355 GAAGTGTATATAGGGGCACC
1 GAAGTGTAAATAGGGGAACC
*
36408375 GAAGTCTAAATAGGGGAACC
1 GAAGTGTAAATAGGGGAACC
* *
36408395 AAAGTGCAAAT
1 GAAGTGTAAAT
36408406 CTCGTACAAA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.39, C:0.14, G:0.29, T:0.18
Consensus pattern (20 bp):
GAAGTGTAAATAGGGGAACC
Found at i:36432740 original size:50 final size:50
Alignment explanation
Indices: 36432575--36433071 Score: 654
Period size: 50 Copynumber: 9.8 Consensus size: 50
36432565 TTTCTTGTAC
* * * * * ** * *
36432575 TGCCAATGTCATATCGCAGATATGGTCTTACATGAGAGTTCTCATATAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * *
36432625 TGCCCATGCCATGTCCCAGACATGGTCTTAC-GGGGACCTGTCATCTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
36432674 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGTACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
36432724 TGTCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
36432774 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * *
36432824 TGCCAATGCCATGCCCCAGAAATGGTCTTACATGGAACCTCTCATCTCAG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
36432874 TGCCAATGCCATGTCCCAGACATTGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
36432924 TGCCAACGCCCTGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
36432974 TGCCAATACCATGTCCTAGACATGGTCTTACATGGGACCTCTCATAATCTCAACGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCT---CGG
*
36433030 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
36433072 TTACCCAAAT
Statistics
Matches: 393, Mismatches: 47, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
49 40 0.10
50 308 0.78
53 4 0.01
56 41 0.10
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:36435465 original size:16 final size:17
Alignment explanation
Indices: 36435437--36435470 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
36435427 GATAATGAAT
36435437 TCAAAGAGATTTATAGC
1 TCAAAGAGATTTATAGC
36435454 TCAAAG-GATTTATAGC
1 TCAAAGAGATTTATAGC
36435470 T
1 T
36435471 TGGTTTTCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.32
Consensus pattern (17 bp):
TCAAAGAGATTTATAGC
Found at i:36440735 original size:14 final size:14
Alignment explanation
Indices: 36440713--36440751 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
36440703 CTGGTCCAGT
*
36440713 TGAATTGAACCGAG
1 TGAACTGAACCGAG
*
36440727 TGAACTGAATCGAG
1 TGAACTGAACCGAG
*
36440741 TGAACCGAACC
1 TGAACTGAACC
36440752 AACCAAGAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.36, C:0.21, G:0.26, T:0.18
Consensus pattern (14 bp):
TGAACTGAACCGAG
Found at i:36448052 original size:30 final size:30
Alignment explanation
Indices: 36448016--36448074 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
36448006 AAATTATTTT
* * *
36448016 TAAAAATTTGGTGGCTCTTTTTGTAAATAC
1 TAAAAATTAGATGCCTCTTTTTGTAAATAC
36448046 TAAAAATTAGATGCCTCTTTTTGTAAATA
1 TAAAAATTAGATGCCTCTTTTTGTAAATA
36448075 TTTTCAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.34, C:0.10, G:0.14, T:0.42
Consensus pattern (30 bp):
TAAAAATTAGATGCCTCTTTTTGTAAATAC
Found at i:36465254 original size:43 final size:41
Alignment explanation
Indices: 36465207--36465626 Score: 236
Period size: 43 Copynumber: 9.9 Consensus size: 41
36465197 AACACATAAA
**
36465207 TGCATCATTGGATAAACCAACGCAATTATACTGGCACACACAG
1 TGCATCATCAGATAAACCAA-G-AATTATACTGGCACACACAG
* * ** *
36465250 TGCATCATCAGATATACCGAAGTATCTATACCAGCACACACAA
1 TGCATCATCAGATAAACC-AAGAAT-TATACTGGCACACACAG
* **
36465293 TTCATCATCAGAT--ATGAAGAATTTATACTGGCACACACAG
1 TGCATCATCAGATAAACCAAGAA-TTATACTGGCACACACAG
* * * *
36465333 TGTATCATCAGATAAACCAAAGTATGTATACTAGCACATACAG
1 TGCATCATCAGATAAACC-AAGAAT-TATACTGGCACACACAG
* * * * *
36465376 TGCATCATCGGATAAACTAAAAAAATATACTGGCATACACAG
1 TGCATCATCAGATAAAC-CAAGAATTATACTGGCACACACAG
* * * * **
36465418 TGCATTATCGGATAAATCGAAGAAAATATACTACCACACA-AG
1 TGCATCATCAGATAAA-CCAAG-AATTATACTGGCACACACAG
* * * ** *
36465460 TGCAAT-ACCAGATAAACCGAAGAAAATATATTGGCATGCATAG
1 TGC-ATCATCAGATAAACC-AAG-AATTATACTGGCACACACAG
* * * ** *
36465503 TGCATCATCGGATAAACCAAAGAAAATATATTGGCATGCATAG
1 TGCATCATCAGATAAACC-AAG-AATTATACTGGCACACACAG
* * *
36465546 TGCATCATCAGATAAACCGAAGAAAATATATTGGCACACATAG
1 TGCATCATCAGATAAACC-AAG-AATTATACTGGCACACACAG
* * * * *
36465589 TTCATAATCAGACAAGCCTAAGCAATTATATTGGCACA
1 TGCATCATCAGATAAACC-AAG-AATTATACTGGCACA
36465627 TATAATGCAT
Statistics
Matches: 305, Mismatches: 58, Indels: 28
0.78 0.15 0.07
Matches are distributed among these distances:
40 29 0.10
41 3 0.01
42 66 0.22
43 205 0.67
44 2 0.01
ACGTcount: A:0.42, C:0.20, G:0.15, T:0.23
Consensus pattern (41 bp):
TGCATCATCAGATAAACCAAGAATTATACTGGCACACACAG
Found at i:36465320 original size:40 final size:41
Alignment explanation
Indices: 36465240--36465346 Score: 119
Period size: 40 Copynumber: 2.6 Consensus size: 41
36465230 AATTATACTG
* *
36465240 GCACACACAGTGCATCATCAGATATACCGAAGTATCTATACCA
1 GCACACACAGTTCATCATCAGATAT--CGAAGAATCTATACCA
* * **
36465283 GCACACACAATTCATCATCAGATAT-GAAGAATTTATACTG
1 GCACACACAGTTCATCATCAGATATCGAAGAATCTATACCA
36465323 GCACACACAGTGT-ATCATCAGATA
1 GCACACACAGT-TCATCATCAGATA
36465347 AACCAAAGTA
Statistics
Matches: 56, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
40 32 0.57
41 1 0.02
43 23 0.41
ACGTcount: A:0.38, C:0.24, G:0.14, T:0.23
Consensus pattern (41 bp):
GCACACACAGTTCATCATCAGATATCGAAGAATCTATACCA
Found at i:36465326 original size:83 final size:83
Alignment explanation
Indices: 36465232--36465433 Score: 235
Period size: 83 Copynumber: 2.4 Consensus size: 83
36465222 ACCAACGCAA
* * *
36465232 TTATACTGGCACACACAGTGCATCATCAGATATACCGAAGTATCTATACCAGCACACACAATTCA
1 TTATACTGGCACACACAGTGCATCATCAGATAAACCAAAGTATCTATACCAGCACACACAATGCA
36465297 TCATCAGATATGAAGAAT
66 TCATCAGATATGAAGAAT
* * * * *
36465315 TTATACTGGCACACACAGTGTATCATCAGATAAACCAAAGTATGTATACTAGCACATACAGTGCA
1 TTATACTGGCACACACAGTGCATCATCAGATAAACCAAAGTATCTATACCAGCACACACAATGCA
* * *
36465380 TCATCGGATAAACT-AAAAAA
66 TCATCAGAT--A-TGAAGAAT
* * * *
36465400 ATATACTGGCATACACAGTGCATTATCGGATAAA
1 TTATACTGGCACACACAGTGCATCATCAGATAAA
36465434 TCGAAGAAAA
Statistics
Matches: 100, Mismatches: 16, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
83 65 0.65
85 34 0.34
86 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.14, T:0.24
Consensus pattern (83 bp):
TTATACTGGCACACACAGTGCATCATCAGATAAACCAAAGTATCTATACCAGCACACACAATGCA
TCATCAGATATGAAGAAT
Found at i:36465433 original size:85 final size:85
Alignment explanation
Indices: 36465167--36465600 Score: 306
Period size: 85 Copynumber: 5.1 Consensus size: 85
36465157 ATCGTAATGT
* * * * * ** * *
36465167 ATCATCAGATAAAACCAAAATA-ATCATGCTAACACATA-AATGCATCATTGGATAAACCAACGC
1 ATCATCAGAT-AAACCAAAGTATAT-ATACTAGCACACACAGTGCATCATCAGATAAACTAA-GA
*
36465230 AATTATACTGGCACACACAGTGC
63 AAATATACTGGCACACACAGTGC
* * * * * * *
36465253 ATCATCAGATATACCGAAGTATCTATACCAGCACACACAATTCATCATCAGAT--A-TGAAGAAT
1 ATCATCAGATAAACCAAAGTATATATACTAGCACACACAGTGCATCATCAGATAAACT-AAGAAA
* *
36465315 TTATACTGGCACACACAGTGT
65 ATATACTGGCACACACAGTGC
* * * *
36465336 ATCATCAGATAAACCAAAGTATGTATACTAGCACATACAGTGCATCATCGGATAAACTAAAAAAA
1 ATCATCAGATAAACCAAAGTATATATACTAGCACACACAGTGCATCATCAGATAAACTAAGAAAA
*
36465401 TATACTGGCATACACAGTGC
66 TATACTGGCACACACAGTGC
* * * * * * * * *
36465421 ATTATCGGATAAATCGAAGAAAATATACTACCACACA-AGTGCAAT-ACCAGATAAACCGAAGAA
1 ATCATCAGATAAACCAAAGTATATATACTAGCACACACAGTGC-ATCATCAGATAAA-CTAAGAA
* ** *
36465484 AATATATTGGCATGCATAGTGC
64 AATATACTGGCACACACAGTGC
* * * * * ** * *
36465506 ATCATCGGATAAACCAAAGAAAATATATTGGCATGCATAGTGCATCATCAGATAAACCGAAGAAA
1 ATCATCAGATAAACCAAAGTATATATACTAGCACACACAGTGCATCATCAGATAAA-CTAAGAAA
* * *
36465571 ATATATTGGCACACATAGTTC
65 ATATACTGGCACACACAGTGC
*
36465592 ATAATCAGA
1 ATCATCAGA
36465601 CAAGCCTAAG
Statistics
Matches: 280, Mismatches: 58, Indels: 20
0.78 0.16 0.06
Matches are distributed among these distances:
83 67 0.24
84 16 0.06
85 125 0.45
86 72 0.26
ACGTcount: A:0.43, C:0.20, G:0.14, T:0.23
Consensus pattern (85 bp):
ATCATCAGATAAACCAAAGTATATATACTAGCACACACAGTGCATCATCAGATAAACTAAGAAAA
TATACTGGCACACACAGTGC
Found at i:36470812 original size:35 final size:37
Alignment explanation
Indices: 36470767--36470846 Score: 110
Period size: 38 Copynumber: 2.2 Consensus size: 37
36470757 GTACTGATAT
* *
36470767 GGGCTAAGGCCCAA-ACT-ATTACTGATACTGAAAAA
1 GGGCTTAGGCCCAAGACTCATTAATGATACTGAAAAA
*
36470802 GGGCTTAGGCCCAAGACTGCTTTAATGATACTGAAAAA
1 GGGCTTAGGCCCAAGACT-CATTAATGATACTGAAAAA
36470840 GGGCTTA
1 GGGCTTA
36470847 TGTTGCATTT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
35 13 0.33
36 3 0.08
38 23 0.59
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.23
Consensus pattern (37 bp):
GGGCTTAGGCCCAAGACTCATTAATGATACTGAAAAA
Found at i:36472719 original size:15 final size:15
Alignment explanation
Indices: 36472699--36472730 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
36472689 CATTTCACTA
36472699 TTATGTCTTCTGTAT
1 TTATGTCTTCTGTAT
*
36472714 TTATGTCTTTTGTAT
1 TTATGTCTTCTGTAT
36472729 TT
1 TT
36472731 TGCATGTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.12, C:0.09, G:0.12, T:0.66
Consensus pattern (15 bp):
TTATGTCTTCTGTAT
Found at i:36474989 original size:37 final size:37
Alignment explanation
Indices: 36474948--36475096 Score: 140
Period size: 37 Copynumber: 4.0 Consensus size: 37
36474938 CACCAAATAT
* * * *
36474948 TGCTCCAATGAGTAATATCTATTGATTTTACTGAATG
1 TGCTCCAAAGAGCAATATCTAATGATTATACTGAATG
* * *
36474985 TGCT-CAAACAAGCAATATCTAATGGTTATATTGAATG
1 TGCTCCAAA-GAGCAATATCTAATGATTATACTGAATG
* * *
36475022 TGCTCCAAAGAGCAATGTCTACTGATTATACAGAATG
1 TGCTCCAAAGAGCAATATCTAATGATTATACTGAATG
* * * *
36475059 TGCT-CAAACGAGCAATAACCACTGATCATACTGAATG
1 TGCTCCAAA-GAGCAATATCTAATGATTATACTGAATG
36475096 T
1 T
36475097 TTGCTCAAAC
Statistics
Matches: 91, Mismatches: 18, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
36 7 0.08
37 80 0.88
38 4 0.04
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.31
Consensus pattern (37 bp):
TGCTCCAAAGAGCAATATCTAATGATTATACTGAATG
Found at i:36475094 original size:74 final size:74
Alignment explanation
Indices: 36474948--36475123 Score: 183
Period size: 74 Copynumber: 2.4 Consensus size: 74
36474938 CACCAAATAT
* * * * * * * * *
36474948 TGCTCCAATGAGTAATATCTATTGATTTTACTGAATGTGCTCAAACAAGCAATATCTAATGGTTA
1 TGCTCCAAAGAGCAATATCTACTGATTATACAGAATGTGCTCAAACAAGCAATAACCAATGATCA
*
36475013 TATTGAATG
66 TACTGAATG
* * *
36475022 TGCTCCAAAGAGCAATGTCTACTGATTATACAGAATGTGCTCAAACGAGCAATAACCACTGATCA
1 TGCTCCAAAGAGCAATATCTACTGATTATACAGAATGTGCTCAAACAAGCAATAACCAATGATCA
36475087 TACTGAATG
66 TACTGAATG
* *
36475096 TTTGCT-CAAACGAGCATTATCCACTGAT
1 --TGCTCCAAA-GAGCAATATCTACTGAT
36475124 CATATTGAAT
Statistics
Matches: 83, Mismatches: 16, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
74 61 0.73
75 4 0.05
76 18 0.22
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (74 bp):
TGCTCCAAAGAGCAATATCTACTGATTATACAGAATGTGCTCAAACAAGCAATAACCAATGATCA
TACTGAATG
Found at i:36475111 original size:39 final size:37
Alignment explanation
Indices: 36474976--36475133 Score: 147
Period size: 37 Copynumber: 4.2 Consensus size: 37
36474966 CTATTGATTT
* * * * * *
36474976 TACTGAATGTGCTCAAACAAGCAATATCTAATGGTTA
1 TACTGAATGTGCTCAAACGAGCAATAACCACTGATCA
* ** * *
36475013 TATTGAATGTGCTCCAAA-GAGCAATGTCTACTGATTA
1 TACTGAATGTGCT-CAAACGAGCAATAACCACTGATCA
*
36475050 TACAGAATGTGCTCAAACGAGCAATAACCACTGATCA
1 TACTGAATGTGCTCAAACGAGCAATAACCACTGATCA
* *
36475087 TACTGAATGTTTGCTCAAACGAGCATTATCCACTGATCA
1 TACTGAATG--TGCTCAAACGAGCAATAACCACTGATCA
*
36475126 TATTGAAT
1 TACTGAAT
36475134 AAGATCTTCT
Statistics
Matches: 102, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
36 4 0.04
37 61 0.60
38 4 0.04
39 33 0.32
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.29
Consensus pattern (37 bp):
TACTGAATGTGCTCAAACGAGCAATAACCACTGATCA
Found at i:36476604 original size:39 final size:39
Alignment explanation
Indices: 36476549--36476798 Score: 313
Period size: 39 Copynumber: 6.4 Consensus size: 39
36476539 AGTAGATAAT
** * *
36476549 TGTTGTACTTCGGTACCCCTGATTGCAGTTATGTGCCCC
1 TGTTGTACTTCGGTACCCCTGACCGCACTTACGTGCCCC
* * * *
36476588 TGTTGTACTTCAGTACCCCTAACCGTACTTACGTACCCC
1 TGTTGTACTTCGGTACCCCTGACCGCACTTACGTGCCCC
* *
36476627 TGTTGTACTTCGGTACCTCTGACAGCACTTACGTGCCCC
1 TGTTGTACTTCGGTACCCCTGACCGCACTTACGTGCCCC
* * *
36476666 TGTTGTACTTTGGTACCCCTGATCGCACTTACGTGCCAC
1 TGTTGTACTTCGGTACCCCTGACCGCACTTACGTGCCCC
* * * *
36476705 TGTTGTACTTCAGTTCCCTTGATCGCACTTACGTGCCCC
1 TGTTGTACTTCGGTACCCCTGACCGCACTTACGTGCCCC
* *
36476744 TATTGTACTTCGGTACCCCTGACAC-CACTTATGTGCCCC
1 TGTTGTACTTCGGTACCCCTGAC-CGCACTTACGTGCCCC
36476783 TGTTGTACTTCGGTAC
1 TGTTGTACTTCGGTAC
36476799 TCTTGATAAC
Statistics
Matches: 179, Mismatches: 31, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
39 178 0.99
40 1 0.01
ACGTcount: A:0.16, C:0.32, G:0.19, T:0.34
Consensus pattern (39 bp):
TGTTGTACTTCGGTACCCCTGACCGCACTTACGTGCCCC
Found at i:36476755 original size:117 final size:117
Alignment explanation
Indices: 36476549--36476798 Score: 365
Period size: 117 Copynumber: 2.1 Consensus size: 117
36476539 AGTAGATAAT
* * * * *
36476549 TGTTGTACTTCGGTACCCCTGATTGCAGTTATGTGCCCCTGTTGTACTTCAGTACCCCTAACCGT
1 TGTTGTACTTCGGTACCCCTGATCGCACTTACGTGCCACTGTTGTACTTCAGTACCCCTAACCGC
* * *
36476614 ACTTACGTACCCCTGTTGTACTTCGGTACCTCTGACAGCACTTACGTGCCCC
66 ACTTACGTACCCCTATTGTACTTCGGTACCCCTGACACCACTTACGTGCCCC
* * * * *
36476666 TGTTGTACTTTGGTACCCCTGATCGCACTTACGTGCCACTGTTGTACTTCAGTTCCCTTGATCGC
1 TGTTGTACTTCGGTACCCCTGATCGCACTTACGTGCCACTGTTGTACTTCAGTACCCCTAACCGC
* *
36476731 ACTTACGTGCCCCTATTGTACTTCGGTACCCCTGACACCACTTATGTGCCCC
66 ACTTACGTACCCCTATTGTACTTCGGTACCCCTGACACCACTTACGTGCCCC
36476783 TGTTGTACTTCGGTAC
1 TGTTGTACTTCGGTAC
36476799 TCTTGATAAC
Statistics
Matches: 117, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
117 117 1.00
ACGTcount: A:0.16, C:0.32, G:0.19, T:0.34
Consensus pattern (117 bp):
TGTTGTACTTCGGTACCCCTGATCGCACTTACGTGCCACTGTTGTACTTCAGTACCCCTAACCGC
ACTTACGTACCCCTATTGTACTTCGGTACCCCTGACACCACTTACGTGCCCC
Found at i:36478190 original size:15 final size:15
Alignment explanation
Indices: 36478166--36478195 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
36478156 TAATACTCCG
36478166 TAGCCCAAATTCGGC
1 TAGCCCAAATTCGGC
*
36478181 TAGCCTAAATTCGGC
1 TAGCCCAAATTCGGC
36478196 AACGGATACG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.23
Consensus pattern (15 bp):
TAGCCCAAATTCGGC
Found at i:36488422 original size:27 final size:27
Alignment explanation
Indices: 36488384--36488463 Score: 88
Period size: 27 Copynumber: 3.0 Consensus size: 27
36488374 TCTATACTCT
*
36488384 CATGTTTAACGTTCCGTCAAACTATCC
1 CATGTTTAACGTCCCGTCAAACTATCC
* *
36488411 CATGTTTAACGTCCCGTCGAACTATCT
1 CATGTTTAACGTCCCGTCAAACTATCC
** * * *
36488438 TGTGTTTAACATCCTGTCAGACTATC
1 CATGTTTAACGTCCCGTCAAACTATC
36488464 TACGATATCA
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.24, C:0.28, G:0.14, T:0.35
Consensus pattern (27 bp):
CATGTTTAACGTCCCGTCAAACTATCC
Found at i:36488757 original size:45 final size:45
Alignment explanation
Indices: 36488706--36488791 Score: 154
Period size: 45 Copynumber: 1.9 Consensus size: 45
36488696 ACTTGTTTAC
*
36488706 CATGATGCCATAGCGTCTTTTAGCAATGGTCTTACTCATTTCCAT
1 CATGATGCCATAGCATCTTTTAGCAATGGTCTTACTCATTTCCAT
*
36488751 CATGATGCCATAGCATCTTTTAGCTATGGTCTTACTCATTT
1 CATGATGCCATAGCATCTTTTAGCAATGGTCTTACTCATTT
36488792 TAGGCGTATA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.40
Consensus pattern (45 bp):
CATGATGCCATAGCATCTTTTAGCAATGGTCTTACTCATTTCCAT
Found at i:36492611 original size:61 final size:58
Alignment explanation
Indices: 36492502--36492613 Score: 161
Period size: 61 Copynumber: 1.9 Consensus size: 58
36492492 ACTTTAATAA
** * *
36492502 TAAATTAATATTATATTTATTAAGATAAATATTAGATTAAATTTAATATTAGATCTAT
1 TAAATTAATAGAATATTTATTAAGATAAATATTAAATTAAATTAAATATTAGATCTAT
36492560 TAAATTAATAGAATATTTATCTACAAGATAAATATTAAATTAAATTAAATATTA
1 TAAATTAATAGAATATTTAT-T--AAGATAAATATTAAATTAAATTAAATATTA
36492614 AGATAATCAC
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
58 18 0.38
59 1 0.02
61 28 0.60
ACGTcount: A:0.50, C:0.03, G:0.04, T:0.43
Consensus pattern (58 bp):
TAAATTAATAGAATATTTATTAAGATAAATATTAAATTAAATTAAATATTAGATCTAT
Found at i:36492640 original size:20 final size:18
Alignment explanation
Indices: 36492588--36492641 Score: 67
Period size: 20 Copynumber: 2.9 Consensus size: 18
36492578 ATCTACAAGA
36492588 TAAATATTAAATTAA-AT
1 TAAATATTAAATTAATAT
36492605 TAAATATTAAGA-TAATCACT
1 TAAATATTAA-ATTAAT-A-T
36492625 TAAATATTAAATTAATA
1 TAAATATTAAATTAATA
36492642 AAATGCTATC
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
17 13 0.41
18 1 0.03
19 3 0.09
20 15 0.47
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.39
Consensus pattern (18 bp):
TAAATATTAAATTAATAT
Found at i:36494317 original size:35 final size:35
Alignment explanation
Indices: 36494243--36494325 Score: 96
Period size: 35 Copynumber: 2.4 Consensus size: 35
36494233 AACGGTTTAG
** * *
36494243 TGGCTCTACAGAGCAGAATCACTAAAATGGTTTAT
1 TGGCTCTACAGAGCAGAATCACTAAAATAATCTAC
* *
36494278 TGGCTCTACAGAGCAGCATCA-TGGAAATAATCTAC
1 TGGCTCTACAGAGCAGAATCACT-AAAATAATCTAC
36494313 TGGCTCTACAGAG
1 TGGCTCTACAGAG
36494326 TGACACCATG
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
34 1 0.02
35 40 0.98
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (35 bp):
TGGCTCTACAGAGCAGAATCACTAAAATAATCTAC
Found at i:36498696 original size:15 final size:15
Alignment explanation
Indices: 36498676--36498730 Score: 53
Period size: 15 Copynumber: 3.9 Consensus size: 15
36498666 TGTTTGATAA
36498676 ACTGAAAAATTAAGT
1 ACTGAAAAATTAAGT
*
36498691 ACTGAAAAAATAAGT
1 ACTGAAAAATTAAGT
** *
36498706 GTTG--GAA-TAAGT
1 ACTGAAAAATTAAGT
36498718 ACTGAAAAATTAA
1 ACTGAAAAATTAA
36498731 ATGTTGAATT
Statistics
Matches: 30, Mismatches: 7, Indels: 6
0.70 0.16 0.14
Matches are distributed among these distances:
12 7 0.23
13 2 0.07
14 2 0.07
15 19 0.63
ACGTcount: A:0.53, C:0.05, G:0.16, T:0.25
Consensus pattern (15 bp):
ACTGAAAAATTAAGT
Found at i:36499219 original size:5 final size:5
Alignment explanation
Indices: 36499209--36499239 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
36499199 TGAGCATTCG
*
36499209 ATCGA ATCGA ATCGA ATGGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA A
36499240 AATTTTCGAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.42, C:0.16, G:0.23, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:36499894 original size:17 final size:17
Alignment explanation
Indices: 36499856--36499912 Score: 62
Period size: 19 Copynumber: 3.2 Consensus size: 17
36499846 GGGTGAGAAG
36499856 TAAAAGTTTAGGGGAAAA
1 TAAAAGTTTAGGGG-AAA
*
36499874 TAAAAAGTTTTGGGG-AA
1 T-AAAAGTTTAGGGGAAA
*
36499891 TAAAAGTTTGAGGGAAAA
1 TAAAAGTTT-AGGGGAAA
36499909 TAAA
1 TAAA
36499913 TAGGGGGAGT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
16 8 0.24
17 6 0.18
18 7 0.21
19 12 0.36
ACGTcount: A:0.49, C:0.00, G:0.26, T:0.25
Consensus pattern (17 bp):
TAAAAGTTTAGGGGAAA
Found at i:36499912 original size:18 final size:18
Alignment explanation
Indices: 36499856--36499912 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 18
36499846 GGGTGAGAAG
36499856 TAAAAGTTT-AGGGGAAAA
1 TAAAAGTTTGA-GGGAAAA
36499874 TAAAAAGTTTTG-GGG--AA
1 T-AAAAG-TTTGAGGGAAAA
36499891 TAAAAGTTTGAGGGAAAA
1 TAAAAGTTTGAGGGAAAA
36499909 TAAA
1 TAAA
36499913 TAGGGGGAGT
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
15 4 0.12
16 8 0.24
17 3 0.09
18 7 0.21
19 8 0.24
20 3 0.09
ACGTcount: A:0.49, C:0.00, G:0.26, T:0.25
Consensus pattern (18 bp):
TAAAAGTTTGAGGGAAAA
Found at i:36500277 original size:9 final size:9
Alignment explanation
Indices: 36500263--36500299 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
36500253 TATAGTTTAA
36500263 TATTCGAAT
1 TATTCGAAT
36500272 TATTCGAAT
1 TATTCGAAT
*
36500281 TATTCGAGT
1 TATTCGAAT
36500290 TATTCGAAT
1 TATTCGAAT
36500299 T
1 T
36500300 TGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:36503625 original size:15 final size:15
Alignment explanation
Indices: 36503605--36503658 Score: 54
Period size: 15 Copynumber: 3.3 Consensus size: 15
36503595 ATACTACAAA
36503605 ATATTTATTATTAAT
1 ATATTTATTATTAAT
*
36503620 ATATTTATAATTGTAAT
1 ATATTTATTA-T-TAAT
*
36503637 AAATATTTATTATTAAA
1 --ATATTTATTATTAAT
36503654 ATATT
1 ATATT
36503659 AATATTGAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
15 14 0.44
16 1 0.03
17 7 0.22
18 1 0.03
19 9 0.28
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATATTTATTATTAAT
Found at i:36525220 original size:28 final size:28
Alignment explanation
Indices: 36525188--36525287 Score: 155
Period size: 28 Copynumber: 3.6 Consensus size: 28
36525178 TTTAATAAGT
* * *
36525188 TCGCACACTTAGTGCTTAATAATCAAAC
1 TCGCACACTTAGTGCTTTACAATTAAAC
* *
36525216 TCGCACACTAAGTGCTTTACCATTAAAC
1 TCGCACACTTAGTGCTTTACAATTAAAC
36525244 TCGCACACTTAGTGCTTTACAATTAAAC
1 TCGCACACTTAGTGCTTTACAATTAAAC
36525272 TCGCACACTTAGTGCT
1 TCGCACACTTAGTGCT
36525288 AATCTCATTA
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 65 1.00
ACGTcount: A:0.31, C:0.27, G:0.12, T:0.30
Consensus pattern (28 bp):
TCGCACACTTAGTGCTTTACAATTAAAC
Found at i:36531769 original size:18 final size:17
Alignment explanation
Indices: 36531748--36531790 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
36531738 ATTATTAAAT
36531748 ATAATATAATATAATATA
1 ATAATATAA-ATAATATA
*
36531766 ATAATAATAAATAATTTA
1 ATAAT-ATAAATAATATA
*
36531784 ATCATAT
1 ATAATAT
36531791 TTTAATATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 2 0.09
18 16 0.73
19 4 0.18
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (17 bp):
ATAATATAAATAATATA
Found at i:36531801 original size:5 final size:5
Alignment explanation
Indices: 36531745--36531778 Score: 52
Period size: 5 Copynumber: 6.8 Consensus size: 5
36531735 TTTATTATTA
36531745 AATAT AATAT AATAT AATAT AATAAT AATA- AATA
1 AATAT AATAT AATAT AATAT AAT-AT AATAT AATA
36531779 ATTTAATCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 4 0.14
5 19 0.68
6 5 0.18
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (5 bp):
AATAT
Found at i:36533907 original size:61 final size:60
Alignment explanation
Indices: 36533786--36533908 Score: 140
Period size: 61 Copynumber: 2.0 Consensus size: 60
36533776 AAAAATATAC
* * * * * * *
36533786 TTATTAAATTTTTAGAGTTAGAACTAAATTGATAGATTTTGTAAATATTGAGGGTCAATT
1 TTATTAAATTTTTAGAATCAGAACTAAAATGACAAATTTTGCAAATATTGAGGCTCAATT
* *
36533846 TTATTGAATTTTTTAGAATCAGAACTAAAATGACAAATTTTGCAAATCTTGATGGCT-AATT
1 TTATT-AAATTTTTAGAATCAGAACTAAAATGACAAATTTTGCAAATATTGA-GGCTCAATT
36533907 TT
1 TT
36533909 TTTTAAAAAT
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
60 5 0.10
61 44 0.85
62 3 0.06
ACGTcount: A:0.37, C:0.07, G:0.15, T:0.42
Consensus pattern (60 bp):
TTATTAAATTTTTAGAATCAGAACTAAAATGACAAATTTTGCAAATATTGAGGCTCAATT
Found at i:36536022 original size:25 final size:27
Alignment explanation
Indices: 36535973--36536024 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
36535963 GCATGTACCC
* *
36535973 ATTTATATATATATTTTATATTCTATA
1 ATTTATATATACATTTTAGATTCTATA
36536000 ATTTATATATACA-TTTAGA-TCTATA
1 ATTTATATATACATTTTAGATTCTATA
36536025 TATATTTTCC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 6 0.26
26 5 0.22
27 12 0.52
ACGTcount: A:0.38, C:0.06, G:0.02, T:0.54
Consensus pattern (27 bp):
ATTTATATATACATTTTAGATTCTATA
Found at i:36536026 original size:27 final size:28
Alignment explanation
Indices: 36535973--36536031 Score: 68
Period size: 27 Copynumber: 2.1 Consensus size: 28
36535963 GCATGTACCC
* * *
36535973 ATTTATATATATATTTTATATTCTATA-
1 ATTTATATATACATTTTAGATTATATAT
36536000 ATTTATATATACA-TTTAGATCTATATAT
1 ATTTATATATACATTTTAGAT-TATATAT
36536028 ATTT
1 ATTT
36536032 TCCTTACAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 6 0.22
27 17 0.63
28 4 0.15
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.56
Consensus pattern (28 bp):
ATTTATATATACATTTTAGATTATATAT
Found at i:36536726 original size:108 final size:107
Alignment explanation
Indices: 36536502--36536808 Score: 474
Period size: 108 Copynumber: 2.9 Consensus size: 107
36536492 TTTCAAAAAG
*
36536502 GGCAATGTTTTGCATTTGAAAATTCGAGAAAACATGCTCTAAGGTGCTGGGTGTCGTTTTTTCTC
1 GGCAATGTTTTGCATTTGGAAATTCGAGAAAACATGC-CTAAGGTGCTGGGTGTCG-TTTTTCTC
*
36536567 GTTTAACCAAATGGCTTAATATCCTTTTAAAAATTTTACAATTA
64 GTTTAACCAAATGGCTTAATATCCTTTTAAAAATTTTACAATGA
36536611 GGCAATGTTTTGCATTTGGAAATTCGAGAAAACATGCACTAAGGTGCTGGGTGTCGTTTTTCTCG
1 GGCAATGTTTTGCATTTGGAAATTCGAGAAAACATGC-CTAAGGTGCTGGGTGTCGTTTTTCTCG
36536676 TTTAACCAAATGGCTTAATATCCTTTTAAAAATTTTACAATGA
65 TTTAACCAAATGGCTTAATATCCTTTTAAAAATTTTACAATGA
* * * * *
36536719 GGCAATGTTTTGCGTTTGGAAATTCGAG-GAACGTGTCCTAAGGTGCTGGGTTTCG-ATTTCTCG
1 GGCAATGTTTTGCATTTGGAAATTCGAGAAAACATG-CCTAAGGTGCTGGGTGTCGTTTTTCTCG
* **
36536782 TTTAACCAAATTGCCAAATATCCTTTT
65 TTTAACCAAATGGCTTAATATCCTTTT
36536809 GAATTTTAAT
Statistics
Matches: 186, Mismatches: 11, Indels: 5
0.92 0.05 0.02
Matches are distributed among these distances:
106 31 0.17
107 22 0.12
108 79 0.42
109 54 0.29
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.37
Consensus pattern (107 bp):
GGCAATGTTTTGCATTTGGAAATTCGAGAAAACATGCCTAAGGTGCTGGGTGTCGTTTTTCTCGT
TTAACCAAATGGCTTAATATCCTTTTAAAAATTTTACAATGA
Found at i:36537300 original size:15 final size:15
Alignment explanation
Indices: 36537280--36537313 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
36537270 ATTTTGTTGC
*
36537280 AAAAATTATAATTTA
1 AAAAATTATAATTGA
36537295 AAAAATTATAATTGA
1 AAAAATTATAATTGA
36537310 AAAA
1 AAAA
36537314 GTAAAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (15 bp):
AAAAATTATAATTGA
Found at i:36550750 original size:40 final size:40
Alignment explanation
Indices: 36550706--36550935 Score: 250
Period size: 40 Copynumber: 5.8 Consensus size: 40
36550696 TATTTATCGA
36550706 TGATTGCACATACGTGCCCCTGTTTGTACTTCGATACCCT
1 TGATTGCACATACGTGCCCCTGTTTGTACTTCGATACCCT
* * *
36550746 TGATTGCACATATGTGCCCCAGTTTGTGCTTC-AGTA-CCT
1 TGATTGCACATACGTGCCCCTGTTTGTACTTCGA-TACCCT
* *
36550785 CTGATTGCACATACGTGCCCTTGTTTGTACTTCTG-TACCCC
1 -TGATTGCACATACGTGCCCCTGTTTGTACTTC-GATACCCT
* * * * *
36550826 TAATTTCACATACGTGCCCATGTTTGTACTTCGGTACCCC
1 TGATTGCACATACGTGCCCCTGTTTGTACTTCGATACCCT
* * ** * *
36550866 TAATTGCACTTGTGTGCCCCTGTTTGTACTTTGGTACCCT
1 TGATTGCACATACGTGCCCCTGTTTGTACTTCGATACCCT
* *
36550906 TGATTGCACATTCGTGCCCATGTTTGTACT
1 TGATTGCACATACGTGCCCCTGTTTGTACT
36550936 GATGTACCCC
Statistics
Matches: 161, Mismatches: 23, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
39 5 0.03
40 154 0.96
41 2 0.01
ACGTcount: A:0.17, C:0.28, G:0.18, T:0.37
Consensus pattern (40 bp):
TGATTGCACATACGTGCCCCTGTTTGTACTTCGATACCCT
Found at i:36550798 original size:80 final size:79
Alignment explanation
Indices: 36550706--36550975 Score: 294
Period size: 80 Copynumber: 3.4 Consensus size: 79
36550696 TATTTATCGA
36550706 TGATTGCACATACGTGCCCCTGTTTGTACTTCGATACCCTTGATTGCACATATGTGCCCCA-GTT
1 TGATTGCACATACGTGCCCCTGTTTGTACTTCG-TACCCTTGATTGCACATATGTG-CCCATGTT
* *
36550770 TGTGCTTCAGTACCTC
64 TGTACTTCAGTACCCC
* * * * *
36550786 TGATTGCACATACGTGCCCTTGTTTGTACTTCTGTACCCCTAATTTCACATACGTGCCCATGTTT
1 TGATTGCACATACGTGCCCCTGTTTGTACTTC-GTACCCTTGATTGCACATATGTGCCCATGTTT
*
36550851 GTACTTCGGTACCCC
65 GTACTTCAGTACCCC
* * ** *
36550866 TAATTGCACTTGTGTGCCCCTGTTTGTACTTTGGTACCCTTGATTGCACAT-TCGTGCCCATGTT
1 TGATTGCACATACGTGCCCCTGTTTGTAC-TTCGTACCCTTGATTGCACATAT-GTGCCCATGTT
*
36550930 TGTAC-TGATGTACCCC
64 TGTACTTCA-GTACCCC
* ** * *
36550946 TGAATATACATATGTGCCCCTGTTTATACT
1 TGATTGCACATACGTGCCCCTGTTTGTACT
36550976 CTGGTAACCC
Statistics
Matches: 158, Mismatches: 27, Indels: 11
0.81 0.14 0.06
Matches are distributed among these distances:
79 6 0.04
80 149 0.94
81 3 0.02
ACGTcount: A:0.18, C:0.27, G:0.18, T:0.37
Consensus pattern (79 bp):
TGATTGCACATACGTGCCCCTGTTTGTACTTCGTACCCTTGATTGCACATATGTGCCCATGTTTG
TACTTCAGTACCCC
Found at i:36550896 original size:20 final size:20
Alignment explanation
Indices: 36550839--36550935 Score: 63
Period size: 20 Copynumber: 4.8 Consensus size: 20
36550829 TTTCACATAC
*
36550839 GTGCCCATGTTTGTACTTCG
1 GTGCCCCTGTTTGTACTTCG
* ** *
36550859 GTACCCCTAATTGCACTT-G
1 GTGCCCCTGTTTGTACTTCG
*
36550878 TGTGCCCCTGTTTGTACTTTG
1 -GTGCCCCTGTTTGTACTTCG
* * * *
36550899 GTACCCTTGATTGCACATTC-
1 GTGCCCCTGTTTGTAC-TTCG
*
36550919 GTGCCCATGTTTGTACT
1 GTGCCCCTGTTTGTACT
36550936 GATGTACCCC
Statistics
Matches: 56, Mismatches: 18, Indels: 7
0.69 0.22 0.09
Matches are distributed among these distances:
19 2 0.04
20 51 0.91
21 3 0.05
ACGTcount: A:0.13, C:0.27, G:0.21, T:0.39
Consensus pattern (20 bp):
GTGCCCCTGTTTGTACTTCG
Found at i:36550903 original size:120 final size:121
Alignment explanation
Indices: 36550712--36550975 Score: 345
Period size: 120 Copynumber: 2.2 Consensus size: 121
36550702 TCGATGATTG
* * *
36550712 CACATACGTGCCCCTGTTTGTACTTCGATACCCTTGATTGCACATATGTGCCCCAGTTTGTGCTT
1 CACATACGTGCCCCTGTTTGTACTTCGATACCCCTAATTGCACATATGTGCCCCAGTTTGTACTT
* ** *
36550777 CAGTA-CCTCTGATTGCACATACGTGCCCTTGTTTGTACTTCTGTACCCCT-AATTT
66 CAGTACCCT-TGATTGCACATACGTGCCCATGTTTGTACTGATGTACCCCTGAATAT
* * * * *
36550832 CACATACGTGCCCATGTTTGTACTTCGGTACCCCTAATTGCACTTGTGTGCCCCTGTTTGTACTT
1 CACATACGTGCCCCTGTTTGTACTTCGATACCCCTAATTGCACATATGTGCCCCAGTTTGTACTT
** *
36550897 TGGTACCCTTGATTGCACATTCGTGCCCATGTTTGTACTGATGTACCCCTGAATAT
66 CAGTACCCTTGATTGCACATACGTGCCCATGTTTGTACTGATGTACCCCTGAATAT
* *
36550953 -ACATATGTGCCCCTGTTTATACT
1 CACATACGTGCCCCTGTTTGTACT
36550976 CTGGTAACCC
Statistics
Matches: 124, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
120 117 0.94
121 7 0.06
ACGTcount: A:0.18, C:0.28, G:0.17, T:0.37
Consensus pattern (121 bp):
CACATACGTGCCCCTGTTTGTACTTCGATACCCCTAATTGCACATATGTGCCCCAGTTTGTACTT
CAGTACCCTTGATTGCACATACGTGCCCATGTTTGTACTGATGTACCCCTGAATAT
Found at i:36550963 original size:40 final size:39
Alignment explanation
Indices: 36550712--36550975 Score: 205
Period size: 40 Copynumber: 6.6 Consensus size: 39
36550702 TCGATGATTG
* * * *
36550712 CACATACGTGCCCCTGTTTGTACTTC-GATACCCTTGATT
1 CACATATGTGCCCATGTTTGTACTTCTG-TACCCCTAATT
* * * *
36550751 GCACATATGTGCCCCA-GTTTGTGCTTCAGTACCTCTGATT
1 -CACATATGTG-CCCATGTTTGTACTTCTGTACCCCTAATT
* *
36550791 GCACATACGTGCCCTTGTTTGTACTTCTGTACCCCTAATTT
1 -CACATATGTGCCCATGTTTGTACTTCTGTACCCCTAA-TT
* *
36550832 CACATACGTGCCCATGTTTGTACTTCGGTACCCCTAATT
1 CACATATGTGCCCATGTTTGTACTTCTGTACCCCTAATT
* * * * *
36550871 GCACTTGTGTGCCCCTGTTTGTACTT-TGGTACCCTTGATT
1 -CACATATGTGCCCATGTTTGTACTTCT-GTACCCCTAATT
**
36550911 GCACAT-TCGTGCCCATGTTTGTACTGATGTACCCCTGAATAT
1 -CACATAT-GTGCCCATGTTTGTACTTCTGTACCCCT-AAT-T
* *
36550953 -ACATATGTGCCCCTGTTTATACT
1 CACATATGTGCCCATGTTTGTACT
36550976 CTGGTAACCC
Statistics
Matches: 186, Mismatches: 27, Indels: 22
0.79 0.11 0.09
Matches are distributed among these distances:
39 6 0.03
40 169 0.91
41 10 0.05
42 1 0.01
ACGTcount: A:0.18, C:0.28, G:0.17, T:0.37
Consensus pattern (39 bp):
CACATATGTGCCCATGTTTGTACTTCTGTACCCCTAATT
Found at i:36550973 original size:20 final size:20
Alignment explanation
Indices: 36550919--36550975 Score: 53
Period size: 20 Copynumber: 2.9 Consensus size: 20
36550909 TTGCACATTC
* *
36550919 GTGCCCATGTTTGTACTGAT
1 GTGCCCCTGTTTATACTGAT
* **
36550939 GTACCCCTGAATATACAT-AT
1 GTGCCCCTGTTTATAC-TGAT
36550959 GTGCCCCTGTTTATACT
1 GTGCCCCTGTTTATACT
36550976 CTGGTAACCC
Statistics
Matches: 28, Mismatches: 8, Indels: 3
0.72 0.21 0.08
Matches are distributed among these distances:
19 1 0.04
20 26 0.93
21 1 0.04
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.37
Consensus pattern (20 bp):
GTGCCCCTGTTTATACTGAT
Found at i:36556825 original size:38 final size:38
Alignment explanation
Indices: 36556757--36556948 Score: 199
Period size: 38 Copynumber: 5.1 Consensus size: 38
36556747 AATTTGCATT
* * * * * *
36556757 ACACCGGCACAAAGTCAGCTAAGCATAGAGCCCAAATA
1 ACACCAGCACAAAGCCTGCTAGGCACAGAGCCCGAATA
* *
36556795 ACACAAACACAAAGCCTGCTAGGCACAGAGCCC-AATTA
1 ACACCAGCACAAAGCCTGCTAGGCACAGAGCCCGAA-TA
* * *
36556833 ACACCAGCACAAAGCCTACTAGGCACATA-CCTGAATA
1 ACACCAGCACAAAGCCTGCTAGGCACAGAGCCCGAATA
* ** * *
36556870 AAACTGGCACAAAGCTTGCTAGGCACACAGCCCGAATA
1 ACACCAGCACAAAGCCTGCTAGGCACAGAGCCCGAATA
* *
36556908 ACACCTGCACAAAGCCTGCTAGGCACATAGCCCGAATA
1 ACACCAGCACAAAGCCTGCTAGGCACAGAGCCCGAATA
36556946 ACA
1 ACA
36556949 GCGTTTCTAT
Statistics
Matches: 127, Mismatches: 24, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
37 29 0.23
38 98 0.77
ACGTcount: A:0.40, C:0.31, G:0.17, T:0.12
Consensus pattern (38 bp):
ACACCAGCACAAAGCCTGCTAGGCACAGAGCCCGAATA
Found at i:36556884 original size:75 final size:76
Alignment explanation
Indices: 36556802--36556946 Score: 222
Period size: 75 Copynumber: 1.9 Consensus size: 76
36556792 ATAACACAAA
* *
36556802 CACAAAGCCTGCTAGGCACAGAGCCC-AATTAACACCAGCACAAAGCCTACTAGGCACATA-CCT
1 CACAAAGCCTGCTAGGCACACAGCCCGAA-TAACACCAGCACAAAGCCTACTAGGCACATAGCCC
36556865 GAATAAAACTGG
65 GAATAAAACTGG
* * *
36556877 CACAAAGCTTGCTAGGCACACAGCCCGAATAACACCTGCACAAAGCCTGCTAGGCACATAGCCCG
1 CACAAAGCCTGCTAGGCACACAGCCCGAATAACACCAGCACAAAGCCTACTAGGCACATAGCCCG
36556942 AATAA
66 AATAA
36556947 CAGCGTTTCT
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
75 53 0.84
76 10 0.16
ACGTcount: A:0.37, C:0.32, G:0.18, T:0.13
Consensus pattern (76 bp):
CACAAAGCCTGCTAGGCACACAGCCCGAATAACACCAGCACAAAGCCTACTAGGCACATAGCCCG
AATAAAACTGG
Found at i:36560654 original size:20 final size:20
Alignment explanation
Indices: 36560629--36560697 Score: 70
Period size: 20 Copynumber: 3.5 Consensus size: 20
36560619 TGTTTATAAA
36560629 TATTTGTACATACGTGCCCC
1 TATTTGTACATACGTGCCCC
* *
36560649 TATTTGTAC-TTCGGTACCCC
1 TATTTGTACATAC-GTGCCCC
*
36560669 TGA-TTGCACATACGTGCCCC
1 T-ATTTGTACATACGTGCCCC
*
36560689 TGTTTGTAC
1 TATTTGTAC
36560698 TTCGGTACCC
Statistics
Matches: 38, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
19 2 0.05
20 33 0.87
21 3 0.08
ACGTcount: A:0.17, C:0.29, G:0.17, T:0.36
Consensus pattern (20 bp):
TATTTGTACATACGTGCCCC
Found at i:36560695 original size:40 final size:40
Alignment explanation
Indices: 36560636--36560900 Score: 298
Period size: 40 Copynumber: 6.7 Consensus size: 40
36560626 AAATATTTGT
*
36560636 ACATACGTGCCCCTATTTGTACTTCGGTACCCCTGATTGC
1 ACATACGTGCCCCTGTTTGTACTTCGGTACCCCTGATTGC
36560676 ACATACGTGCCCCTGTTTGTACTTCGGTACCCCTGATTGC
1 ACATACGTGCCCCTGTTTGTACTTCGGTACCCCTGATTGC
* * * * * **
36560716 ACAAACATGCCCTTGTTTGTACTTTGGTACCCCTAATAAC
1 ACATACGTGCCCCTGTTTGTACTTCGGTACCCCTGATTGC
* * * * * *
36560756 ACATACATACCCTTATTTGTACTTCGGTA-CCATGATTGT
1 ACATACGTGCCCCTGTTTGTACTTCGGTACCCCTGATTGC
* * * * *
36560795 TCATACGTGTCCCTATTTGGACTTCGATACCCCTGATTGC
1 ACATACGTGCCCCTGTTTGTACTTCGGTACCCCTGATTGC
* * *
36560835 ACATATGTGCCCCTGTCTGTACTTCGGTACCCCTGATTAC
1 ACATACGTGCCCCTGTTTGTACTTCGGTACCCCTGATTGC
** *
36560875 ACATTTGTGCCCATGTTTGTACTTCG
1 ACATACGTGCCCCTGTTTGTACTTCG
36560901 TGACCCTTAA
Statistics
Matches: 187, Mismatches: 37, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
39 27 0.14
40 160 0.86
ACGTcount: A:0.20, C:0.29, G:0.17, T:0.35
Consensus pattern (40 bp):
ACATACGTGCCCCTGTTTGTACTTCGGTACCCCTGATTGC
Found at i:36560708 original size:20 final size:20
Alignment explanation
Indices: 36560645--36560710 Score: 71
Period size: 20 Copynumber: 3.3 Consensus size: 20
36560635 TACATACGTG
*
36560645 CCCCTATTTGTACTTCGGTA
1 CCCCTGTTTGTACTTCGGTA
* * * *
36560665 CCCCTGATTGCACATAC-GTG
1 CCCCTGTTTGTAC-TTCGGTA
36560685 CCCCTGTTTGTACTTCGGTA
1 CCCCTGTTTGTACTTCGGTA
36560705 CCCCTG
1 CCCCTG
36560711 ATTGCACAAA
Statistics
Matches: 35, Mismatches: 9, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
19 2 0.06
20 31 0.89
21 2 0.06
ACGTcount: A:0.14, C:0.35, G:0.18, T:0.33
Consensus pattern (20 bp):
CCCCTGTTTGTACTTCGGTA
Found at i:36560894 original size:119 final size:120
Alignment explanation
Indices: 36560636--36560900 Score: 325
Period size: 119 Copynumber: 2.2 Consensus size: 120
36560626 AAATATTTGT
* * * *
36560636 ACATACGTGCCCCTATTTGTACTTCGGTACCCCTGATTGCACATACGTGCCCCTGTTTGTACTTC
1 ACATACGTGCCCATATTTGTACTTCGGTACCCATGATTGCACATACGTGCCCCTATTTGGACTTC
* * * *
36560701 GGTACCCCTGATTGCACAAACATGCCCTTGTTTGTACTTTGGTACCCCTAATAAC
66 GATACCCCTGATTGCACAAACATGCCCCTGTCTGTACTTCGGTACCCCTAATAAC
* * * ** *
36560756 ACATACATACCCTTATTTGTACTTCGGTA-CCATGATTGTTCATACGTGTCCCTATTTGGACTTC
1 ACATACGTGCCCATATTTGTACTTCGGTACCCATGATTGCACATACGTGCCCCTATTTGGACTTC
* ** * *
36560820 GATACCCCTGATTGCACATATGTGCCCCTGTCTGTACTTCGGTACCCCTGATTAC
66 GATACCCCTGATTGCACAAACATGCCCCTGTCTGTACTTCGGTACCCCTAATAAC
** *
36560875 ACATTTGTGCCCATGTTTGTACTTCG
1 ACATACGTGCCCATATTTGTACTTCG
36560901 TGACCCTTAA
Statistics
Matches: 121, Mismatches: 24, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
119 95 0.79
120 26 0.21
ACGTcount: A:0.20, C:0.29, G:0.17, T:0.35
Consensus pattern (120 bp):
ACATACGTGCCCATATTTGTACTTCGGTACCCATGATTGCACATACGTGCCCCTATTTGGACTTC
GATACCCCTGATTGCACAAACATGCCCCTGTCTGTACTTCGGTACCCCTAATAAC
Found at i:36560932 original size:159 final size:159
Alignment explanation
Indices: 36560632--36560937 Score: 409
Period size: 159 Copynumber: 1.9 Consensus size: 159
36560622 TTATAAATAT
* * *
36560632 TTGTACATACGTGCCCCTATTTGTACTTCGGTACCCCTGATTGCACATACGTGCCCCTGTTTGTA
1 TTGTACATACGTGCCCCTATTTGGACTTCGATACCCCTGATTGCACATACGTGCCCCTGTCTGTA
* * *
36560697 CTTCGGTACCCCTGATTGCACAAACATGCCCTTGTTTGTACTTTGGTACCCCTAATAACACATAC
66 CTTCGGTACCCCTGATTACACAAACATGCCCATGTTTGTACTTCGGTACCCCTAATAACACATAC
* *
36560762 ATACCCTTATTTGTACTTCGGTACCATGA
131 ATACCCCTATTTATACTTCGGTACCATGA
* * *
36560791 TTGTTCATACGTGTCCCTATTTGGACTTCGATACCCCTGATTGCACATATGTGCCCCTGTCTGTA
1 TTGTACATACGTGCCCCTATTTGGACTTCGATACCCCTGATTGCACATACGTGCCCCTGTCTGTA
**** * * *
36560856 CTTCGGTACCCCTGATTACACATTTGTGCCCATGTTTGTACTTC-GTGACCCTTAAATGA-ACTT
66 CTTCGGTACCCCTGATTACACAAACATGCCCATGTTTGTACTTCGGT-ACCCCT-AATAACACAT
*
36560919 ACATGCCCCTATTTATACT
129 ACATACCCCTATTTATACT
36560938 CTAGTAATCC
Statistics
Matches: 126, Mismatches: 19, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
158 2 0.02
159 120 0.95
160 4 0.03
ACGTcount: A:0.21, C:0.28, G:0.16, T:0.35
Consensus pattern (159 bp):
TTGTACATACGTGCCCCTATTTGGACTTCGATACCCCTGATTGCACATACGTGCCCCTGTCTGTA
CTTCGGTACCCCTGATTACACAAACATGCCCATGTTTGTACTTCGGTACCCCTAATAACACATAC
ATACCCCTATTTATACTTCGGTACCATGA
Found at i:36567698 original size:24 final size:23
Alignment explanation
Indices: 36567657--36567702 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
36567647 TATCTGTTGT
*
36567657 ATATAAAGCTATTGATGACTTGAG
1 ATATAAAGCAATTGATGA-TTGAG
36567681 ATATACAAGCAATT-ATGATTGA
1 ATATA-AAGCAATTGATGATTGA
36567703 TATCTTGATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 4 0.20
24 9 0.45
25 7 0.35
ACGTcount: A:0.41, C:0.09, G:0.17, T:0.33
Consensus pattern (23 bp):
ATATAAAGCAATTGATGATTGAG
Found at i:36569496 original size:41 final size:41
Alignment explanation
Indices: 36569439--36569543 Score: 165
Period size: 41 Copynumber: 2.6 Consensus size: 41
36569429 ACAGATTCAA
* *
36569439 CGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAAATCAC
1 CGGCACGTAGCCTGCTAGGCTTATAACCTGATTCAAATCAC
* *
36569480 CGGCACGTAGCCTGCTAGGTTTATAACCTGATTCAGATCAC
1 CGGCACGTAGCCTGCTAGGCTTATAACCTGATTCAAATCAC
*
36569521 CGGCACGTAGCCTGCTAGACTTA
1 CGGCACGTAGCCTGCTAGGCTTA
36569544 AAGTCTGAAA
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 58 1.00
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.26
Consensus pattern (41 bp):
CGGCACGTAGCCTGCTAGGCTTATAACCTGATTCAAATCAC
Found at i:36570041 original size:21 final size:19
Alignment explanation
Indices: 36570012--36570050 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
36570002 GAAACATACC
36570012 TTCGAACCACTTATATATATA
1 TTCGAACCA--TATATATATA
*
36570033 TTCGCACCATATATATAT
1 TTCGAACCATATATATAT
36570051 GTATTATACA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
21 8 0.47
ACGTcount: A:0.36, C:0.21, G:0.05, T:0.38
Consensus pattern (19 bp):
TTCGAACCATATATATATA
Found at i:36574357 original size:16 final size:16
Alignment explanation
Indices: 36574336--36574386 Score: 66
Period size: 16 Copynumber: 3.2 Consensus size: 16
36574326 TAAATTACTG
36574336 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
**
36574352 ATTACATATCTATTCC
1 ATTACAGCTCTATTCC
* *
36574368 ATTACAGCCCTATTTC
1 ATTACAGCTCTATTCC
36574384 ATT
1 ATT
36574387 GACTCCACCC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.27, C:0.27, G:0.04, T:0.41
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:36574497 original size:16 final size:17
Alignment explanation
Indices: 36574461--36574498 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
36574451 AAAAAAAGCA
36574461 AAAATAGAAAATGAATT
1 AAAATAGAAAATGAATT
* *
36574478 AAAATATAAAAT-ATTT
1 AAAATAGAAAATGAATT
36574494 AAAAT
1 AAAAT
36574499 TTATTGAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (17 bp):
AAAATAGAAAATGAATT
Found at i:36575459 original size:34 final size:33
Alignment explanation
Indices: 36575335--36575469 Score: 146
Period size: 34 Copynumber: 3.9 Consensus size: 33
36575325 TTTTAAAAAA
36575335 TAAATTAGGGTTTAGAGTTTTTTTAAAAAATTAAT
1 TAAATTAGGGTTT--AGTTTTTTTAAAAAATTAAT
* *** *
36575370 TAAATTAGGTTTTAGGGGTTTAAAATAAATTAAT
1 TAAATTAGGGTTTAGTTTTTTTAAA-AAATTAAT
*
36575404 TAAATTAGGGTTTA-TAATTTTTAAGAAAATTAAT
1 TAAATTAGGGTTTAGT-TTTTTTAA-AAAATTAAT
36575438 TAAATTAGGGTTTAGTTTTTTTTAAAATAATT
1 TAAATTAGGGTTTAG-TTTTTTTAAAA-AATT
36575470 TTTGTGTTTA
Statistics
Matches: 83, Mismatches: 11, Indels: 12
0.78 0.10 0.11
Matches are distributed among these distances:
33 8 0.10
34 50 0.60
35 24 0.29
36 1 0.01
ACGTcount: A:0.40, C:0.00, G:0.14, T:0.46
Consensus pattern (33 bp):
TAAATTAGGGTTTAGTTTTTTTAAAAAATTAAT
Found at i:36575744 original size:125 final size:126
Alignment explanation
Indices: 36575574--36575824 Score: 335
Period size: 125 Copynumber: 2.0 Consensus size: 126
36575564 AGTCGTTTTA
* * *
36575574 AAAAAATTAATTTTGAGAAGACGGTTCTAAAAAGATAATATCAAAAACGCTTCAAGCATGATGCA
1 AAAAAATTAATTTTGAGAAGACAGTTCTAAAAAGATAATACCAAAAACGCTTCAAGCAGGATGCA
* * *
36575639 CTGTCAGCAAAATTACTAAAAAAAGCTCCCACGTGAACGCTCTTTTTTTACAGTAGTTCCT
66 CTGTCAACAAAATTACTAAAAAAAGCTCCCACGTGAACGCTCTTTTTCTAAAGTAGTTCCT
* * * **
36575700 AAAAAA-TAATTTTGAGAAGACAGTTCTGAAAAA-ATAGTGCCAAAAATGCTTCAATTAGGATGC
1 AAAAAATTAATTTTGAGAAGACAGTTCT-AAAAAGATAATACCAAAAACGCTTCAAGCAGGATGC
* * * * *
36575763 ACTGTCAACAAAATTATTGAAAAAAGCTCTCACGTGGATGCTCTTTTTCTAAAGTAGTTCCT
65 ACTGTCAACAAAATTACTAAAAAAAGCTCCCACGTGAACGCTCTTTTTCTAAAGTAGTTCCT
36575825 GCTTGGCCTT
Statistics
Matches: 108, Mismatches: 16, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
125 97 0.90
126 11 0.10
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.29
Consensus pattern (126 bp):
AAAAAATTAATTTTGAGAAGACAGTTCTAAAAAGATAATACCAAAAACGCTTCAAGCAGGATGCA
CTGTCAACAAAATTACTAAAAAAAGCTCCCACGTGAACGCTCTTTTTCTAAAGTAGTTCCT
Found at i:36581624 original size:9 final size:9
Alignment explanation
Indices: 36581607--36581643 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
36581597 TGAGTTTTCG
36581607 AATTCGAAT
1 AATTCGAAT
*
36581616 AACTCGAAT
1 AATTCGAAT
36581625 AATTCGAAT
1 AATTCGAAT
36581634 AATTCGAAT
1 AATTCGAAT
36581643 A
1 A
36581644 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:36581726 original size:30 final size:31
Alignment explanation
Indices: 36581692--36581752 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 31
36581682 AAACCTTTTT
*
36581692 ACTTTTCCCTCAAAACTTTTACT-CCTTCCC
1 ACTTTTCCCCCAAAACTTTTACTCCCTTCCC
*
36581722 ACTTTTCCCCCAAAACTTTTATTCCCTTCCC
1 ACTTTTCCCCCAAAACTTTTACTCCCTTCCC
36581753 CTCCCAACCC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
30 21 0.75
31 7 0.25
ACGTcount: A:0.20, C:0.41, G:0.00, T:0.39
Consensus pattern (31 bp):
ACTTTTCCCCCAAAACTTTTACTCCCTTCCC
Found at i:36588989 original size:136 final size:136
Alignment explanation
Indices: 36588745--36589017 Score: 546
Period size: 136 Copynumber: 2.0 Consensus size: 136
36588735 CAGAAGCCGA
36588745 ACACACTCAACACTTTTTAGCCCCAGTCCTCTTATACTTAGCAGGTACTCTCTACAACAAGGTTA
1 ACACACTCAACACTTTTTAGCCCCAGTCCTCTTATACTTAGCAGGTACTCTCTACAACAAGGTTA
36588810 CAAATTCTTAAGGAGCTTTCTGTTTCGCTAAAAGCATATAAAATGTTGAGAAGTAATGTTCTTTG
66 CAAATTCTTAAGGAGCTTTCTGTTTCGCTAAAAGCATATAAAATGTTGAGAAGTAATGTTCTTTG
36588875 ATTTAG
131 ATTTAG
36588881 ACACACTCAACACTTTTTAGCCCCAGTCCTCTTATACTTAGCAGGTACTCTCTACAACAAGGTTA
1 ACACACTCAACACTTTTTAGCCCCAGTCCTCTTATACTTAGCAGGTACTCTCTACAACAAGGTTA
36588946 CAAATTCTTAAGGAGCTTTCTGTTTCGCTAAAAGCATATAAAATGTTGAGAAGTAATGTTCTTTG
66 CAAATTCTTAAGGAGCTTTCTGTTTCGCTAAAAGCATATAAAATGTTGAGAAGTAATGTTCTTTG
36589011 ATTTAG
131 ATTTAG
36589017 A
1 A
36589018 TATGCATGCA
Statistics
Matches: 137, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
136 137 1.00
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.34
Consensus pattern (136 bp):
ACACACTCAACACTTTTTAGCCCCAGTCCTCTTATACTTAGCAGGTACTCTCTACAACAAGGTTA
CAAATTCTTAAGGAGCTTTCTGTTTCGCTAAAAGCATATAAAATGTTGAGAAGTAATGTTCTTTG
ATTTAG
Found at i:36595331 original size:41 final size:41
Alignment explanation
Indices: 36595244--36595321 Score: 120
Period size: 41 Copynumber: 1.9 Consensus size: 41
36595234 ATAGGTGAAA
* *
36595244 AAAAAAATCCTCAAATGAGGTATTTGTTTGACAGCTGGATG
1 AAAAAAATCCTCAAATGAGGTATTTGATTGACACCTGGATG
* *
36595285 AAAAAAATCCTCTAATGAGTTATTTGATTGACACCTG
1 AAAAAAATCCTCAAATGAGGTATTTGATTGACACCTG
36595322 TCTTAAAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.31
Consensus pattern (41 bp):
AAAAAAATCCTCAAATGAGGTATTTGATTGACACCTGGATG
Found at i:36595331 original size:42 final size:41
Alignment explanation
Indices: 36595243--36595331 Score: 106
Period size: 41 Copynumber: 2.1 Consensus size: 41
36595233 TATAGGTGAA
* * *
36595243 AAAAAAAATCCTCAAATGAGGTATTTGTTTGACAGCTGGAT
1 AAAAAAAATCCTCAAATGAGGTATTTGATTGACACCTGCAT
* * * *
36595284 GAAAAAAATCCTCTAATGAGTTATTTGATTGACACCTGTCTT
1 AAAAAAAATCCTCAAATGAGGTATTTGATTGACACCTG-CAT
36595326 AAAAAA
1 AAAAAA
36595332 GGACATAAGT
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
41 33 0.85
42 6 0.15
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.30
Consensus pattern (41 bp):
AAAAAAAATCCTCAAATGAGGTATTTGATTGACACCTGCAT
Found at i:36598268 original size:51 final size:50
Alignment explanation
Indices: 36598184--36598280 Score: 176
Period size: 51 Copynumber: 1.9 Consensus size: 50
36598174 AGGTCCTAAC
*
36598184 ACTTGATGTAGTAAGTAGTGCTTTTAGCGTTGATTCTTTCTTGAAACTAT
1 ACTTGATGTAGTAAGTAGTGCTTTTAGCATTGATTCTTTCTTGAAACTAT
36598234 ACTTAGATGTAGTAAGTAGTGCTTTTAGCATTGATTCTTTCTTGAAA
1 ACTT-GATGTAGTAAGTAGTGCTTTTAGCATTGATTCTTTCTTGAAA
36598281 TTGGTATTAG
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
50 4 0.09
51 41 0.91
ACGTcount: A:0.26, C:0.11, G:0.20, T:0.43
Consensus pattern (50 bp):
ACTTGATGTAGTAAGTAGTGCTTTTAGCATTGATTCTTTCTTGAAACTAT
Found at i:36612199 original size:11 final size:11
Alignment explanation
Indices: 36612183--36612214 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
36612173 ATATTACAGA
36612183 TGCTACTTTAT
1 TGCTACTTTAT
36612194 TGCTACTTTAT
1 TGCTACTTTAT
36612205 TGCTACTTTA
1 TGCTACTTTA
36612215 GTGGCAACTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.09, T:0.53
Consensus pattern (11 bp):
TGCTACTTTAT
Found at i:36626320 original size:56 final size:58
Alignment explanation
Indices: 36626208--36626329 Score: 176
Period size: 56 Copynumber: 2.1 Consensus size: 58
36626198 ATATAAATGG
* *
36626208 TGAAAATGAAGAAATGAGAAACATTTGGAAATGATTATGATTTTTTCCAAAATGAAAA
1 TGAAAATGAAGAAATGAGAAACATTTGGAAATAATTATGATTTTCTCCAAAATGAAAA
* * * *
36626266 TGAAAATGAAGAAGTGA-AATCATTTGG-AATAATTATGGTTTTCTCCATAATGAAAA
1 TGAAAATGAAGAAATGAGAAACATTTGGAAATAATTATGATTTTCTCCAAAATGAAAA
36626322 TGAAAATG
1 TGAAAATG
36626330 TAAATCACCT
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
56 33 0.57
57 9 0.16
58 16 0.28
ACGTcount: A:0.46, C:0.06, G:0.18, T:0.30
Consensus pattern (58 bp):
TGAAAATGAAGAAATGAGAAACATTTGGAAATAATTATGATTTTCTCCAAAATGAAAA
Found at i:36627658 original size:18 final size:17
Alignment explanation
Indices: 36627637--36627680 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
36627627 TTTATCGTAC
*
36627637 TAATAAATTTTTTTATAA
1 TAATAAATATTTTTA-AA
*
36627655 TAATTAATATTTTTAAA
1 TAATAAATATTTTTAAA
*
36627672 AAATAAATA
1 TAATAAATA
36627681 ATATAACTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
TAATAAATATTTTTAAA
Found at i:36632001 original size:18 final size:21
Alignment explanation
Indices: 36631974--36632011 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
36631964 TTTATTTTTA
36631974 TTTTTCTCC-A-TTATTGAGC
1 TTTTTCTCCAAGTTATTGAGC
36631993 TTTTT-TCCAAGTTATTGAG
1 TTTTTCTCCAAGTTATTGAG
36632012 ATGAAGCTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 3 0.18
19 6 0.35
20 8 0.47
ACGTcount: A:0.18, C:0.16, G:0.13, T:0.53
Consensus pattern (21 bp):
TTTTTCTCCAAGTTATTGAGC
Found at i:36632101 original size:12 final size:12
Alignment explanation
Indices: 36632084--36632108 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
36632074 TTAGACTGAA
36632084 GTGAGTTGAGCT
1 GTGAGTTGAGCT
36632096 GTGAGTTGAGCT
1 GTGAGTTGAGCT
36632108 G
1 G
36632109 AAATTTAAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.44, T:0.32
Consensus pattern (12 bp):
GTGAGTTGAGCT
Found at i:36634311 original size:13 final size:13
Alignment explanation
Indices: 36634290--36634347 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
36634280 ACCCAAAATA
*
36634290 AATTGATTTAATC
1 AATTAATTTAATC
*
36634303 AATTAATTTAATT
1 AATTAATTTAATC
* *
36634316 AATTAAATTAACTA
1 AATTAATTTAA-TC
*
36634330 AATTAATTT-CTC
1 AATTAATTTAATC
36634342 AATTAA
1 AATTAA
36634348 ATAATCTTCT
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
12 7 0.19
13 21 0.57
14 9 0.24
ACGTcount: A:0.47, C:0.07, G:0.02, T:0.45
Consensus pattern (13 bp):
AATTAATTTAATC
Found at i:36634317 original size:9 final size:9
Alignment explanation
Indices: 36634303--36634337 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
36634293 TGATTTAATC
*
36634303 AATTAATTT
1 AATTAATTA
36634312 AATTAATTA
1 AATTAATTA
*
36634321 AATTAACTA
1 AATTAATTA
36634330 AATTAATT
1 AATTAATT
36634338 TCTCAATTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (9 bp):
AATTAATTA
Found at i:36634357 original size:17 final size:17
Alignment explanation
Indices: 36634328--36634360 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
36634318 TTAAATTAAC
36634328 TAAATTAATTTCTCAAT
1 TAAATTAATTTCTCAAT
36634345 TAAA-TAATCTTCTCAA
1 TAAATTAAT-TTCTCAA
36634361 CCCAATTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.42, C:0.15, G:0.00, T:0.42
Consensus pattern (17 bp):
TAAATTAATTTCTCAAT
Found at i:36637096 original size:42 final size:42
Alignment explanation
Indices: 36637011--36637243 Score: 306
Period size: 42 Copynumber: 5.6 Consensus size: 42
36637001 ACCAGCGCTT
* * * *
36637011 AGCCTGCTAGACATATAGTTTGAAA-TGTTTCACCGGCATTA
1 AGCCTGCTAGACGTAAAGTCTGAAATTATTTCACCGGCATTA
* *
36637052 AGCCTGATAGACGTAAAGCCTGAAATTATTTCACCGGCATTA
1 AGCCTGCTAGACGTAAAGTCTGAAATTATTTCACCGGCATTA
* * * * *
36637094 AGCCTGCTAGACGTAAAGTCTGATATTGTTTCACTGCCAATA
1 AGCCTGCTAGACGTAAAGTCTGAAATTATTTCACCGGCATTA
36637136 AGCCTGCTAGACGTAAAGTCTGAAATTATTTCACCGGCATTA
1 AGCCTGCTAGACGTAAAGTCTGAAATTATTTCACCGGCATTA
* * * * *
36637178 AGCCTTCTAGACGTAAAGTCTGATATTGTTTCACTGGCAATA
1 AGCCTGCTAGACGTAAAGTCTGAAATTATTTCACCGGCATTA
*
36637220 AGCCTGCTAGGCGTAAAGTCTGAA
1 AGCCTGCTAGACGTAAAGTCTGAA
36637244 GTCTCAATTT
Statistics
Matches: 165, Mismatches: 26, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
41 20 0.12
42 145 0.88
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (42 bp):
AGCCTGCTAGACGTAAAGTCTGAAATTATTTCACCGGCATTA
Found at i:36637138 original size:84 final size:84
Alignment explanation
Indices: 36637011--36637243 Score: 360
Period size: 84 Copynumber: 2.8 Consensus size: 84
36637001 ACCAGCGCTT
* * * * * * * *
36637011 AGCCTGCTAGACATATAGTTTGA-AATGTTTCACCGGCATTAAGCCTGATAGACGTAAAGCCTGA
1 AGCCTGCTAGACGTAAAGTCTGATATTGTTTCACTGGCAATAAGCCTGCTAGACGTAAAGTCTGA
36637075 AATTATTTCACCGGCATTA
66 AATTATTTCACCGGCATTA
*
36637094 AGCCTGCTAGACGTAAAGTCTGATATTGTTTCACTGCCAATAAGCCTGCTAGACGTAAAGTCTGA
1 AGCCTGCTAGACGTAAAGTCTGATATTGTTTCACTGGCAATAAGCCTGCTAGACGTAAAGTCTGA
36637159 AATTATTTCACCGGCATTA
66 AATTATTTCACCGGCATTA
* *
36637178 AGCCTTCTAGACGTAAAGTCTGATATTGTTTCACTGGCAATAAGCCTGCTAGGCGTAAAGTCTGA
1 AGCCTGCTAGACGTAAAGTCTGATATTGTTTCACTGGCAATAAGCCTGCTAGACGTAAAGTCTGA
36637243 A
66 A
36637244 GTCTCAATTT
Statistics
Matches: 137, Mismatches: 12, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
83 20 0.15
84 117 0.85
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (84 bp):
AGCCTGCTAGACGTAAAGTCTGATATTGTTTCACTGGCAATAAGCCTGCTAGACGTAAAGTCTGA
AATTATTTCACCGGCATTA
Found at i:36637193 original size:126 final size:125
Alignment explanation
Indices: 36637011--36637242 Score: 347
Period size: 126 Copynumber: 1.8 Consensus size: 125
36637001 ACCAGCGCTT
* * *
36637011 AGCCTGCTAGACATATAGTTTGAAATGTTTCACCGGCATTAAGCCTGATAGACGTAAAGCCTGAA
1 AGCCTGCTAGACATAAAGTCTGAAATATTTCACCGGCATTAAGCCTGATAGACGTAAAGCCTGAA
*
36637076 ATTATTTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGATATTGTTTCACTGCCAATA
66 ATTATTTCACCGGCAATAAGCCTGCTAGACGTAAAGTCTGATATTGTTTCACTGCCAATA
* ** *
36637136 AGCCTGCTAGACGTAAAGTCTGAAATTATTTCACCGGCATTAAGCCTTCTAGACGTAAAGTCTGA
1 AGCCTGCTAGACATAAAGTCTGAAA-TATTTCACCGGCATTAAGCCTGATAGACGTAAAGCCTGA
* * * *
36637201 TATTGTTTCACTGGCAATAAGCCTGCTAGGCGTAAAGTCTGA
65 AATTATTTCACCGGCAATAAGCCTGCTAGACGTAAAGTCTGA
36637243 AGTCTCAATT
Statistics
Matches: 94, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
125 22 0.23
126 72 0.77
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (125 bp):
AGCCTGCTAGACATAAAGTCTGAAATATTTCACCGGCATTAAGCCTGATAGACGTAAAGCCTGAA
ATTATTTCACCGGCAATAAGCCTGCTAGACGTAAAGTCTGATATTGTTTCACTGCCAATA
Found at i:36645078 original size:42 final size:42
Alignment explanation
Indices: 36645027--36645275 Score: 320
Period size: 42 Copynumber: 5.9 Consensus size: 42
36645017 TAGTCTAACA
* *
36645027 TGTTTCACCGGCATTAAGCCTACTAGAAGTAAAGTATGATAT
1 TGTTTCACCGGCATTAAGCCTACTAGACGTAAAGTCTGATAT
*
36645069 TGTTTCACCGGCATTAAGCCTGA-TAGACGTAAAGTCTGAAAT
1 TGTTTCACCGGCATTAAGCCT-ACTAGACGTAAAGTCTGATAT
* *
36645111 TATTTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGATAT
1 TGTTTCACCGGCATTAAGCCTACTAGACGTAAAGTCTGATAT
* * * * * *
36645153 TGTTTCACTGCCAATAAGCCTGCTAGACGTAAAGTCTGAAAC
1 TGTTTCACCGGCATTAAGCCTACTAGACGTAAAGTCTGATAT
* * *
36645195 TATTTCACCGGCATTAAGCCTACTAGACATAAAGTTTGATAT
1 TGTTTCACCGGCATTAAGCCTACTAGACGTAAAGTCTGATAT
* * * *
36645237 TGTTTCACTGGCAATAAGCCTGCTAGGCGTAAAGTCTGA
1 TGTTTCACCGGCATTAAGCCTACTAGACGTAAAGTCTGA
36645276 AGTCTCAATT
Statistics
Matches: 177, Mismatches: 28, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
42 176 0.99
43 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.30
Consensus pattern (42 bp):
TGTTTCACCGGCATTAAGCCTACTAGACGTAAAGTCTGATAT
Found at i:36645137 original size:84 final size:84
Alignment explanation
Indices: 36645002--36645276 Score: 394
Period size: 84 Copynumber: 3.3 Consensus size: 84
36644992 ACCGACACTT
* * *
36645002 AGCCTGCTAGACATATAGTCT--AACATGTTTCACCGGCATTAAGCCTACTAGAAGTAAAGTATG
1 AGCCTGCTAGACGTAAAGTCTGAAAC-TATTTCACCGGCATTAAGCCTACTAGAAGTAAAGTATG
* *
36645065 ATATTGTTTCACCGGCATTA
65 ATATTGTTTCACTGGCAATA
* * * * *
36645085 AGCCTGATAGACGTAAAGTCTGAAATTATTTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGA
1 AGCCTGCTAGACGTAAAGTCTGAAACTATTTCACCGGCATTAAGCCTACTAGAAGTAAAGTATGA
*
36645150 TATTGTTTCACTGCCAATA
66 TATTGTTTCACTGGCAATA
*
36645169 AGCCTGCTAGACGTAAAGTCTGAAACTATTTCACCGGCATTAAGCCTACTAGACA-TAAAGTTTG
1 AGCCTGCTAGACGTAAAGTCTGAAACTATTTCACCGGCATTAAGCCTACTAGA-AGTAAAGTATG
36645233 ATATTGTTTCACTGGCAATA
65 ATATTGTTTCACTGGCAATA
*
36645253 AGCCTGCTAGGCGTAAAGTCTGAA
1 AGCCTGCTAGACGTAAAGTCTGAA
36645277 GTCTCAATTT
Statistics
Matches: 171, Mismatches: 18, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
83 18 0.11
84 151 0.88
85 2 0.01
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.29
Consensus pattern (84 bp):
AGCCTGCTAGACGTAAAGTCTGAAACTATTTCACCGGCATTAAGCCTACTAGAAGTAAAGTATGA
TATTGTTTCACTGGCAATA
Found at i:36651256 original size:16 final size:16
Alignment explanation
Indices: 36651235--36651283 Score: 80
Period size: 16 Copynumber: 3.1 Consensus size: 16
36651225 GTCAATTACT
36651235 ATATACTGCATAAGTC
1 ATATACTGCATAAGTC
*
36651251 ATATACTGCTTAAGTC
1 ATATACTGCATAAGTC
*
36651267 ATATACTTCATAAGTC
1 ATATACTGCATAAGTC
36651283 A
1 A
36651284 ATTAAGTCAC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.37, C:0.18, G:0.10, T:0.35
Consensus pattern (16 bp):
ATATACTGCATAAGTC
Found at i:36652314 original size:5 final size:5
Alignment explanation
Indices: 36652304--36652361 Score: 116
Period size: 5 Copynumber: 11.6 Consensus size: 5
36652294 CAATAGAACA
36652304 AGAAG AGAAG AGAAG AGAAG AGAAG AGAAG AGAAG AGAAG AGAAG AGAAG
1 AGAAG AGAAG AGAAG AGAAG AGAAG AGAAG AGAAG AGAAG AGAAG AGAAG
36652354 AGAAG AGA
1 AGAAG AGA
36652362 GGAGTGCACT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 53 1.00
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (5 bp):
AGAAG
Found at i:36660820 original size:27 final size:27
Alignment explanation
Indices: 36660790--36660916 Score: 116
Period size: 27 Copynumber: 4.7 Consensus size: 27
36660780 TATGGAAAAC
* * *
36660790 CTCTATAACGGAAGACTTTGTGGCAAT
1 CTCTGTAAAGGAAGCCTTTGTGGCAAT
* * *
36660817 CTCTGTAATGGGAGCCTTTGTGGCTAT
1 CTCTGTAAAGGAAGCCTTTGTGGCAAT
*
36660844 C-CATGTAAAGGAAGCCTTTGTGGCTA-
1 CTC-TGTAAAGGAAGCCTTTGTGGCAAT
* * *
36660870 CCCTTGTAAAAGAAGCCTTTGTGGCTAT
1 CTC-TGTAAAGGAAGCCTTTGTGGCAAT
36660898 -TCATGTAAAGGAAGCCTTT
1 CTC-TGTAAAGGAAGCCTTT
36660917 CTCGCTACCC
Statistics
Matches: 85, Mismatches: 12, Indels: 6
0.83 0.12 0.06
Matches are distributed among these distances:
26 2 0.02
27 83 0.98
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.31
Consensus pattern (27 bp):
CTCTGTAAAGGAAGCCTTTGTGGCAAT
Found at i:36660864 original size:54 final size:54
Alignment explanation
Indices: 36660829--36660973 Score: 190
Period size: 54 Copynumber: 2.8 Consensus size: 54
36660819 CTGTAATGGG
*
36660829 AGCCTTTGTGGCTATCCATGTAAAGGAAGCCTTTGTGGCTACCCTTGTAAAAGA
1 AGCCTTTGTGGCTATCCATGTAAAGGAAGCCTTTGTGGCAACCCTTGTAAAAGA
* * * * *
36660883 AGCCTTTGTGGCTATTCATGTAAAGGAAGCCTTTCTCGCTACCCATGTAAAAGA
1 AGCCTTTGTGGCTATCCATGTAAAGGAAGCCTTTGTGGCAACCCTTGTAAAAGA
* *
36660937 AG----TGTGCCTATCCATGTAAAGGAAGCCCTTGTGGCAA
1 AGCCTTTGTGGCTATCCATGTAAAGGAAGCCTTTGTGGCAA
36660974 TCCGAATAAA
Statistics
Matches: 81, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
50 29 0.36
54 52 0.64
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.28
Consensus pattern (54 bp):
AGCCTTTGTGGCTATCCATGTAAAGGAAGCCTTTGTGGCAACCCTTGTAAAAGA
Found at i:36660923 original size:27 final size:27
Alignment explanation
Indices: 36660820--36660971 Score: 159
Period size: 27 Copynumber: 5.8 Consensus size: 27
36660810 TGGCAATCTC
* * *
36660820 TGTAATGGGAGCCTTTGTGGCTATCCA
1 TGTAAAGGAAGCCTTTGTGGCTACCCA
*
36660847 TGTAAAGGAAGCCTTTGTGGCTACCCT
1 TGTAAAGGAAGCCTTTGTGGCTACCCA
* **
36660874 TGTAAAAGAAGCCTTTGTGGCTATTCA
1 TGTAAAGGAAGCCTTTGTGGCTACCCA
* *
36660901 TGTAAAGGAAGCCTTTCTCGCTACCCA
1 TGTAAAGGAAGCCTTTGTGGCTACCCA
* * *
36660928 TGTAAAAGAAG----TGTGCCTATCCA
1 TGTAAAGGAAGCCTTTGTGGCTACCCA
*
36660951 TGTAAAGGAAGCCCTTGTGGC
1 TGTAAAGGAAGCCTTTGTGGC
36660972 AATCCGAATA
Statistics
Matches: 101, Mismatches: 20, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
23 18 0.18
27 83 0.82
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (27 bp):
TGTAAAGGAAGCCTTTGTGGCTACCCA
Found at i:36664457 original size:28 final size:27
Alignment explanation
Indices: 36664420--36664504 Score: 91
Period size: 28 Copynumber: 3.1 Consensus size: 27
36664410 GACAGTTAAG
*
36664420 ATAACCTTTGTGGTGAACTCTGAAAATA
1 ATAACATTTGTGGTGAACTCTGAAAA-A
* *
36664448 ATAACATTTGTGGTGAACTGTGAAAGGA
1 ATAACATTTGTGGTGAACTCTGAAA-AA
* **
36664476 ATAACATGTGTGGAAAACTCT-AAAAA
1 ATAACATTTGTGGTGAACTCTGAAAAA
36664502 ATA
1 ATA
36664505 GCTTGTGTGG
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
26 4 0.08
27 3 0.06
28 41 0.85
ACGTcount: A:0.41, C:0.11, G:0.20, T:0.28
Consensus pattern (27 bp):
ATAACATTTGTGGTGAACTCTGAAAAA
Found at i:36667297 original size:50 final size:50
Alignment explanation
Indices: 36667233--36667335 Score: 161
Period size: 50 Copynumber: 2.1 Consensus size: 50
36667223 AGTCTTTCCC
* *
36667233 TTAGTAAGAGCTTCTTTGAGAATAGAAGAAATGTCCATGTCTGGGGGATG
1 TTAGTAAGAACTTCTTTGAGAATAGAAGAAATGTCAATGTCTGGGGGATG
* * *
36667283 TTAGTAAGAACTTCTTTGATAGTGGAAGAAATGTCAATGTCTGGGGGATG
1 TTAGTAAGAACTTCTTTGAGAATAGAAGAAATGTCAATGTCTGGGGGATG
36667333 TTA
1 TTA
36667336 ATCTGATGAA
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.30, C:0.09, G:0.29, T:0.32
Consensus pattern (50 bp):
TTAGTAAGAACTTCTTTGAGAATAGAAGAAATGTCAATGTCTGGGGGATG
Found at i:36670022 original size:28 final size:28
Alignment explanation
Indices: 36669990--36670046 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
36669980 TAAGATAGCC
36669990 TTTGTGCCGAACTCAGAAAAGAATAACA
1 TTTGTGCCGAACTCAGAAAAGAATAACA
* ** *
36670018 TTTGTGCTGAACTGTGAAACGAATAACA
1 TTTGTGCCGAACTCAGAAAAGAATAACA
36670046 T
1 T
36670047 GTATGGAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.39, C:0.16, G:0.19, T:0.26
Consensus pattern (28 bp):
TTTGTGCCGAACTCAGAAAAGAATAACA
Found at i:36671499 original size:27 final size:27
Alignment explanation
Indices: 36671409--36671501 Score: 87
Period size: 28 Copynumber: 3.4 Consensus size: 27
36671399 AAAAGAATAA
*
36671409 CCTTTGTGGCGAACTGTGAAAGGAATG
1 CCTTTGTGGCGAACTTTGAAAGGAATG
* ** ** * *
36671436 ACATGGGTGGAAAAATTTCAAAGGAATAG
1 -CCTTTGTGGCGAACTTTGAAAGGAAT-G
*
36671465 CCTTTGTGGCGAACTTTGAAAGGGATG
1 CCTTTGTGGCGAACTTTGAAAGGAATG
36671492 CCTTTGTGGC
1 CCTTTGTGGC
36671502 AAATTCTGAA
Statistics
Matches: 48, Mismatches: 16, Indels: 3
0.72 0.24 0.04
Matches are distributed among these distances:
27 11 0.23
28 36 0.75
29 1 0.02
ACGTcount: A:0.28, C:0.14, G:0.31, T:0.27
Consensus pattern (27 bp):
CCTTTGTGGCGAACTTTGAAAGGAATG
Found at i:36671511 original size:27 final size:28
Alignment explanation
Indices: 36671397--36671511 Score: 83
Period size: 28 Copynumber: 4.1 Consensus size: 28
36671387 TGGATAACTC
* * * *
36671397 TGAAAAGAATAACCTTTGTGGCGAACTG
1 TGAAAGGAATAGCCTTTGTGGCGAAATT
* ** **
36671425 TGAAAGGAAT-GACATGGGTGGAAAAATT
1 TGAAAGGAATAG-CCTTTGTGGCGAAATT
* *
36671453 TCAAAGGAATAGCCTTTGTGGCGAACTT
1 TGAAAGGAATAGCCTTTGTGGCGAAATT
*
36671481 TGAAAGGGAT-GCCTTTGTGGC-AAATT
1 TGAAAGGAATAGCCTTTGTGGCGAAATT
36671507 CTGAA
1 -TGAA
36671512 TTGATCACCT
Statistics
Matches: 65, Mismatches: 19, Indels: 7
0.71 0.21 0.08
Matches are distributed among these distances:
26 4 0.06
27 15 0.23
28 45 0.69
29 1 0.02
ACGTcount: A:0.34, C:0.12, G:0.28, T:0.26
Consensus pattern (28 bp):
TGAAAGGAATAGCCTTTGTGGCGAAATT
Found at i:36674473 original size:14 final size:14
Alignment explanation
Indices: 36674437--36674474 Score: 51
Period size: 16 Copynumber: 2.6 Consensus size: 14
36674427 TTTACATCTC
36674437 AAAAAAT-TATAAA
1 AAAAAATATATAAA
36674450 AAAATCAATATATAAA
1 AAAA--AATATATAAA
36674466 AAAAAATAT
1 AAAAAATAT
36674475 TATTGAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
13 4 0.18
14 5 0.23
15 3 0.14
16 10 0.45
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (14 bp):
AAAAAATATATAAA
Found at i:36674499 original size:16 final size:15
Alignment explanation
Indices: 36674442--36674499 Score: 55
Period size: 15 Copynumber: 3.7 Consensus size: 15
36674432 ATCTCAAAAA
36674442 ATTATAAAAAAATCAAT
1 ATTAT-AAAAAAT-AAT
*
36674459 A-TATAAAAAAAAAT
1 ATTATAAAAAATAAT
**
36674473 ATTATTGAAAATAAT
1 ATTATAAAAAATAAT
36674488 ATTTATAAAAAA
1 A-TTATAAAAAA
36674500 CTAACCCTAA
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
14 4 0.12
15 17 0.52
16 11 0.33
17 1 0.03
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.31
Consensus pattern (15 bp):
ATTATAAAAAATAAT
Found at i:36680355 original size:26 final size:26
Alignment explanation
Indices: 36680299--36680360 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
36680289 GCACGAATCA
36680299 ATCATTTACCCTCAAAGAGCAAAATAG
1 ATCATTTACCCTCAAAGAGC-AAATAG
* *
36680326 -TCATTTACCCTCAAAGGGC-ATTACG
1 ATCATTTACCCTCAAAGAGCAAATA-G
36680351 ATCATTTACC
1 ATCATTTACC
36680361 AACCTTTCCG
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
24 3 0.10
25 1 0.03
26 27 0.87
ACGTcount: A:0.35, C:0.26, G:0.11, T:0.27
Consensus pattern (26 bp):
ATCATTTACCCTCAAAGAGCAAATAG
Done.