Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 112 of 362
Found at i:36841641 original size:15 final size:15
Alignment explanation
Indices: 36841621--36841685 Score: 89
Period size: 15 Copynumber: 4.4 Consensus size: 15
36841611 GTATCTTGGG
36841621 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
36841636 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
36841651 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
36841666 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
36841680 TTTCTT
1 TTTCTT
36841686 GTTATCTTTG
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
14 10 0.22
15 33 0.73
16 2 0.04
ACGTcount: A:0.11, C:0.15, G:0.12, T:0.62
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:36844110 original size:41 final size:41
Alignment explanation
Indices: 36844053--36844215 Score: 164
Period size: 41 Copynumber: 3.7 Consensus size: 41
36844043 TGGTTGAGCA
36844053 TCCGAACTCGTTGAGTTGAGTCCGAGTTCAGAGGTGTAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCAGAGGTGTAATG
*
36844094 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-AGAGGTGTAA-T--G
* * * *
36844139 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCA--GA-GG-TG-TAATG
* *
36844187 CCCGAGCTCGTTGAGTTGAGTCCGAGTTC
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC
36844216 GCTTATGGGC
Statistics
Matches: 104, Mismatches: 7, Indels: 17
0.81 0.05 0.13
Matches are distributed among these distances:
41 29 0.28
42 9 0.09
43 1 0.01
45 1 0.01
46 29 0.28
47 28 0.27
48 2 0.02
49 1 0.01
50 2 0.02
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.31, T:0.28
Consensus pattern (41 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCAGAGGTGTAATG
Found at i:36844118 original size:20 final size:20
Alignment explanation
Indices: 36844053--36844118 Score: 55
Period size: 20 Copynumber: 3.2 Consensus size: 20
36844043 TGGTTGAGCA
36844053 TCCGAACTCGTTGAGTTGAG
1 TCCGAACTCGTTGAGTTGAG
** * *
36844073 TCCGAGTTC--AGAGGTGTAATG
1 TCCGAACTCGTTGA-GT-TGA-G
36844094 TCCGAACTCGTTGAGTTGAG
1 TCCGAACTCGTTGAGTTGAG
36844114 TCCGA
1 TCCGA
36844119 GTTCGAGAGA
Statistics
Matches: 33, Mismatches: 8, Indels: 10
0.65 0.16 0.20
Matches are distributed among these distances:
18 2 0.06
19 2 0.06
20 15 0.45
21 10 0.30
22 2 0.06
23 2 0.06
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (20 bp):
TCCGAACTCGTTGAGTTGAG
Found at i:36844151 original size:47 final size:43
Alignment explanation
Indices: 36844050--36844170 Score: 174
Period size: 41 Copynumber: 2.8 Consensus size: 43
36844040 GGATGGTTGA
*
36844050 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAGAGGTGTAAT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAGAGATGTAAT
36844093 G--TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC-AGAGATGTAA-T
*
36844136 AGGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCA
1 --GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCA
36844171 CTTATGGATG
Statistics
Matches: 70, Mismatches: 2, Indels: 9
0.86 0.02 0.11
Matches are distributed among these distances:
41 29 0.41
42 9 0.13
43 2 0.03
45 1 0.01
46 1 0.01
47 28 0.40
ACGTcount: A:0.22, C:0.20, G:0.31, T:0.27
Consensus pattern (43 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAGAGATGTAAT
Found at i:36856033 original size:12 final size:12
Alignment explanation
Indices: 36856016--36856041 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
36856006 ATTCTTCCAC
36856016 TTAAAGCAGGAT
1 TTAAAGCAGGAT
36856028 TTAAAGCAGGAT
1 TTAAAGCAGGAT
36856040 TT
1 TT
36856042 GCCACCATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.31
Consensus pattern (12 bp):
TTAAAGCAGGAT
Found at i:36863585 original size:39 final size:39
Alignment explanation
Indices: 36863542--36863669 Score: 148
Period size: 39 Copynumber: 3.3 Consensus size: 39
36863532 TATGAGATTG
* *
36863542 AAAATATCCGAACATGAGGTCCGCAGGCTATATGCTGGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTAGA
* *
36863581 AAAATATCCGGACATGAGATCCGTAGGCTATATGCTAGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTAGA
* * * * **
36863620 AATATATCCGGACTTGAGGTCCACAAGCTACGTGCTAGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTAGA
**
36863659 AGTATATCCGG
1 AAAATATCCGG
36863670 GTTAAAGACC
Statistics
Matches: 76, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 76 1.00
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.23
Consensus pattern (39 bp):
AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTAGA
Found at i:36870601 original size:27 final size:27
Alignment explanation
Indices: 36870563--36870864 Score: 376
Period size: 27 Copynumber: 11.2 Consensus size: 27
36870553 ATTACCAAAG
* * *
36870563 TACCCTCGATTTACAGAATCACTATTT
1 TACCCTCGATTTACAAAATTACTGTTT
36870590 TACCCTCGATTTACAAAATTA-TCGTTT
1 TACCCTCGATTTACAAAATTACT-GTTT
* * *
36870617 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
*
36870644 TACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACTGTTT
*
36870671 TACCATCGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
*
36870698 TACCCTCGATTTACAAAATTATTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
*
36870725 TACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* * **
36870752 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACTGTTT
36870779 TACCCTCGATTTACAAAATTA-TCGTTT
1 TACCCTCGATTTACAAAATTACT-GTTT
* *
36870806 TACCCTCAATTTACAGAATTA-TCGTTT
1 TACCCTCGATTTACAAAATTACT-GTTT
* * **
36870833 TACCCTTGATTTATAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACTGTTT
36870860 TACCC
1 TACCC
36870865 CTTGGGTGTT
Statistics
Matches: 240, Mismatches: 31, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
26 1 0.00
27 239 1.00
ACGTcount: A:0.30, C:0.22, G:0.07, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTGTTT
Found at i:36870668 original size:81 final size:81
Alignment explanation
Indices: 36870563--36870864 Score: 426
Period size: 81 Copynumber: 3.7 Consensus size: 81
36870553 ATTACCAAAG
* * *
36870563 TACCCTCGATTTACAGAATCACTATTTTACCCTCGATTTACAAAATTATCGTTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTACTATTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGATT
* * *
36870628 TATAGAATTACCGTTT
66 TACAAAATTATCGTTT
* * **
36870644 TACCCTCGATTTACAAAATTACTATTTTACCATCGATTTACAAAATTACTGTTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTACTATTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGATT
*
36870709 TACAAAATTATTGTTT
66 TACAAAATTATCGTTT
* * *
36870725 TACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTACTATTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGATT
36870790 TACAAAATTATCGTTT
66 TACAAAATTATCGTTT
* * * *
36870806 TACCCTCAATTTACAGAATTA-TCGTTTTACCCTTGATTTATAAAATTACCATTTTACCC
1 TACCCTCGATTTACAGAATTACT-ATTTTACCCTCGATTTACAAAATTACCATTTTACCC
36870865 CTTGGGTGTT
Statistics
Matches: 200, Mismatches: 20, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
80 1 0.00
81 199 1.00
ACGTcount: A:0.30, C:0.22, G:0.07, T:0.41
Consensus pattern (81 bp):
TACCCTCGATTTACAGAATTACTATTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGATT
TACAAAATTATCGTTT
Found at i:36871144 original size:27 final size:26
Alignment explanation
Indices: 36871100--36871150 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
36871090 CTCGCTGCAA
*
36871100 TCTGGTGGCCTCGCCACATATATCTAT
1 TCTGGTGACCTCGCCACA-ATATCTAT
* *
36871127 TCTGGTGACTTCGTCACAATATCT
1 TCTGGTGACCTCGCCACAATATCT
36871151 GGCAGCCTCG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.20, C:0.27, G:0.18, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTAT
Found at i:36871403 original size:31 final size:31
Alignment explanation
Indices: 36871368--36871477 Score: 127
Period size: 31 Copynumber: 3.5 Consensus size: 31
36871358 TTGCATTCAC
*
36871368 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTG
* * * *
36871399 ATTCTGATTCTAATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTG
36871430 ATTCTGATTCTGATTCTGATT--CTG-TCACCTG
1 ATTCTGATTCTGATTCTG-TTACCTGAT-A-CTG
36871461 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
36871478 CATTTTGATT
Statistics
Matches: 67, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
29 1 0.01
30 2 0.03
31 63 0.94
32 1 0.01
ACGTcount: A:0.19, C:0.20, G:0.14, T:0.47
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTTACCTGATACTG
Found at i:36871407 original size:6 final size:6
Alignment explanation
Indices: 36871368--36871498 Score: 99
Period size: 6 Copynumber: 21.3 Consensus size: 6
36871358 TTGCATTCAC
* * *
36871368 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTA ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
36871417 -TCACCTA ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG -TCACCTG ATTCTG
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG
* *
36871467 ATTCTG ATTCTC ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
36871499 AATGTTTCTT
Statistics
Matches: 98, Mismatches: 16, Indels: 22
0.72 0.12 0.16
Matches are distributed among these distances:
5 5 0.05
6 81 0.83
7 9 0.09
8 3 0.03
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:36871487 original size:37 final size:37
Alignment explanation
Indices: 36871368--36871489 Score: 157
Period size: 37 Copynumber: 3.5 Consensus size: 37
36871358 TTGCATTCAC
* *
36871368 ATTCTGATTTTGATTCTGTTACCTGATACTGATTCTG
1 ATTCTGATTTTGATTCTGTCACCTGATTCTGATTCTG
*
36871405 ATTCT-A-----ATTCTGTCACCTAATTCTGATTCTG
1 ATTCTGATTTTGATTCTGTCACCTGATTCTGATTCTG
*
36871436 ATTCTGATTCTGATTCTGTCACCTGATTCTGATTCTG
1 ATTCTGATTTTGATTCTGTCACCTGATTCTGATTCTG
*
36871473 ATTCTCATTTTGATTCT
1 ATTCTGATTTTGATTCT
36871490 AGTTCTGATA
Statistics
Matches: 73, Mismatches: 6, Indels: 12
0.80 0.07 0.13
Matches are distributed among these distances:
31 27 0.37
32 1 0.01
36 1 0.01
37 44 0.60
ACGTcount: A:0.19, C:0.20, G:0.13, T:0.48
Consensus pattern (37 bp):
ATTCTGATTTTGATTCTGTCACCTGATTCTGATTCTG
Found at i:36873390 original size:27 final size:27
Alignment explanation
Indices: 36873360--36873436 Score: 91
Period size: 27 Copynumber: 2.9 Consensus size: 27
36873350 CTCATATCTA
* * *
36873360 TAGGCTAGCATTACTGAAATACCCTTG
1 TAGGGTAGAATTACTGAAATACCCCTG
* *
36873387 TAGGGTAGAATTACTGAAGTGCCCCTG
1 TAGGGTAGAATTACTGAAATACCCCTG
**
36873414 TAGGGTAGAATTACCAAAATACC
1 TAGGGTAGAATTACTGAAATACC
36873437 ATTAGTTTAT
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.26
Consensus pattern (27 bp):
TAGGGTAGAATTACTGAAATACCCCTG
Found at i:36873452 original size:27 final size:27
Alignment explanation
Indices: 36873422--36873517 Score: 156
Period size: 27 Copynumber: 3.6 Consensus size: 27
36873412 TGTAGGGTAG
** *
36873422 AATTACCAAAATACCATTAGTTTATAA
1 AATTACCAAAATACCCCTAGTTTGTAA
36873449 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
36873476 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
*
36873503 AATTACCAAAGTACC
1 AATTACCAAAATACC
36873518 TTCGATTTAC
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 65 1.00
ACGTcount: A:0.44, C:0.21, G:0.06, T:0.29
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:36873453 original size:54 final size:54
Alignment explanation
Indices: 36873408--36873517 Score: 141
Period size: 54 Copynumber: 2.0 Consensus size: 54
36873398 TACTGAAGTG
* *
36873408 CCCCT-GTAGGGTAGAATTACCAAAATACCATTAGTTTATAAAATTACCAAAATA
1 CCCCTAGT-GGGTAAAATTACCAAAATACCACTAGTTTATAAAATTACCAAAATA
** * * *
36873462 CCCCTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAGTA
1 CCCCTAGTGGGTAAAATTACCAAAATACCACTAGTTTATAAAATTACCAAAATA
36873516 CC
1 CC
36873518 TTCGATTTAC
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
54 46 0.96
55 2 0.04
ACGTcount: A:0.40, C:0.22, G:0.10, T:0.28
Consensus pattern (54 bp):
CCCCTAGTGGGTAAAATTACCAAAATACCACTAGTTTATAAAATTACCAAAATA
Found at i:36873533 original size:27 final size:27
Alignment explanation
Indices: 36873514--36873626 Score: 163
Period size: 27 Copynumber: 4.2 Consensus size: 27
36873504 ATTACCAAAG
* *
36873514 TACCTTCGATTTACAGAATTATCATTT
1 TACCCTCGATTTACAGAATTACCATTT
*
36873541 TACCCTCGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
36873568 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
36873595 TACCCTCGATTTATAAAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
36873622 TACCC
1 TACCC
36873627 CTAGGGTGTT
Statistics
Matches: 78, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 78 1.00
ACGTcount: A:0.30, C:0.24, G:0.06, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCATTT
Found at i:36873622 original size:54 final size:54
Alignment explanation
Indices: 36873500--36873626 Score: 164
Period size: 54 Copynumber: 2.4 Consensus size: 54
36873490 CCCTAGTTTG
*** * * *
36873500 TAAAATTACCAAAGTACCTTCGATTTACAGAATTATCATTTTACCCTCGATTTA
1 TAAAATTACCATTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTA
* * * *
36873554 CAGAATTACTATTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTA
1 TAAAATTACCATTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTA
36873608 TAAAATTACCATTTTACCC
1 TAAAATTACCATTTTACCC
36873627 CTAGGGTGTT
Statistics
Matches: 60, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 60 1.00
ACGTcount: A:0.33, C:0.23, G:0.06, T:0.38
Consensus pattern (54 bp):
TAAAATTACCATTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTA
Found at i:36873906 original size:27 final size:26
Alignment explanation
Indices: 36873862--36873913 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
36873852 CTCGCTGCAA
*
36873862 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
36873889 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
36873914 GTAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:36874168 original size:31 final size:31
Alignment explanation
Indices: 36874130--36874239 Score: 127
Period size: 31 Copynumber: 3.5 Consensus size: 31
36874120 TTGCATTCAC
*
36874130 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTG
* * * *
36874161 ATTCTGATTCTAATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTG
36874192 ATTCTGATTCTGATTCTGATT--CTG-TCACCTG
1 ATTCTGATTCTGATTCTG-TTACCTGAT-A-CTG
36874223 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
36874240 CATTTTGATT
Statistics
Matches: 67, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
29 1 0.01
30 2 0.03
31 63 0.94
32 1 0.01
ACGTcount: A:0.19, C:0.20, G:0.14, T:0.47
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTTACCTGATACTG
Found at i:36874169 original size:6 final size:6
Alignment explanation
Indices: 36874130--36874260 Score: 99
Period size: 6 Copynumber: 21.3 Consensus size: 6
36874120 TTGCATTCAC
* * *
36874130 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTA ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
36874179 -TCACCTA ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG -TCACCTG ATTCTG
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG
* *
36874229 ATTCTG ATTCTC ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
36874261 AATGTTTCTT
Statistics
Matches: 98, Mismatches: 16, Indels: 22
0.72 0.12 0.16
Matches are distributed among these distances:
5 5 0.05
6 81 0.83
7 9 0.09
8 3 0.03
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:36874249 original size:37 final size:37
Alignment explanation
Indices: 36874130--36874251 Score: 157
Period size: 37 Copynumber: 3.5 Consensus size: 37
36874120 TTGCATTCAC
* *
36874130 ATTCTGATTTTGATTCTGTTACCTGATACTGATTCTG
1 ATTCTGATTTTGATTCTGTCACCTGATTCTGATTCTG
*
36874167 ATTCT-A-----ATTCTGTCACCTAATTCTGATTCTG
1 ATTCTGATTTTGATTCTGTCACCTGATTCTGATTCTG
*
36874198 ATTCTGATTCTGATTCTGTCACCTGATTCTGATTCTG
1 ATTCTGATTTTGATTCTGTCACCTGATTCTGATTCTG
*
36874235 ATTCTCATTTTGATTCT
1 ATTCTGATTTTGATTCT
36874252 AGTTCTGATA
Statistics
Matches: 73, Mismatches: 6, Indels: 12
0.80 0.07 0.13
Matches are distributed among these distances:
31 27 0.37
32 1 0.01
36 1 0.01
37 44 0.60
ACGTcount: A:0.19, C:0.20, G:0.13, T:0.48
Consensus pattern (37 bp):
ATTCTGATTTTGATTCTGTCACCTGATTCTGATTCTG
Found at i:36880768 original size:31 final size:31
Alignment explanation
Indices: 36880730--36880808 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
36880720 TTTAACGGTT
* *
36880730 ACTGGGCCAAAGCCTTTTCATAAATTATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
36880761 ACTGGGCCGAAGCCTTTTCATAAATCATTTC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
36880792 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
36880809 ACTGTAAACG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:36880879 original size:42 final size:42
Alignment explanation
Indices: 36880832--36880923 Score: 130
Period size: 42 Copynumber: 2.2 Consensus size: 42
36880822 TGGCCCATAG
* ** * *
36880832 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGGAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
*
36880874 GCCCATTTCAATATCATATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
36880916 GCCCATTT
1 GCCCATTT
36880924 GGGGAGACTA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:36881109 original size:26 final size:26
Alignment explanation
Indices: 36881056--36881140 Score: 95
Period size: 26 Copynumber: 3.3 Consensus size: 26
36881046 CTGGAGTCCT
* *
36881056 AGCCTCTTTT-AAT-AACTGGGGCA-C
1 AGCC-CTTTTCAATAAACTAGGGCATA
** *
36881080 AGCCCTTTTCGGTAAACTTGGGCATA
1 AGCCCTTTTCAATAAACTAGGGCATA
36881106 AGCCCTTTTCAATAAACTAGGGCATA
1 AGCCCTTTTCAATAAACTAGGGCATA
36881132 AGCCCTTTT
1 AGCCCTTTT
36881141 GCACTTCCTC
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
23 5 0.10
24 5 0.10
25 9 0.18
26 32 0.63
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.31
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTAGGGCATA
Found at i:36882042 original size:27 final size:27
Alignment explanation
Indices: 36881942--36882025 Score: 125
Period size: 27 Copynumber: 3.1 Consensus size: 27
36881932 GGGCATATTC
* *
36881942 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACCCTACAGGGGCT-TTACG
*
36881969 GTCACTTTACCCTACAAGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
36881996 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
36882023 GTC
1 GTC
36882026 TTTTTACCTA
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 51 0.98
28 1 0.02
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.31
Consensus pattern (27 bp):
GTCACTTTACCCTACAGGGGCTTTACG
Found at i:36882117 original size:27 final size:27
Alignment explanation
Indices: 36882087--36882138 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
36882077 GTAAATCTAC
36882087 AAACCAAGGGTATTTC-AGTAATTTTGT
1 AAACCAAGGGTATTTCTA-TAATTTTGT
*
36882114 AAACCAATGGTATTTCTATAATTTT
1 AAACCAAGGGTATTTCTATAATTTT
36882139 TAGAAAGTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.35, C:0.12, G:0.13, T:0.40
Consensus pattern (27 bp):
AAACCAAGGGTATTTCTATAATTTTGT
Found at i:36882711 original size:16 final size:16
Alignment explanation
Indices: 36882692--36882727 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
36882682 GGTAAAAGTC
*
36882692 GAAATGCTGAAAAGCT
1 GAAATGCAGAAAAGCT
36882708 GAAATGCAGAAAAGCT
1 GAAATGCAGAAAAGCT
36882724 GAAA
1 GAAA
36882728 CTTTGATTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.50, C:0.11, G:0.25, T:0.14
Consensus pattern (16 bp):
GAAATGCAGAAAAGCT
Found at i:36884519 original size:46 final size:45
Alignment explanation
Indices: 36884460--36884730 Score: 258
Period size: 46 Copynumber: 5.8 Consensus size: 45
36884450 GATATTTGGG
*
36884460 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTC-CTTATGGATACTAA
* * * * * * *
36884506 CGTTCAAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTA-ACTAGG
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCCT--TATGGATACTA-A
*
36884553 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTC-CTTATGGATACTAA
* * * *
36884599 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTA-ACTAGC
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCCT--TATGGATACTA-A
* * *
36884646 CATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTC-CTTATGGATACTAA
** * *
36884692 CGCCCGAGCTCATTGAGTTGAGTCCGAGTTCCATTATGG
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCC-TTATGG
36884731 GCGGGTTACA
Statistics
Matches: 181, Mismatches: 33, Indels: 22
0.77 0.14 0.09
Matches are distributed among these distances:
45 3 0.02
46 105 0.58
47 71 0.39
48 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (45 bp):
CATCCGAACTCGTTGAGTTGAGTCCGAGTTCCTTATGGATACTAA
Found at i:36884570 original size:93 final size:93
Alignment explanation
Indices: 36884458--36884722 Score: 422
Period size: 93 Copynumber: 2.8 Consensus size: 93
36884448 CGGATATTTG
* * * *
36884458 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGTTCAAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGAG
*
36884523 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAAATGTAACTA
* *
36884551 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAACATCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGAG
36884616 TTGAGTCCGAGTTCGTGAAATGTAACTA
66 TTGAGTCCGAGTTCGTGAAATGTAACTA
* * * * *
36884644 GCCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAGCTCATTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGAG
36884709 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
36884723 CATTATGGGC
Statistics
Matches: 159, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 159 1.00
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAAATGTAACTA
Found at i:36887730 original size:15 final size:15
Alignment explanation
Indices: 36887710--36887774 Score: 71
Period size: 15 Copynumber: 4.4 Consensus size: 15
36887700 GTATCTTGGG
36887710 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
36887725 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
* *
36887740 TTTC-TCAATCTTGGA
1 TTTCTTTATTC-TGGA
*
36887755 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
36887769 TTTCTT
1 TTTCTT
36887775 GTTATCTTTA
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
14 12 0.29
15 25 0.61
16 4 0.10
ACGTcount: A:0.11, C:0.15, G:0.14, T:0.60
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:36887740 original size:30 final size:31
Alignment explanation
Indices: 36887706--36887774 Score: 90
Period size: 30 Copynumber: 2.3 Consensus size: 31
36887696 TATCGTATCT
* *
36887706 TGGGTTTCTTTATTC-TGGATTTCTTTATTC
1 TGGGTTTCTTCAATCTTGGATTTCTTTATTC
36887736 TGGGTTTC-TCAATCTTGGATTTCTTTATTC
1 TGGGTTTCTTCAATCTTGGATTTCTTTATTC
*
36887766 -GGTTTTCTT
1 TGGGTTTCTT
36887775 GTTATCTTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
29 10 0.29
30 24 0.71
ACGTcount: A:0.10, C:0.14, G:0.17, T:0.58
Consensus pattern (31 bp):
TGGGTTTCTTCAATCTTGGATTTCTTTATTC
Found at i:36890554 original size:46 final size:46
Alignment explanation
Indices: 36890500--36890815 Score: 393
Period size: 46 Copynumber: 6.8 Consensus size: 46
36890490 GATATTTGGG
36890500 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
* *
36890546 CGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
* *
36890592 CATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCTAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
*
36890638 CATCCGAACTCGTTGAGTTGAGTCCGAGTTAACTTATGGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
** * * * * * * * *
36890684 CGCCCGAGCTTGTTGAGTTGAGTCCGAGTTC-GTGAAATGTA-ACTAGG
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATGGATGCGA-A
*
36890731 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGTTGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
** * * * *
36890777 CGCCCGAGCTCATTGAGTTGAGTGCGAGTTCGCTTATGG
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
36890816 GTGGGTTACA
Statistics
Matches: 230, Mismatches: 35, Indels: 10
0.84 0.13 0.04
Matches are distributed among these distances:
45 1 0.00
46 195 0.85
47 33 0.14
48 1 0.00
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
Found at i:36900786 original size:42 final size:43
Alignment explanation
Indices: 36900709--36900842 Score: 182
Period size: 44 Copynumber: 3.1 Consensus size: 43
36900699 TCTTAGATGT
* * *
36900709 AATCAAATATTGATGCCACTGTCCCAGACAGGGTCTTACACGA
1 AATCAAATATCGATGCCAATGTCCCAGACATGGTCTTACACGA
* *
36900752 AATCAAATA-CGATGCCAATGTCCCAAACATGGTCTTACACATA
1 AATCAAATATCGATGCCAATGTCCCAGACATGGTCTTACAC-GA
*
36900795 AATCTAAA-ATCGATGCCAATGTCCCAGACATGGTCTTATACGA
1 AATC-AAATATCGATGCCAATGTCCCAGACATGGTCTTACACGA
36900838 AATCA
1 AATCA
36900843 CACATTGGAA
Statistics
Matches: 80, Mismatches: 8, Indels: 7
0.84 0.08 0.07
Matches are distributed among these distances:
42 28 0.35
43 20 0.25
44 32 0.40
ACGTcount: A:0.37, C:0.25, G:0.15, T:0.24
Consensus pattern (43 bp):
AATCAAATATCGATGCCAATGTCCCAGACATGGTCTTACACGA
Found at i:36900818 original size:44 final size:42
Alignment explanation
Indices: 36900673--36900842 Score: 171
Period size: 43 Copynumber: 4.0 Consensus size: 42
36900663 CGGAAAGCTC
* ** ** * * *
36900673 ATACAATGCCAACATCCCAGACGCGGTCTTAGATGTAATCAA
1 ATACGATGCCAATGTCCCAGACATGGTCTTACACGAAATCAA
* * *
36900715 ATATTGATGCCACTGTCCCAGACAGGGTCTTACACGAAATCAA
1 ATA-CGATGCCAATGTCCCAGACATGGTCTTACACGAAATCAA
* *
36900758 ATACGATGCCAATGTCCCAAACATGGTCTTACACATAAATCTAA
1 ATACGATGCCAATGTCCCAGACATGGTCTTACAC-GAAATC-AA
*
36900802 A-ATCGATGCCAATGTCCCAGACATGGTCTTATACGAAATCA
1 ATA-CGATGCCAATGTCCCAGACATGGTCTTACACGAAATCA
36900843 CACATTGGAA
Statistics
Matches: 106, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
42 31 0.29
43 43 0.41
44 32 0.30
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.24
Consensus pattern (42 bp):
ATACGATGCCAATGTCCCAGACATGGTCTTACACGAAATCAA
Found at i:36902245 original size:13 final size:13
Alignment explanation
Indices: 36902227--36902251 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36902217 AAAAATAGGG
36902227 GACACACGCCCGA
1 GACACACGCCCGA
36902240 GACACACGCCCG
1 GACACACGCCCG
36902252 TGTAACCTTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.48, G:0.24, T:0.00
Consensus pattern (13 bp):
GACACACGCCCGA
Found at i:36904051 original size:27 final size:28
Alignment explanation
Indices: 36903967--36904064 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
36903957 CATGAGATTG
* * * *
36903967 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
36903996 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
36904024 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
36904051 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
36904065 TACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:36904075 original size:27 final size:27
Alignment explanation
Indices: 36903995--36904077 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
36903985 TAAATTGTAC
* *
36903995 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
36904023 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
36904050 AGCACTGAGTGTGCGTACTT-AATATAT
1 AGCACTAAGTGTGCG-ACTTGAATATAT
36904077 A
1 A
36904078 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 31 0.62
28 19 0.38
ACGTcount: A:0.30, C:0.12, G:0.24, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:36922071 original size:114 final size:114
Alignment explanation
Indices: 36921871--36922077 Score: 324
Period size: 114 Copynumber: 1.8 Consensus size: 114
36921861 TCTATAGACT
* * *
36921871 ACAATATAGTGGCAGCTTTGGCTACATCTCAGTGGTAGCTTCAGCTACAATATAGTGGTAGCTTC
1 ACAATACAGTGGCAGCTTTGGCTACATCTCAGTGGTAGCTTCAGCTACAATACAATGGTAGCTTC
* *
36921936 GGCTACAATATAGTGGTAGCTTCGGCTAATCTCAGTGGTAGCTTCGGCC
66 GGCTACAATACAATGGTAGCTTCGGCTAATCTCAGTGGTAGCTTCGGCC
* * * * *
36921985 ACAATACAGTGGTAGCTTTGGTTGCATCTCAGTGGTAGCTTCGGCTACAATACAATGGTAGCTTT
1 ACAATACAGTGGCAGCTTTGGCTACATCTCAGTGGTAGCTTCAGCTACAATACAATGGTAGCTTC
36922050 GGCTACAATACAATGGTAGCTTCGGCTA
66 GGCTACAATACAATGGTAGCTTCGGCTA
36922078 CGTTACAGTG
Statistics
Matches: 83, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
114 83 1.00
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (114 bp):
ACAATACAGTGGCAGCTTTGGCTACATCTCAGTGGTAGCTTCAGCTACAATACAATGGTAGCTTC
GGCTACAATACAATGGTAGCTTCGGCTAATCTCAGTGGTAGCTTCGGCC
Found at i:36922084 original size:23 final size:23
Alignment explanation
Indices: 36921869--36922110 Score: 231
Period size: 23 Copynumber: 10.6 Consensus size: 23
36921859 AATCTATAGA
* * *
36921869 CTACAATATAGTGGCAGCTTTGG
1 CTACAATACAGTGGTAGCTTCGG
* *
36921892 CTAC-ATCTCAGTGGTAGCTTCAG
1 CTACAAT-ACAGTGGTAGCTTCGG
*
36921915 CTACAATATAGTGGTAGCTTCGG
1 CTACAATACAGTGGTAGCTTCGG
*
36921938 CTACAATATAGTGGTAGCTTCGG
1 CTACAATACAGTGGTAGCTTCGG
*
36921961 CT--AATCTCAGTGGTAGCTTCGG
1 CTACAAT-ACAGTGGTAGCTTCGG
* *
36921983 CCACAATACAGTGGTAGCTTTGG
1 CTACAATACAGTGGTAGCTTCGG
* * *
36922006 TTGC-ATCTCAGTGGTAGCTTCGG
1 CTACAAT-ACAGTGGTAGCTTCGG
* *
36922029 CTACAATACAATGGTAGCTTTGG
1 CTACAATACAGTGGTAGCTTCGG
*
36922052 CTACAATACAATGGTAGCTTCGG
1 CTACAATACAGTGGTAGCTTCGG
** * *
36922075 CTACGTTACAGTGATAGCTTCGA
1 CTACAATACAGTGGTAGCTTCGG
* *
36922098 CTATATTACAGTG
1 CTACAATACAGTG
36922111 TGGCACTTTG
Statistics
Matches: 181, Mismatches: 31, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
21 3 0.02
22 19 0.10
23 152 0.84
24 7 0.04
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (23 bp):
CTACAATACAGTGGTAGCTTCGG
Found at i:36927617 original size:49 final size:49
Alignment explanation
Indices: 36927539--36927636 Score: 144
Period size: 49 Copynumber: 2.0 Consensus size: 49
36927529 TGGAACAGCA
36927539 AGTAGTGGGATCATAGCTAAGAGCCGAGGAAGTGAGGCGAAAGAAGCCT
1 AGTAGTGGGATCATAGCTAAGAGCCGAGGAAGTGAGGCGAAAGAAGCCT
* * * *
36927588 AGTAGTGGGATTATAGCTGAG-GTCTGAGGAAGTGAGGTGAAAGAAGCCT
1 AGTAGTGGGATCATAGCTAAGAG-CCGAGGAAGTGAGGCGAAAGAAGCCT
36927637 TCTTTCAAAG
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
48 1 0.02
49 43 0.98
ACGTcount: A:0.33, C:0.11, G:0.38, T:0.18
Consensus pattern (49 bp):
AGTAGTGGGATCATAGCTAAGAGCCGAGGAAGTGAGGCGAAAGAAGCCT
Found at i:36936824 original size:27 final size:27
Alignment explanation
Indices: 36936794--36936850 Score: 96
Period size: 27 Copynumber: 2.1 Consensus size: 27
36936784 ATCTGCATGT
36936794 GAAAGTCTGTGAGAATATTTGTTCCAG
1 GAAAGTCTGTGAGAATATTTGTTCCAG
* *
36936821 GAAAGTCTGTGAGACTATTTGTTCTAG
1 GAAAGTCTGTGAGAATATTTGTTCCAG
36936848 GAA
1 GAA
36936851 TCCACGTGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.30, C:0.11, G:0.26, T:0.33
Consensus pattern (27 bp):
GAAAGTCTGTGAGAATATTTGTTCCAG
Found at i:36937002 original size:28 final size:28
Alignment explanation
Indices: 36936875--36937038 Score: 114
Period size: 28 Copynumber: 5.9 Consensus size: 28
36936865 TTTGCAGGCA
* * * *
36936875 TGAATCTGCATATATGAATCCGCATATA
1 TGAATCTGTATCTATGAATCCACATATG
* * * * * *
36936903 AGATTCTATATCTATGAATCAACCTGTG
1 TGAATCTGTATCTATGAATCCACATATG
* * * *
36936931 TGAATTTGTATCTATAAATCTACAAATG
1 TGAATCTGTATCTATGAATCCACATATG
* *
36936959 TGAATCCGTA-CATATGAATCCACATATA
1 TGAATCTGTATC-TATGAATCCACATATG
* * * *
36936987 AGAATCTGTATTTATGAACCCACCTATG
1 TGAATCTGTATCTATGAATCCACATATG
* *
36937015 TGATTCTGCATCTATGAATCCACA
1 TGAATCTGTATCTATGAATCCACA
36937039 GGGACTATTC
Statistics
Matches: 97, Mismatches: 37, Indels: 4
0.70 0.27 0.03
Matches are distributed among these distances:
27 1 0.01
28 96 0.99
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.34
Consensus pattern (28 bp):
TGAATCTGTATCTATGAATCCACATATG
Found at i:36947879 original size:129 final size:129
Alignment explanation
Indices: 36947649--36947908 Score: 502
Period size: 129 Copynumber: 2.0 Consensus size: 129
36947639 ATTCATCCAA
36947649 AATTGGCTCGTTCATGTGACTCATTGCCAATTGGTAACAACCCATCACTTGTAATTAAAACCATG
1 AATTGGCTCGTTCATGTGACTCATTGCCAATTGGTAACAACCCATCACTTGTAATTAAAACCATG
36947714 CATAATTTTATAGGTCATAGCCTACTTCAATTAAGCCAATTTTCATGGCCATATACAAAGAGAT
66 CATAATTTTATAGGTCATAGCCTACTTCAATTAAGCCAATTTTCATGGCCATATACAAAGAGAT
36947778 AATTGGCTCGTTCATGTGACTCATTGCCAATTGGTAACAACCCATCACTTGTAATTAAAACCATG
1 AATTGGCTCGTTCATGTGACTCATTGCCAATTGGTAACAACCCATCACTTGTAATTAAAACCATG
* *
36947843 CATAATTTTGTAGGTCATAGCCTACTTCAATTAAGCCAATTTTCATGGCCATTTACAAAGAGAT
66 CATAATTTTATAGGTCATAGCCTACTTCAATTAAGCCAATTTTCATGGCCATATACAAAGAGAT
36947907 AA
1 AA
36947909 ACACATCTTT
Statistics
Matches: 129, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
129 129 1.00
ACGTcount: A:0.33, C:0.21, G:0.14, T:0.32
Consensus pattern (129 bp):
AATTGGCTCGTTCATGTGACTCATTGCCAATTGGTAACAACCCATCACTTGTAATTAAAACCATG
CATAATTTTATAGGTCATAGCCTACTTCAATTAAGCCAATTTTCATGGCCATATACAAAGAGAT
Found at i:36959050 original size:30 final size:29
Alignment explanation
Indices: 36959003--36959062 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 29
36958993 TCCTTAACTC
36959003 AAACTTTGCAAAATTACAATTTTGCCCCT
1 AAACTTTGCAAAATTACAATTTTGCCCCT
* * *
36959032 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAAC-TTTGCAAAATTACAATTTTGCCCCT
36959062 A
1 A
36959063 GGCTCGGAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 4 0.15
30 23 0.85
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.38
Consensus pattern (29 bp):
AAACTTTGCAAAATTACAATTTTGCCCCT
Found at i:36968517 original size:50 final size:50
Alignment explanation
Indices: 36968460--36968725 Score: 329
Period size: 50 Copynumber: 5.3 Consensus size: 50
36968450 ATCACTCATT
36968460 TGGCCGAATATACAAGATCAAATTTAATATCACATATGTGCTTACCTATA
1 TGGCCGAATATACAAGATCAAATTTAATATCACATATGTGCTTACCTATA
*
36968510 TGGCCGAATATGCAAGATCAAATTTAATATCACATATGTGCTTACCTATA
1 TGGCCGAATATACAAGATCAAATTTAATATCACATATGTGCTTACCTATA
* * * *
36968560 TGGCCGAATATGCAAGATCAAATTTAACATCACATATGTACTTACTTATA
1 TGGCCGAATATACAAGATCAAATTTAATATCACATATGTGCTTACCTATA
* * **
36968610 TGGCCGAATATACAA-ATTCAAATATAATATCACATTTGTGAATACCT-TCA
1 TGGCCGAATATACAAGA-TCAAATTTAATATCACATATGTGCTTACCTAT-A
* * * ** * * * * *
36968660 TGGCCAAATATTCAAGATCCAATACAACATCACATATGTTCATACATATG
1 TGGCCGAATATACAAGATCAAATTTAATATCACATATGTGCTTACCTATA
36968710 TGGCCGAATATACAAG
1 TGGCCGAATATACAAG
36968726 GTCATTTAGC
Statistics
Matches: 188, Mismatches: 24, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
49 2 0.01
50 184 0.98
51 2 0.01
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.30
Consensus pattern (50 bp):
TGGCCGAATATACAAGATCAAATTTAATATCACATATGTGCTTACCTATA
Found at i:36972198 original size:27 final size:27
Alignment explanation
Indices: 36972168--36972364 Score: 243
Period size: 27 Copynumber: 7.3 Consensus size: 27
36972158 ACAAAATGGC
* * * *
36972168 AATTTTACCCCACAAGGGTATCTCGGT
1 AATTCTACCCTACAGGGGTATTTCGGT
*
36972195 AATTCTACCGTACAGGGGTATTTCGGT
1 AATTCTACCCTACAGGGGTATTTCGGT
* * *
36972222 ATTTCTTA-CCTACAAGGGTATTTCGAT
1 AATTC-TACCCTACAGGGGTATTTCGGT
*
36972249 AATTCTATCCTACAGGGGTATTTCGGT
1 AATTCTACCCTACAGGGGTATTTCGGT
**
36972276 AATTCTACCCTACAGGGGTATTTCAAT
1 AATTCTACCCTACAGGGGTATTTCGGT
* *
36972303 AATTCTACCCTATAGGGGTATTTCAGT
1 AATTCTACCCTACAGGGGTATTTCGGT
* *
36972330 AATTCTACCTTACAGGGGTATTTTGGT
1 AATTCTACCCTACAGGGGTATTTCGGT
36972357 AATTCTAC
1 AATTCTAC
36972365 AACTTATCCA
Statistics
Matches: 147, Mismatches: 21, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
26 2 0.01
27 143 0.97
28 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (27 bp):
AATTCTACCCTACAGGGGTATTTCGGT
Found at i:36981495 original size:22 final size:22
Alignment explanation
Indices: 36981467--36981511 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
36981457 AGGTCAAATT
36981467 TGTGTAAAATTCACGAACTAAC
1 TGTGTAAAATTCACGAACTAAC
36981489 TGTGTAAAATTCACGAACTAAC
1 TGTGTAAAATTCACGAACTAAC
36981511 T
1 T
36981512 CCTCATCTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.40, C:0.18, G:0.13, T:0.29
Consensus pattern (22 bp):
TGTGTAAAATTCACGAACTAAC
Found at i:36985717 original size:24 final size:24
Alignment explanation
Indices: 36985681--36985728 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
36985671 AGTTTGAGAG
* * *
36985681 GAATTCGCTAGTGTTCGATTTAAT
1 GAATTCACAAGTGTTAGATTTAAT
36985705 GAATTCACAAGTGTTAGATTTAAT
1 GAATTCACAAGTGTTAGATTTAAT
36985729 CCATCCGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (24 bp):
GAATTCACAAGTGTTAGATTTAAT
Found at i:36987268 original size:43 final size:43
Alignment explanation
Indices: 36987169--36987285 Score: 139
Period size: 42 Copynumber: 2.7 Consensus size: 43
36987159 TCTAAGATGT
* * * *
36987169 TGGCATCGACT-TATGATTTACGTGTAAGACCATGTCTGGGGCAT
1 TGGCATCGA-TATTTGATTT-CATGTAAGACCATGTCTGGGACAG
* *
36987213 TGGCATCG-TATTTGATTTCATGTAAGACCCTGTTTGGGACAG
1 TGGCATCGATATTTGATTTCATGTAAGACCATGTCTGGGACAG
*
36987255 TGGCATCGATATTTGATTACATGTAAGACCA
1 TGGCATCGATATTTGATTTCATGTAAGACCA
36987286 CATTTGTTAC
Statistics
Matches: 63, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
42 28 0.44
43 27 0.43
44 8 0.13
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (43 bp):
TGGCATCGATATTTGATTTCATGTAAGACCATGTCTGGGACAG
Found at i:36990185 original size:33 final size:33
Alignment explanation
Indices: 36990148--36990218 Score: 81
Period size: 33 Copynumber: 2.2 Consensus size: 33
36990138 AACAGCGCAT
* * *
36990148 ACAGTAACGGTCTGGGCCTAA-CCCTATTCATTA
1 ACAGT-ACAGTCTGGGCCTAAGCCCTATGCAGTA
* *
36990181 ACAGTACAGTCTTGGCCTAAGTCCTATGCAGTA
1 ACAGTACAGTCTGGGCCTAAGCCCTATGCAGTA
36990214 ACAGT
1 ACAGT
36990219 GTGGGCCTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
32 13 0.41
33 19 0.59
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (33 bp):
ACAGTACAGTCTGGGCCTAAGCCCTATGCAGTA
Found at i:36990380 original size:23 final size:23
Alignment explanation
Indices: 36990353--36990416 Score: 83
Period size: 23 Copynumber: 2.8 Consensus size: 23
36990343 ACCAATATCG
*
36990353 CAGCATAGCTGCTAATAGTAACA
1 CAGCAAAGCTGCTAATAGTAACA
* * *
36990376 TAGCAAAGCCGCTAATAGTAACG
1 CAGCAAAGCTGCTAATAGTAACA
*
36990399 CAGCAAAGCTACTAATAG
1 CAGCAAAGCTGCTAATAG
36990417 CGGTAAACGT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.41, C:0.22, G:0.19, T:0.19
Consensus pattern (23 bp):
CAGCAAAGCTGCTAATAGTAACA
Found at i:36997142 original size:9 final size:9
Alignment explanation
Indices: 36997123--36997159 Score: 58
Period size: 9 Copynumber: 4.1 Consensus size: 9
36997113 TGAGTTTTTG
36997123 AATTCGAAT
1 AATTCGAAT
36997132 AACTT-GAAT
1 AA-TTCGAAT
36997141 AATTCGAAT
1 AATTCGAAT
36997150 AATTCGAAT
1 AATTCGAAT
36997159 A
1 A
36997160 TCAAACTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
8 2 0.08
9 22 0.85
10 2 0.08
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:36997267 original size:31 final size:31
Alignment explanation
Indices: 36997201--36997262 Score: 101
Period size: 29 Copynumber: 2.1 Consensus size: 31
36997191 AACTTCCAAA
*
36997201 CCTTCTTACTTTTTACCTCAAAACTTTTACT
1 CCTTCTTACTTTCTACCTCAAAACTTTTACT
36997232 CCTTCTTACTTTCT-CC-CAAAACTTTTACT
1 CCTTCTTACTTTCTACCTCAAAACTTTTACT
36997261 CC
1 CC
36997263 CCTTCCATCC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 15 0.50
30 2 0.07
31 13 0.43
ACGTcount: A:0.21, C:0.34, G:0.00, T:0.45
Consensus pattern (31 bp):
CCTTCTTACTTTCTACCTCAAAACTTTTACT
Found at i:36998542 original size:43 final size:44
Alignment explanation
Indices: 36998352--36998545 Score: 229
Period size: 44 Copynumber: 4.5 Consensus size: 44
36998342 TATGAGTTCT
*
36998352 CATGTAAGACCACGTCTGGGACTTTGGCATCGATTTATGATTTA
1 CATGTAAGACCACGTCTGGGACATTGGCATCGATTTATGATTTA
* *
36998396 CTTGTAAGACCACGTCTGGGACTTTGGCATCGATTTATGATTTA
1 CATGTAAGACCACGTCTGGGACATTGGCATCGATTTATGATTTA
* * *
36998440 CTTGTAAGACCATGTCTGGGACATTGACATCG-TATT-TGATTT-
1 CATGTAAGACCACGTCTGGGACATTGGCATCGAT-TTATGATTTA
* *
36998482 CATGTAAGACC-CTGTCTGGGACAGTGGCATTGATATT-TGA-TTA
1 CATGTAAGACCAC-GTCTGGGACATTGGCATCGAT-TTATGATTTA
* *
36998525 CATGTAGGACTACGTCTGGGA
1 CATGTAAGACCACGTCTGGGA
36998546 TGTTGGTATT
Statistics
Matches: 134, Mismatches: 11, Indels: 11
0.86 0.07 0.07
Matches are distributed among these distances:
42 28 0.21
43 31 0.23
44 75 0.56
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (44 bp):
CATGTAAGACCACGTCTGGGACATTGGCATCGATTTATGATTTA
Found at i:37001174 original size:27 final size:26
Alignment explanation
Indices: 37001126--37001185 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
37001116 GCGAGGCTAC
*
37001126 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
37001153 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
37001179 CAGATAT
1 CAGATAT
37001186 ATATATATGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:37001939 original size:27 final size:27
Alignment explanation
Indices: 37001909--37002069 Score: 207
Period size: 27 Copynumber: 6.0 Consensus size: 27
37001899 ATAGTCATTT
* ** *
37001909 TACCCTCCAGGGGTAAATCAGTAGTTC
1 TACCCTACAGGGGTATTTCAGTAATTC
* *
37001936 TACCTTACAAGGGTATTTC-GATAATTC
1 TACCCTACAGGGGTATTTCAG-TAATTC
*
37001963 TACCCTACAGGGTTATTTCAGTAATTC
1 TACCCTACAGGGGTATTTCAGTAATTC
*
37001990 TACCCTACAGGGGTATTTCGGTAATTC
1 TACCCTACAGGGGTATTTCAGTAATTC
*
37002017 TACCCTATAGGGGTATTTCAGTAATTC
1 TACCCTACAGGGGTATTTCAGTAATTC
* *
37002044 TACCCTACAGGGTTATTTGAGTAATT
1 TACCCTACAGGGGTATTTCAGTAATT
37002070 TTTTAAATCG
Statistics
Matches: 116, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
26 1 0.01
27 114 0.98
28 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (27 bp):
TACCCTACAGGGGTATTTCAGTAATTC
Found at i:37002094 original size:27 final size:27
Alignment explanation
Indices: 37002064--37002161 Score: 128
Period size: 27 Copynumber: 3.6 Consensus size: 27
37002054 GGTTATTTGA
* *
37002064 GTAATTTTTTAAATCGAAGGTAAAACT-
1 GTAATTCTGTAAATCGAAGGTAAAA-TG
*
37002091 GTAATTCTGTAAATCGATGGTAAAATG
1 GTAATTCTGTAAATCGAAGGTAAAATG
*
37002118 GTAATTCTATAAATC-AAGGGTAAAATG
1 GTAATTCTGTAAATCGAA-GGTAAAATG
37002145 GTAATTCTGTAAATCGA
1 GTAATTCTGTAAATCGA
37002162 CTGTAAATCG
Statistics
Matches: 62, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
26 2 0.03
27 59 0.95
28 1 0.02
ACGTcount: A:0.40, C:0.08, G:0.18, T:0.34
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAAGGTAAAATG
Found at i:37002141 original size:38 final size:38
Alignment explanation
Indices: 37002127--37002206 Score: 124
Period size: 38 Copynumber: 2.1 Consensus size: 38
37002117 GGTAATTCTA
* *
37002127 TAAATCAAGGGTAAAATGGTAATTCTGTAAATCGACTG
1 TAAATCAAGGGTAAAATGGTAATTCTATAAATCGACGG
* *
37002165 TAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGG
1 TAAATCAAGGGTAAAATGGTAATTCTATAAATCGACGG
37002203 TAAA
1 TAAA
37002207 ATGGTAATTC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.41, C:0.09, G:0.23, T:0.28
Consensus pattern (38 bp):
TAAATCAAGGGTAAAATGGTAATTCTATAAATCGACGG
Found at i:37002183 original size:65 final size:65
Alignment explanation
Indices: 37002097--37002223 Score: 236
Period size: 65 Copynumber: 2.0 Consensus size: 65
37002087 AACTGTAATT
*
37002097 CTGTAAATCGATGGTAAAATGGTAATTCTATAAATCAAGGGTAAAATGGTAATTCTGTAAATCGA
1 CTGTAAATCGAGGGTAAAATGGTAATTCTATAAATCAAGGGTAAAATGGTAATTCTGTAAATCGA
*
37002162 CTGTAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTGTAAAT
1 CTGTAAATCGAGGGTAAAATGGTAATTCTATAAATCAAGGGTAAAATGGTAATTCTGTAAAT
37002224 TGAGGGTACT
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
65 60 1.00
ACGTcount: A:0.39, C:0.09, G:0.21, T:0.31
Consensus pattern (65 bp):
CTGTAAATCGAGGGTAAAATGGTAATTCTATAAATCAAGGGTAAAATGGTAATTCTGTAAATCGA
Found at i:37002242 original size:27 final size:27
Alignment explanation
Indices: 37002165--37002231 Score: 116
Period size: 27 Copynumber: 2.5 Consensus size: 27
37002155 AAATCGACTG
37002165 TAAATCGAGGGTAAAATGGTAATTCTA
1 TAAATCGAGGGTAAAATGGTAATTCTA
*
37002192 TAAATCGAGGGTAAAATGGTAATTCTG
1 TAAATCGAGGGTAAAATGGTAATTCTA
*
37002219 TAAATTGAGGGTA
1 TAAATCGAGGGTA
37002232 CTTTGGTAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.39, C:0.06, G:0.25, T:0.30
Consensus pattern (27 bp):
TAAATCGAGGGTAAAATGGTAATTCTA
Found at i:37005038 original size:43 final size:43
Alignment explanation
Indices: 37004871--37005041 Score: 152
Period size: 43 Copynumber: 4.0 Consensus size: 43
37004861 ACATATCGTA
* * *
37004871 CAATGCCAACGTCCCAAACATGGTCTTATATGTAATCATATCT
1 CAATGCCAACGTCCCAAACATGGTCTTACATGTAATCACATAT
* * * * *
37004914 CGATGCC-ACTGTCCCAGACAGGGTCTTACACG-AATCAAATA-
1 CAATGCCAAC-GTCCCAAACATGGTCTTACATGTAATCACATAT
* * * * * *
37004955 CGATGGCGATGTCTCAAACACGGTCTTACATGTAATCACATAT
1 CAATGCCAACGTCCCAAACATGGTCTTACATGTAATCACATAT
* *
37004998 CAATGCCAACGTCCCAGACCTGGTCTTACATG-AATACACATAT
1 CAATGCCAACGTCCCAAACATGGTCTTACATGTAAT-CACATAT
37005041 C
1 C
37005042 GAAAATCCTA
Statistics
Matches: 101, Mismatches: 22, Indels: 10
0.76 0.17 0.08
Matches are distributed among these distances:
41 24 0.24
42 21 0.21
43 56 0.55
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (43 bp):
CAATGCCAACGTCCCAAACATGGTCTTACATGTAATCACATAT
Found at i:37009604 original size:24 final size:24
Alignment explanation
Indices: 37009577--37009674 Score: 133
Period size: 24 Copynumber: 4.0 Consensus size: 24
37009567 AAGGCTGTCA
37009577 GGAGAAGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
* * *
37009601 GGAGAGGATTTAGGGGTTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
* *
37009625 GGAGAGGATTTAGGAGCTGATAAA
1 GGAGAAGATTTAGGAGCTGATAAG
*
37009649 GGAGAAGATTTAGGAGTTGATCAAG
1 GGAGAAGATTTAGGAGCTGAT-AAG
37009674 G
1 G
37009675 AGCAAGAGTT
Statistics
Matches: 64, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
24 61 0.95
25 3 0.05
ACGTcount: A:0.35, C:0.03, G:0.40, T:0.22
Consensus pattern (24 bp):
GGAGAAGATTTAGGAGCTGATAAG
Found at i:37009653 original size:48 final size:49
Alignment explanation
Indices: 37009577--37009674 Score: 153
Period size: 48 Copynumber: 2.0 Consensus size: 49
37009567 AAGGCTGTCA
* * *
37009577 GGAGAAGATTTAGGAGCTGATAAGGGAGAGGATTTAGGGGTTGAT-AAG
1 GGAGAAGATTTAGGAGCTGATAAAGGAGAAGATTTAGGAGTTGATCAAG
*
37009625 GGAGAGGATTTAGGAGCTGATAAAGGAGAAGATTTAGGAGTTGATCAAG
1 GGAGAAGATTTAGGAGCTGATAAAGGAGAAGATTTAGGAGTTGATCAAG
37009674 G
1 G
37009675 AGCAAGAGTT
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
48 41 0.91
49 4 0.09
ACGTcount: A:0.35, C:0.03, G:0.40, T:0.22
Consensus pattern (49 bp):
GGAGAAGATTTAGGAGCTGATAAAGGAGAAGATTTAGGAGTTGATCAAG
Found at i:37011109 original size:27 final size:26
Alignment explanation
Indices: 37011069--37011179 Score: 141
Period size: 27 Copynumber: 4.2 Consensus size: 26
37011059 AGGAAGCATC
* *
37011069 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
*
37011096 CTGGTGGCTCTGCCACATACATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
37011123 CTGGTGGCTCTGCCACAATTATCTGTT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
* **
37011150 CTGGTGACTCTATCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
37011176 CTGG
1 CTGG
37011180 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
26 16 0.21
27 57 0.76
28 2 0.03
ACGTcount: A:0.17, C:0.25, G:0.22, T:0.36
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:37011153 original size:54 final size:53
Alignment explanation
Indices: 37011069--37011179 Score: 159
Period size: 54 Copynumber: 2.1 Consensus size: 53
37011059 AGGAAGCATC
* *
37011069 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATACATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTACCACAT-CATCTGTT
* * * *
37011123 CTGGTGGCTCTGCCACAATTATCTGTTCTGGTGACTCTATCACATTATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTACCACATCATCTGTT
37011176 CTGG
1 CTGG
37011180 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
53 11 0.22
54 40 0.78
ACGTcount: A:0.17, C:0.25, G:0.22, T:0.36
Consensus pattern (53 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTACCACATCATCTGTT
Found at i:37011275 original size:21 final size:18
Alignment explanation
Indices: 37011242--37011280 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 18
37011232 CTCCCCACAT
37011242 GGTGAAAGGTTGGTATGGG
1 GGTGAAAGGTTGG-ATGGG
37011261 GGTGAATATGGTTGGATGGG
1 GGTGAA-A-GGTTGGATGGG
37011281 TTTCGGTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 6 0.33
21 6 0.33
ACGTcount: A:0.21, C:0.00, G:0.51, T:0.28
Consensus pattern (18 bp):
GGTGAAAGGTTGGATGGG
Found at i:37016023 original size:32 final size:32
Alignment explanation
Indices: 37015980--37016043 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
37015970 GGAGAGGGTA
* * *
37015980 ACCATGGACTTTGTGAGTGGGTTGCCTTTGAC
1 ACCATGAACTTTGTGAGTGGATTGACTTTGAC
37016012 ACCATGAACTTTGTGAGTGGATTGACTTTGAC
1 ACCATGAACTTTGTGAGTGGATTGACTTTGAC
37016044 TTTGTGAGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.20, C:0.17, G:0.28, T:0.34
Consensus pattern (32 bp):
ACCATGAACTTTGTGAGTGGATTGACTTTGAC
Found at i:37017490 original size:24 final size:24
Alignment explanation
Indices: 37017463--37017560 Score: 124
Period size: 24 Copynumber: 4.0 Consensus size: 24
37017453 AAGGCTGTCA
*
37017463 GGAGAAGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGTTGATAAG
* *
37017487 GGAGAGGATTTAGGGGTTGATAAG
1 GGAGAAGATTTAGGAGTTGATAAG
* * *
37017511 GGAGAGGATTTAAGAGTTGATAAA
1 GGAGAAGATTTAGGAGTTGATAAG
*
37017535 GGAGAAGATTTAGGGGTTGATCAAG
1 GGAGAAGATTTAGGAGTTGAT-AAG
37017560 G
1 G
37017561 AGCAAGAGTT
Statistics
Matches: 63, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
24 60 0.95
25 3 0.05
ACGTcount: A:0.35, C:0.02, G:0.40, T:0.23
Consensus pattern (24 bp):
GGAGAAGATTTAGGAGTTGATAAG
Found at i:37017539 original size:48 final size:49
Alignment explanation
Indices: 37017463--37017560 Score: 144
Period size: 48 Copynumber: 2.0 Consensus size: 49
37017453 AAGGCTGTCA
* * *
37017463 GGAGAAGATTTAGGAGCTGATAAGGGAGAGGATTTAGGGGTTGAT-AAG
1 GGAGAAGATTTAAGAGCTGATAAAGGAGAAGATTTAGGGGTTGATCAAG
* *
37017511 GGAGAGGATTTAAGAGTTGATAAAGGAGAAGATTTAGGGGTTGATCAAG
1 GGAGAAGATTTAAGAGCTGATAAAGGAGAAGATTTAGGGGTTGATCAAG
37017560 G
1 G
37017561 AGCAAGAGTT
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
48 40 0.91
49 4 0.09
ACGTcount: A:0.35, C:0.02, G:0.40, T:0.23
Consensus pattern (49 bp):
GGAGAAGATTTAAGAGCTGATAAAGGAGAAGATTTAGGGGTTGATCAAG
Found at i:37018994 original size:27 final size:27
Alignment explanation
Indices: 37018952--37019062 Score: 136
Period size: 27 Copynumber: 4.1 Consensus size: 27
37018942 AGGAAGCGTC
* *
37018952 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGTT
* *
37018979 CTGGTGGCTCTACCAC-ATACATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGTT
37019006 CTGGTGGCTCTGCCACAATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGTT
* * *
37019033 CTGGTGACTCTGTCAC-ATTATCTATT
1 CTGGTGGCTCTGCCACAATTATCTGTT
37019059 CTGG
1 CTGG
37019063 CAGCCATGCT
Statistics
Matches: 73, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
26 15 0.21
27 56 0.77
28 2 0.03
ACGTcount: A:0.18, C:0.25, G:0.21, T:0.36
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGTT
Found at i:37025286 original size:24 final size:24
Alignment explanation
Indices: 37025259--37025348 Score: 135
Period size: 24 Copynumber: 3.8 Consensus size: 24
37025249 AAGGCTGTCA
37025259 GGAGAAGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
* *
37025283 GGAGAGGATTTAGGGGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
* *
37025307 GGAGAGGATTTAGGAGCTGATAAA
1 GGAGAAGATTTAGGAGCTGATAAG
*
37025331 GGATAAGATTTAGGAGCT
1 GGAGAAGATTTAGGAGCT
37025349 AATCAAGGAG
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 60 1.00
ACGTcount: A:0.34, C:0.04, G:0.39, T:0.22
Consensus pattern (24 bp):
GGAGAAGATTTAGGAGCTGATAAG
Found at i:37025356 original size:24 final size:23
Alignment explanation
Indices: 37025258--37025363 Score: 122
Period size: 24 Copynumber: 4.4 Consensus size: 23
37025248 AAAGGCTGTC
37025258 AGGAGAAGATTTAGGAGCTGATA
1 AGGAGAAGATTTAGGAGCTGATA
* *
37025281 AGGGAGAGGATTTAGGGGCTGATA
1 A-GGAGAAGATTTAGGAGCTGATA
*
37025305 AGGGAGAGGATTTAGGAGCTGATAA
1 A-GGAGAAGATTTAGGAGCTGAT-A
* *
37025330 AGGATAAGATTTAGGAGCTAATCA
1 AGGAGAAGATTTAGGAGCTGAT-A
37025354 AGGAGCAAGA
1 AGGAG-AAGA
37025364 GTTGGCCGGC
Statistics
Matches: 72, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
23 1 0.01
24 65 0.90
25 6 0.08
ACGTcount: A:0.38, C:0.06, G:0.37, T:0.20
Consensus pattern (23 bp):
AGGAGAAGATTTAGGAGCTGATA
Found at i:37026792 original size:27 final size:26
Alignment explanation
Indices: 37026752--37026862 Score: 132
Period size: 27 Copynumber: 4.2 Consensus size: 26
37026742 AGGAAGCGTC
* *
37026752 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
*
37026779 CTGGTGGCTCTGCCACATACATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
*
37026806 CTGGTGGCTCTGCCACAATTATTTGTT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
* * *
37026833 CTGGTGACTCTGTCACGTTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
37026859 CTGG
1 CTGG
37026863 CAGCCATGCT
Statistics
Matches: 73, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
26 14 0.19
27 57 0.78
28 2 0.03
ACGTcount: A:0.15, C:0.24, G:0.23, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:37026836 original size:54 final size:53
Alignment explanation
Indices: 37026752--37026862 Score: 150
Period size: 54 Copynumber: 2.1 Consensus size: 53
37026742 AGGAAGCGTC
*
37026752 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATACATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACAT-CATCTGTT
* * * * * *
37026806 CTGGTGGCTCTGCCACAATTATTTGTTCTGGTGACTCTGTCACGTTATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATCATCTGTT
37026859 CTGG
1 CTGG
37026863 CAGCCATGCT
Statistics
Matches: 50, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
53 11 0.22
54 39 0.78
ACGTcount: A:0.15, C:0.24, G:0.23, T:0.37
Consensus pattern (53 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATCATCTGTT
Found at i:37027913 original size:17 final size:17
Alignment explanation
Indices: 37027891--37027926 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
37027881 CCACCAATTG
37027891 TAAGTACATTTCCCAAC
1 TAAGTACATTTCCCAAC
37027908 TAAGTACATTTCCCAAC
1 TAAGTACATTTCCCAAC
37027925 TA
1 TA
37027927 CCTTAGAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.36, C:0.28, G:0.06, T:0.31
Consensus pattern (17 bp):
TAAGTACATTTCCCAAC
Found at i:37029648 original size:39 final size:41
Alignment explanation
Indices: 37029586--37029698 Score: 115
Period size: 41 Copynumber: 2.8 Consensus size: 41
37029576 AGATTTAGTT
* * *
37029586 GCATTAGCAGCGTTTTTTTAAAAAGCGCCGCTAATA-A-TG-
1 GCATTAGCGGCGCTTTTTCAAAAA-CGCCGCTAATAGATTGA
* * *
37029625 GCATTAGCGGCGCTTTGTCAAAAACGCTGCAAATAGATTGA
1 GCATTAGCGGCGCTTTTTCAAAAACGCCGCTAATAGATTGA
* * *
37029666 GTATTAGCGGCGCTTTTTGAAAAATGCCGCTAA
1 GCATTAGCGGCGCTTTTTCAAAAACGCCGCTAA
37029699 AGCTCAATAA
Statistics
Matches: 59, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
38 9 0.15
39 21 0.36
40 2 0.03
41 27 0.46
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (41 bp):
GCATTAGCGGCGCTTTTTCAAAAACGCCGCTAATAGATTGA
Found at i:37029754 original size:13 final size:14
Alignment explanation
Indices: 37029736--37029768 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
37029726 GATTAATATG
*
37029736 GGTTTAGGGTTG-T
1 GGTTTAGGATTGAT
37029749 GGTTTAGGATTGAT
1 GGTTTAGGATTGAT
37029763 GGTTTA
1 GGTTTA
37029769 TGTTTTATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.15, C:0.00, G:0.39, T:0.45
Consensus pattern (14 bp):
GGTTTAGGATTGAT
Found at i:37030280 original size:14 final size:14
Alignment explanation
Indices: 37030261--37030296 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
37030251 TAAACACTAG
37030261 ACCCTAACCCATAA
1 ACCCTAACCCATAA
* *
37030275 ATCCTAACCCATTA
1 ACCCTAACCCATAA
37030289 ACCCTAAC
1 ACCCTAAC
37030297 TCCTAACCTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.39, C:0.42, G:0.00, T:0.19
Consensus pattern (14 bp):
ACCCTAACCCATAA
Found at i:37030312 original size:21 final size:21
Alignment explanation
Indices: 37030265--37030317 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
37030255 CACTAGACCC
37030265 TAACCCATAAATCCTAACCCAT
1 TAACCC-TAAATCCTAACCCAT
* *
37030287 TAACCCTAACTCCTAA-CCTT
1 TAACCCTAAATCCTAACCCAT
37030307 TAAACCCTAAA
1 T-AACCCTAAA
37030318 CCCATAAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 4 0.15
21 17 0.63
22 6 0.22
ACGTcount: A:0.40, C:0.36, G:0.00, T:0.25
Consensus pattern (21 bp):
TAACCCTAAATCCTAACCCAT
Found at i:37030325 original size:8 final size:7
Alignment explanation
Indices: 37030195--37030325 Score: 56
Period size: 8 Copynumber: 17.7 Consensus size: 7
37030185 ATGATTTTAT
37030195 CTAAACC
1 CTAAACC
37030202 CT-AACGC
1 CTAAAC-C
37030209 ACTAAACC
1 -CTAAACC
37030217 CTTAAACC
1 C-TAAACC
37030225 ACTAAACC
1 -CTAAACC
*
37030233 TTTAAACC
1 -CTAAACC
*
37030241 CTTAAAACT
1 C-T-AAACC
*
37030250 CTAAACA
1 CTAAACC
*
37030257 CTAGACC
1 CTAAACC
37030264 CT-AACC
1 CTAAACC
*
37030270 CATAAATC
1 C-TAAACC
37030278 CT-AACC
1 CTAAACC
*
37030284 CATTAACC
1 C-TAAACC
37030292 CT-AACTC
1 CTAAAC-C
37030299 CT-AACC
1 CTAAACC
*
37030305 TTTAAACC
1 -CTAAACC
37030313 CTAAACC
1 CTAAACC
37030320 CATAAA
1 C-TAAA
37030326 TTATAGGCCC
Statistics
Matches: 97, Mismatches: 12, Indels: 29
0.70 0.09 0.21
Matches are distributed among these distances:
6 15 0.15
7 33 0.34
8 40 0.41
9 9 0.09
ACGTcount: A:0.41, C:0.36, G:0.02, T:0.21
Consensus pattern (7 bp):
CTAAACC
Found at i:37030353 original size:14 final size:14
Alignment explanation
Indices: 37030333--37030374 Score: 50
Period size: 13 Copynumber: 3.0 Consensus size: 14
37030323 AAATTATAGG
37030333 CCCTAAATCTTAAA
1 CCCTAAATCTTAAA
* *
37030347 CCTTAAAT-ATAAA
1 CCCTAAATCTTAAA
37030360 CCCTAAACTCTTAAA
1 CCCTAAA-TCTTAAA
37030375 TCAAAAACCC
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
13 10 0.45
14 8 0.36
15 4 0.18
ACGTcount: A:0.45, C:0.26, G:0.00, T:0.29
Consensus pattern (14 bp):
CCCTAAATCTTAAA
Found at i:37030374 original size:21 final size:21
Alignment explanation
Indices: 37030343--37030388 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 21
37030333 CCCTAAATCT
*
37030343 TAAACCTTAAAT-ATAAACCC
1 TAAACCTTAAATCAAAAACCC
37030363 TAAACTCTTAAATCAAAAACCC
1 TAAAC-CTTAAATCAAAAACCC
37030385 TAAA
1 TAAA
37030389 ATATTAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 5 0.22
21 7 0.30
22 11 0.48
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (21 bp):
TAAACCTTAAATCAAAAACCC
Found at i:37030395 original size:22 final size:21
Alignment explanation
Indices: 37030349--37030400 Score: 61
Period size: 22 Copynumber: 2.5 Consensus size: 21
37030339 ATCTTAAACC
* * *
37030349 TTAAATATAAACCCTAAACTC
1 TTAAATAAAAACCCTAAAATA
37030370 TTAAATCAAAAACCCTAAAATA
1 TTAAAT-AAAAACCCTAAAATA
37030392 TTAAA-AAAA
1 TTAAATAAAA
37030401 TTAATATAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 4 0.15
21 6 0.22
22 17 0.63
ACGTcount: A:0.58, C:0.17, G:0.00, T:0.25
Consensus pattern (21 bp):
TTAAATAAAAACCCTAAAATA
Found at i:37030928 original size:7 final size:7
Alignment explanation
Indices: 37030888--37030960 Score: 71
Period size: 7 Copynumber: 10.1 Consensus size: 7
37030878 TTAGGGCATT
37030888 GGGTTTA
1 GGGTTTA
37030895 GGGATTTA
1 GGG-TTTA
37030903 GGGTATT-
1 GGGT-TTA
37030910 GGGTATTA
1 GGGT-TTA
37030918 -GGTTTA
1 GGGTTTA
37030924 GGGTTTA
1 GGGTTTA
*
37030931 -GCTTATA
1 GGGTT-TA
37030938 GGGTTTA
1 GGGTTTA
37030945 GGGTATTA
1 GGGT-TTA
37030953 GGGTTTA
1 GGGTTTA
37030960 G
1 G
37030961 TCTATTGGTT
Statistics
Matches: 57, Mismatches: 2, Indels: 14
0.78 0.03 0.19
Matches are distributed among these distances:
6 6 0.11
7 32 0.56
8 19 0.33
ACGTcount: A:0.19, C:0.01, G:0.38, T:0.41
Consensus pattern (7 bp):
GGGTTTA
Found at i:37034494 original size:3 final size:3
Alignment explanation
Indices: 37034488--37034524 Score: 56
Period size: 3 Copynumber: 12.0 Consensus size: 3
37034478 ATTATTATTA
*
37034488 TTG TTG TTG TTG TTG TTG TTG TTT TTG TTG TTTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG -TTG TTG
37034525 ACTCGAGTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.00, C:0.00, G:0.30, T:0.70
Consensus pattern (3 bp):
TTG
Found at i:37034974 original size:9 final size:9
Alignment explanation
Indices: 37034962--37035068 Score: 60
Period size: 9 Copynumber: 12.1 Consensus size: 9
37034952 TATATCATAT
37034962 CATAACTTA
1 CATAACTTA
37034971 CATAACTTA
1 CATAACTTA
*
37034980 CAT-A-GTA
1 CATAACTTA
*
37034987 CATAA-ATA
1 CATAACTTA
* ** *
37034995 TATGTCATA
1 CATAACTTA
37035004 TCATAACTTA
1 -CATAACTTA
*
37035014 CATACCTTA
1 CATAACTTA
*
37035023 CATAAATGTA
1 CATAACT-TA
* * *
37035033 TATCA-TAA
1 CATAACTTA
37035041 CATAACTTA
1 CATAACTTA
37035050 CATAACTTA
1 CATAACTTA
*
37035059 CAAAACTTA
1 CATAACTTA
37035068 C
1 C
37035069 GTAATACATA
Statistics
Matches: 74, Mismatches: 19, Indels: 10
0.72 0.18 0.10
Matches are distributed among these distances:
7 5 0.07
8 10 0.14
9 49 0.66
10 10 0.14
ACGTcount: A:0.45, C:0.20, G:0.03, T:0.33
Consensus pattern (9 bp):
CATAACTTA
Found at i:37034989 original size:43 final size:42
Alignment explanation
Indices: 37034936--37035060 Score: 163
Period size: 43 Copynumber: 3.1 Consensus size: 42
37034926 TACTTAACCC
37034936 ACATAATACATAAATATATATCATATCATAACTTACATAACTT
1 ACAT-ATACATAAATATATATCATATCATAACTTACATAACTT
*
37034979 ACATAGTACATAAATATATGTCATATCATAACTTACAT-AC--
1 ACATA-TACATAAATATATATCATATCATAACTTACATAACTT
* *
37035019 -C-T-TACATAAATGTATATCATAACATAACTTACATAACTT
1 ACATATACATAAATATATATCATATCATAACTTACATAACTT
37035058 ACA
1 ACA
37035061 AAACTTACGT
Statistics
Matches: 72, Mismatches: 4, Indels: 14
0.80 0.04 0.16
Matches are distributed among these distances:
36 29 0.40
37 2 0.03
38 1 0.01
39 1 0.01
40 1 0.01
42 3 0.04
43 35 0.49
ACGTcount: A:0.46, C:0.18, G:0.02, T:0.34
Consensus pattern (42 bp):
ACATATACATAAATATATATCATATCATAACTTACATAACTT
Found at i:37035039 original size:36 final size:35
Alignment explanation
Indices: 37034970--37035060 Score: 121
Period size: 36 Copynumber: 2.6 Consensus size: 35
37034960 ATCATAACTT
* *
37034970 ACATAACTTACATA-GTACATAAATATATGTCATA
1 ACATAACTTACATACTTACATAAATATATATCATA
* *
37035004 TCATAACTTACATACCTTACATAAATGTATATCATA
1 ACATAACTTACATA-CTTACATAAATATATATCATA
37035040 ACATAACTTACATAACTTACA
1 ACATAACTTACAT-ACTTACA
37035061 AAACTTACGT
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
34 13 0.27
36 35 0.71
37 1 0.02
ACGTcount: A:0.45, C:0.19, G:0.03, T:0.33
Consensus pattern (35 bp):
ACATAACTTACATACTTACATAAATATATATCATA
Found at i:37040192 original size:13 final size:14
Alignment explanation
Indices: 37040176--37040204 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
37040166 TTATAAATAT
37040176 TTATAAT-GTTTAA
1 TTATAATAGTTTAA
37040189 TTATAATAGTTTAA
1 TTATAATAGTTTAA
37040203 TT
1 TT
37040205 CGTCATTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (14 bp):
TTATAATAGTTTAA
Found at i:37040643 original size:21 final size:21
Alignment explanation
Indices: 37040611--37040665 Score: 76
Period size: 21 Copynumber: 2.6 Consensus size: 21
37040601 ACAACTTAGA
*
37040611 GCAGAGGCAGCAG-AGAGGGAG
1 GCAGAGGTAGCAGCA-AGGGAG
*
37040632 GCAGCGGTAGCAGCAAGGGAG
1 GCAGAGGTAGCAGCAAGGGAG
37040653 GCAGAGGTAGCAG
1 GCAGAGGTAGCAG
37040666 TGATGGTAGC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
21 29 0.97
22 1 0.03
ACGTcount: A:0.31, C:0.16, G:0.49, T:0.04
Consensus pattern (21 bp):
GCAGAGGTAGCAGCAAGGGAG
Found at i:37041112 original size:43 final size:43
Alignment explanation
Indices: 37041062--37041153 Score: 130
Period size: 43 Copynumber: 2.1 Consensus size: 43
37041052 CGGCTAAAAG
* * *
37041062 TGACTTTTAGCGGCGCTTTTCCAACAAACACCGCTAAAAGCTA
1 TGACTTTTAGCGACACTTTTCCAACAAACACCGCTAAAAGCCA
** *
37041105 TGACTTTTAGCGACACTTTTTTAACAAACGCCGCTAAAAGCCA
1 TGACTTTTAGCGACACTTTTCCAACAAACACCGCTAAAAGCCA
37041148 TGACTT
1 TGACTT
37041154 ATAGTGGCTG
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.28
Consensus pattern (43 bp):
TGACTTTTAGCGACACTTTTCCAACAAACACCGCTAAAAGCCA
Found at i:37049280 original size:19 final size:19
Alignment explanation
Indices: 37049253--37049289 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
37049243 TTAGTAAAAA
*
37049253 ATGTTTATCACACATCAAG
1 ATGTGTATCACACATCAAG
37049272 ATGTGTATCACACATCAA
1 ATGTGTATCACACATCAA
37049290 ACATTCATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.38, C:0.22, G:0.11, T:0.30
Consensus pattern (19 bp):
ATGTGTATCACACATCAAG
Found at i:37059429 original size:13 final size:13
Alignment explanation
Indices: 37059404--37059438 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
37059394 TCAAGTTAAC
37059404 AAAGAAT-AAATA
1 AAAGAATAAAATA
37059416 AAAGAATAAAATA
1 AAAGAATAAAATA
*
37059429 AAAGGATAAA
1 AAAGAATAAA
37059439 GAAATTGCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 7 0.33
13 14 0.67
ACGTcount: A:0.74, C:0.00, G:0.11, T:0.14
Consensus pattern (13 bp):
AAAGAATAAAATA
Found at i:37065835 original size:24 final size:25
Alignment explanation
Indices: 37065791--37065840 Score: 59
Period size: 24 Copynumber: 2.0 Consensus size: 25
37065781 ACTCTTCTCA
* *
37065791 TCTCTTCAATTCTCTCTCATTTTTC
1 TCTCTTCAATTCCCTCTCATTGTTC
37065816 TCTCTTC-ATTCCCT-TCCATTGTTC
1 TCTCTTCAATTCCCTCT-CATTGTTC
37065840 T
1 T
37065841 TCACTTTCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
23 1 0.05
24 14 0.64
25 7 0.32
ACGTcount: A:0.10, C:0.34, G:0.02, T:0.54
Consensus pattern (25 bp):
TCTCTTCAATTCCCTCTCATTGTTC
Found at i:37066091 original size:19 final size:18
Alignment explanation
Indices: 37066065--37066100 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
37066055 TTTTATATTG
37066065 ATATGTTTAATTTAATTA
1 ATATGTTTAATTTAATTA
37066083 ATATGGTTTAATTTAATT
1 ATAT-GTTTAATTTAATT
37066101 CACGTTAGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (18 bp):
ATATGTTTAATTTAATTA
Found at i:37067372 original size:31 final size:31
Alignment explanation
Indices: 37067335--37067401 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 31
37067325 GGGCCATAGC
* * *
37067335 CCTTTTCATATTTTATAACACTGGGCTGAAG
1 CCTTTTCATATTTCATAACACTAGGCCGAAG
**
37067366 CCTTTTCATATTTCATATTACTAGGCCGAAG
1 CCTTTTCATATTTCATAACACTAGGCCGAAG
37067397 CCTTT
1 CCTTT
37067402 ACTGTAAATG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.24, C:0.22, G:0.13, T:0.40
Consensus pattern (31 bp):
CCTTTTCATATTTCATAACACTAGGCCGAAG
Found at i:37067646 original size:24 final size:24
Alignment explanation
Indices: 37067595--37067715 Score: 156
Period size: 25 Copynumber: 5.0 Consensus size: 24
37067585 ACTTTATCAT
*
37067595 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
37067620 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
37067644 ATAACTGTGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
37067667 ATAACTGGGGCATAAGCCCTTTATC
1 ATAACTGGGGCATAAGCCCTTT-TA
*
37067692 ATAACCGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
37067716 CACTTCCTCA
Statistics
Matches: 85, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
23 22 0.26
24 29 0.34
25 34 0.40
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:37067669 original size:47 final size:48
Alignment explanation
Indices: 37067616--37067713 Score: 153
Period size: 47 Copynumber: 2.1 Consensus size: 48
37067606 CCTAGCCTCT
* *
37067616 TTTAATAACTGGGGCAAAAGCCCTTT-TAATAACTGTGGCATAAGCCC
1 TTTAATAACTGGGGCAAAAGCCCTTTATAATAACCGGGGCATAAGCCC
* *
37067663 TTTAATAACTGGGGCATAAGCCCTTTATCATAACCGGGGCATAAGCCC
1 TTTAATAACTGGGGCAAAAGCCCTTTATAATAACCGGGGCATAAGCCC
37067711 TTT
1 TTT
37067714 TACACTTCCT
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
47 25 0.54
48 21 0.46
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (48 bp):
TTTAATAACTGGGGCAAAAGCCCTTTATAATAACCGGGGCATAAGCCC
Found at i:37067670 original size:23 final size:23
Alignment explanation
Indices: 37067616--37067713 Score: 142
Period size: 23 Copynumber: 4.1 Consensus size: 23
37067606 CCTAGCCTCT
*
37067616 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
37067639 TTTTAATAACTGTGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
37067663 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
37067686 TTTATCATAACCGGGGCATAAGCCC
1 TTTA--ATAACTGGGGCATAAGCCC
37067711 TTT
1 TTT
37067714 TACACTTCCT
Statistics
Matches: 68, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
23 26 0.38
24 21 0.31
25 21 0.31
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:37067789 original size:20 final size:20
Alignment explanation
Indices: 37067764--37067830 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
37067754 TTATGATTAC
37067764 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
37067784 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
37067804 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
37067824 ACCATGT
1 ATCATGT
37067831 TTATCAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:37067795 original size:11 final size:11
Alignment explanation
Indices: 37067764--37067819 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
37067754 TTATGATTAC
37067764 ATCATGTGCAT
1 ATCATGTGCAT
*
37067775 ATCA--TACAT
1 ATCATGTGCAT
37067784 ATCATGTGCAT
1 ATCATGTGCAT
*
37067795 ATCA--TACAT
1 ATCATGTGCAT
*
37067804 GTCATGTGCAT
1 ATCATGTGCAT
37067815 ATCAT
1 ATCAT
37067820 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:37067899 original size:25 final size:25
Alignment explanation
Indices: 37067867--37067914 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
37067857 ATACATAAAC
* * *
37067867 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
37067892 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
37067915 CATTTTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:37073896 original size:17 final size:18
Alignment explanation
Indices: 37073874--37073908 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
37073864 TCACATTGAA
37073874 GTGTTTT-ATTGAAAACC
1 GTGTTTTCATTGAAAACC
37073891 GTGTTTTCATTGAAAACC
1 GTGTTTTCATTGAAAACC
37073909 CTTCTTTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.29, C:0.14, G:0.17, T:0.40
Consensus pattern (18 bp):
GTGTTTTCATTGAAAACC
Found at i:37074817 original size:26 final size:27
Alignment explanation
Indices: 37074788--37074840 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
37074778 ATAAATCTTA
37074788 CATTC-AACACATAGGGGTATTTTAGT
1 CATTCTAACACATAGGGGTATTTTAGT
* * *
37074814 CATTCTTACCCTTAGGGGTATTTTAGT
1 CATTCTAACACATAGGGGTATTTTAGT
37074841 AATTTCTCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 5 0.22
27 18 0.78
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.40
Consensus pattern (27 bp):
CATTCTAACACATAGGGGTATTTTAGT
Found at i:37075183 original size:28 final size:28
Alignment explanation
Indices: 37075151--37075205 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
37075141 ATACATGCAT
*
37075151 ATGGCTCACTAGG-CCCAATCACATTCAA
1 ATGGCCCA-TAGGCCCCAATCACATTCAA
*
37075179 ATGGCCCATCGGCCCCAATCACATTCA
1 ATGGCCCATAGGCCCCAATCACATTCA
37075206 TAGTCATGCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.12
28 21 0.88
ACGTcount: A:0.29, C:0.36, G:0.15, T:0.20
Consensus pattern (28 bp):
ATGGCCCATAGGCCCCAATCACATTCAA
Found at i:37078087 original size:27 final size:27
Alignment explanation
Indices: 37078053--37078244 Score: 215
Period size: 27 Copynumber: 7.1 Consensus size: 27
37078043 TGGATAAGTT
* *
37078053 GTAGAATTATCGAAATACCCCTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAGG
37078080 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
** *
37078107 GTAGAATTATTGAAATACCCCTCTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
37078134 GTAGAATTACCGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * ** * *
37078161 ATAGAATTATCGAAATATTCTTGTTGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
37078188 GTAGAAATACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * * *
37078215 GTAGGACTACC-AATTTACCCCTGAAGG
1 GTAGAATTACCGAA-ATACCCCTGTAGG
37078242 GTA
1 GTA
37078245 AACTGACTAT
Statistics
Matches: 139, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
26 2 0.01
27 137 0.99
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.27
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:37078137 original size:54 final size:54
Alignment explanation
Indices: 37078053--37078218 Score: 242
Period size: 54 Copynumber: 3.1 Consensus size: 54
37078043 TGGATAAGTT
*
37078053 GTAGAATTATCGAAATACCCCTGTAAGGTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTATCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGG
* * *
37078107 GTAGAATTATTGAAATACCCCTCTAGGGTAGAATTACCGAAATACCCTTGTAGG
1 GTAGAATTATCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGG
* ** * * *
37078161 ATAGAATTATCGAAATATTCTTGTTGGGTAGAAATACCGAAATACCCCTGTAGG
1 GTAGAATTATCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGG
37078215 GTAG
1 GTAG
37078219 GACTACCAAT
Statistics
Matches: 98, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 98 1.00
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.27
Consensus pattern (54 bp):
GTAGAATTATCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGG
Found at i:37091902 original size:47 final size:47
Alignment explanation
Indices: 37091833--37091947 Score: 128
Period size: 47 Copynumber: 2.5 Consensus size: 47
37091823 ACTGATGCCG
* * ** *
37091833 TGTCCCAGACACGATCTTACACTGGCTCAT-ATCTC-AAGTCGAAGCCA
1 TGTCCCAGACATGGTCTTACACTAACT-ATCATCTCGAAGCCGAAG-CA
*
37091880 TGTCCCAGACATGGTCTTACACTAACTATCATCTCGTAGCCGAAGCA
1 TGTCCCAGACATGGTCTTACACTAACTATCATCTCGAAGCCGAAGCA
*
37091927 TGTCCCAGACAT-GACTTACAC
1 TGTCCCAGACATGGTCTTACAC
37091948 CATAGATGCT
Statistics
Matches: 59, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
46 10 0.17
47 42 0.71
48 7 0.12
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (47 bp):
TGTCCCAGACATGGTCTTACACTAACTATCATCTCGAAGCCGAAGCA
Found at i:37094069 original size:26 final size:26
Alignment explanation
Indices: 37094040--37094095 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
37094030 TGGCGCAAAA
*
37094040 CCATAATCAGAATAATTGGCTTTAAG
1 CCATAATCAGAATAATTGGCATTAAG
37094066 CCATAATCAGAATAATTGGCATTAAG
1 CCATAATCAGAATAATTGGCATTAAG
37094092 CCAT
1 CCAT
37094096 CGGTAGCTGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (26 bp):
CCATAATCAGAATAATTGGCATTAAG
Found at i:37094284 original size:41 final size:41
Alignment explanation
Indices: 37094215--37094338 Score: 176
Period size: 41 Copynumber: 3.0 Consensus size: 41
37094205 CTTAAAAGCC
* * *
37094215 ACCGGTGGATCCGCGGTCATCAAGCAACCATGCAATCCTTA
1 ACCGGTGGATCCACGGTCGTCAAGCAACCATGCAATCCTCA
* * * *
37094256 ATCGGTGGATCCACGATCGTCAAACAACCATGCAATTCTCA
1 ACCGGTGGATCCACGGTCGTCAAGCAACCATGCAATCCTCA
*
37094297 ACCCGTGGATCCACGGTCGTCAAGCAACCATGCAATCCTCA
1 ACCGGTGGATCCACGGTCGTCAAGCAACCATGCAATCCTCA
37094338 A
1 A
37094339 TTTCTTCCTC
Statistics
Matches: 71, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 71 1.00
ACGTcount: A:0.29, C:0.32, G:0.19, T:0.19
Consensus pattern (41 bp):
ACCGGTGGATCCACGGTCGTCAAGCAACCATGCAATCCTCA
Found at i:37094666 original size:27 final size:27
Alignment explanation
Indices: 37094603--37094785 Score: 158
Period size: 27 Copynumber: 6.7 Consensus size: 27
37094593 ATCTACAAAC
*
37094603 CAAGGGTATTTCTGTAATTTTTTGAAAGT
1 CAAGGGTATTTCTGTAATTTTCT-AAA-T
* *
37094632 CAAGGGTATTTTTGTAATTTTGTAAAT
1 CAAGGGTATTTCTGTAATTTTCTAAAT
*
37094659 C-AGTGGTATTTCTGTAATTTTCCAAAT
1 CAAG-GGTATTTCTGTAATTTTCTAAAT
37094686 CAAGGGTATTT-TGGTAATTTTAC-AAAT
1 CAAGGGTATTTCT-GTAATTTT-CTAAAT
** * *
37094713 TGAGGGTATTTCGGTAATTTTAC-AAGT
1 CAAGGGTATTTCTGTAATTTT-CTAAAT
* * * * *
37094740 CGAGAGTATTTCGGTAATTTTGTAAAC
1 CAAGGGTATTTCTGTAATTTTCTAAAT
*
37094767 CAAGGGTATTTCAGTAATT
1 CAAGGGTATTTCTGTAATT
37094786 CTACCTTACA
Statistics
Matches: 131, Mismatches: 17, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
26 3 0.02
27 101 0.77
28 6 0.05
29 21 0.16
ACGTcount: A:0.29, C:0.09, G:0.20, T:0.42
Consensus pattern (27 bp):
CAAGGGTATTTCTGTAATTTTCTAAAT
Found at i:37094703 original size:54 final size:53
Alignment explanation
Indices: 37094605--37094785 Score: 191
Period size: 54 Copynumber: 3.3 Consensus size: 53
37094595 CTACAAACCA
** *
37094605 AGGGTATTTCTGTAATTTTTTGAAAGTCAAGGGTATTTTTGTAATTTTGTAAATC
1 AGGGTATTTCTGTAA-TTTTACAAA-TCAAGGGTATTTTGGTAATTTTGTAAATC
* ** *
37094660 AGTGGTATTTCTGTAATTTTCCAAATCAAGGGTATTTTGGTAATTTTACAAATTG
1 AG-GGTATTTCTGTAATTTTACAAATCAAGGGTATTTTGGTAATTTTGTAAA-TC
* * * * * *
37094715 AGGGTATTTCGGTAATTTTACAAGTCGAGAGTATTTCGGTAATTTTGTAAACC
1 AGGGTATTTCTGTAATTTTACAAATCAAGGGTATTTTGGTAATTTTGTAAATC
*
37094768 AAGGGTATTTCAGTAATT
1 -AGGGTATTTCTGTAATT
37094786 CTACCTTACA
Statistics
Matches: 106, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
54 81 0.76
55 12 0.11
56 13 0.12
ACGTcount: A:0.29, C:0.08, G:0.20, T:0.43
Consensus pattern (53 bp):
AGGGTATTTCTGTAATTTTACAAATCAAGGGTATTTTGGTAATTTTGTAAATC
Found at i:37099155 original size:34 final size:35
Alignment explanation
Indices: 37099098--37099166 Score: 95
Period size: 34 Copynumber: 2.0 Consensus size: 35
37099088 TCTACCCCTC
37099098 AATGGAGCACTACTTGCCATTACTTCATG-TTTTT
1 AATGGAGCACTACTTGCCATTACTTCATGCTTTTT
** * *
37099132 AATGGAGCACTACTTTTCTTTACTTCTTGCTTTTT
1 AATGGAGCACTACTTGCCATTACTTCATGCTTTTT
37099167 CTCTCCCTCT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
34 25 0.83
35 5 0.17
ACGTcount: A:0.20, C:0.20, G:0.13, T:0.46
Consensus pattern (35 bp):
AATGGAGCACTACTTGCCATTACTTCATGCTTTTT
Found at i:37100877 original size:41 final size:41
Alignment explanation
Indices: 37100819--37100923 Score: 142
Period size: 41 Copynumber: 2.6 Consensus size: 41
37100809 ACGGCTTGGC
* * * *
37100819 ACACGCCTGT-TCTATGGCTCGTGTCATTCACATAGCCATG
1 ACACGCCCGTGTCCATGGCCCGTGTCATTCACACAGCCATG
37100859 ACACGCCCGTGTCCATGGCCCGTGTCATTCACACAGCCATG
1 ACACGCCCGTGTCCATGGCCCGTGTCATTCACACAGCCATG
* *
37100900 ACACGCCCGTG-CCCTAGCCCGTGT
1 ACACGCCCGTGTCCATGGCCCGTGT
37100924 GGAAAAACCT
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
40 20 0.34
41 38 0.66
ACGTcount: A:0.18, C:0.37, G:0.22, T:0.23
Consensus pattern (41 bp):
ACACGCCCGTGTCCATGGCCCGTGTCATTCACACAGCCATG
Found at i:37104369 original size:33 final size:33
Alignment explanation
Indices: 37104327--37104393 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
37104317 CTAGCTTATG
37104327 TTAATATCTCTCTCGAGACTAAAAACAACTGAC
1 TTAATATCTCTCTCGAGACTAAAAACAACTGAC
37104360 TTAATATCTCTCTCGAGACTAAAAACAACTGAC
1 TTAATATCTCTCTCGAGACTAAAAACAACTGAC
37104393 T
1 T
37104394 CTAGGTTGAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.39, C:0.24, G:0.09, T:0.28
Consensus pattern (33 bp):
TTAATATCTCTCTCGAGACTAAAAACAACTGAC
Found at i:37106402 original size:11 final size:11
Alignment explanation
Indices: 37106386--37106410 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
37106376 AGGTGAAAAC
37106386 TGTGTGCTAGA
1 TGTGTGCTAGA
37106397 TGTGTGCTAGA
1 TGTGTGCTAGA
37106408 TGT
1 TGT
37106411 TAAAAGTACC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.08, G:0.36, T:0.40
Consensus pattern (11 bp):
TGTGTGCTAGA
Found at i:37107518 original size:42 final size:42
Alignment explanation
Indices: 37107419--37107579 Score: 182
Period size: 42 Copynumber: 3.8 Consensus size: 42
37107409 ATTTGAGATA
* * * *
37107419 TCGTGTAAGACCGTGTCTGGGACA-CAAGCCTCG-ATTTGAGATT
1 TCGTGTAAGACCATGTCTGGGACATC-GGCATCGTATCT--GATT
*
37107462 TACGTGTAAGACCATGTTTGGGACATCGGCATCGTATCTGATT
1 T-CGTGTAAGACCATGTCTGGGACATCGGCATCGTATCTGATT
*
37107505 TTGTGTAAGACCATGTCTGGGACATCGGCATCGTATCTGATT
1 TCGTGTAAGACCATGTCTGGGACATCGGCATCGTATCTGATT
* * **
37107547 TCGTGTAAGACCCTATCTGGGACAGAGGCATCG
1 TCGTGTAAGACCATGTCTGGGACATCGGCATCG
37107580 ATACGGAATT
Statistics
Matches: 103, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
42 67 0.65
43 6 0.06
44 26 0.25
45 4 0.04
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.29
Consensus pattern (42 bp):
TCGTGTAAGACCATGTCTGGGACATCGGCATCGTATCTGATT
Found at i:37111223 original size:39 final size:39
Alignment explanation
Indices: 37111171--37111341 Score: 202
Period size: 39 Copynumber: 4.3 Consensus size: 39
37111161 GGACTAAGAT
37111171 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAG-C
1 CCGAAGGCATTTGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
37111210 CCGAAGGCCTTTGTGCGAGGTACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATAC-AAATCCGGGTTAAGTC
* * *
37111250 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
37111290 CCGAAGGCA-TTGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGATAC-AAATCCGGGTTAAGTC
37111329 CCGAAGGCATTTG
1 CCGAAGGCATTTG
37111342 AACGAGGAGC
Statistics
Matches: 115, Mismatches: 12, Indels: 9
0.85 0.09 0.07
Matches are distributed among these distances:
39 64 0.56
40 51 0.44
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (39 bp):
CCGAAGGCATTTGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:37111254 original size:79 final size:79
Alignment explanation
Indices: 37111118--37111341 Score: 256
Period size: 79 Copynumber: 2.8 Consensus size: 79
37111108 TTGAATGCTG
* * * * * *
37111118 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAGGT-ACTAAATCCGGGCTAAG-TCCCGAAGGCATT
37111182 TGTGCGAGATA-CAAA
64 TGTGCGAGATATCAAA
*
37111197 TTCCGGGTTAAG-CCCGAAGGCCTTTGTGCGAGGTACTAAATCCGGGTTAAGTCCCGAAGGCATT
1 -TCCGGGTTAAGTCCCGAAGG-CTTTGTGCGAGGTACTAAATCCGGGCTAAGTCCCGAAGGCATT
* * *
37111261 CGTGCGAGTTATTAAA
64 TGTGCGAGATATCAAA
* * * * *
37111277 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAGGTACTAAATCCGGGCTAAGTCCCGAAGGCATTTG
37111342 AACGAGGAGC
Statistics
Matches: 123, Mismatches: 17, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
78 1 0.01
79 90 0.73
80 32 0.26
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAGGTACTAAATCCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGATATCAAA
Found at i:37111359 original size:79 final size:80
Alignment explanation
Indices: 37111198--37111374 Score: 200
Period size: 79 Copynumber: 2.2 Consensus size: 80
37111188 AGATACAAAT
* * *
37111198 TCCGGGTTAAG-CCCGAAGGCCTTTGTGCGAGGTACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGGTACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
37111262 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * *
37111277 TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGGTACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
37111341 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
37111356 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
37111375 TACGTGATTT
Statistics
Matches: 83, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
78 16 0.19
79 59 0.71
80 8 0.10
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.24
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGGTACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Done.