Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032245.1 Gossypioides kirkii chromosome KI_2_4
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: 41238926
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 6100 characters in sequence are not A, C, G, or T
File 78 of 132
Found at i:22896889 original size:37 final size:37
Alignment explanation
Indices: 22896740--22896889 Score: 95
Period size: 37 Copynumber: 3.9 Consensus size: 37
22896730 ATTGATTTAA
* * * *
22896740 TCCACTTCTCTGCATCTCATCAAGAAGGTAGATTTGG
1 TCCACTTCTCTGTATCTCATCAAGAAGATGGGTTTGG
* * * * *
22896777 TCCACTTCTTTATACCTCATCAGGAAGATGACCGTTGCTTTGA
1 TCCACTTCTCTGTATCTCATCAAGAAGATG---G--G-TTTGG
* * * * *
22896820 CCCACTTTTCTGTGTATTATCAAGAATG-TGGGTTTGG
1 TCCACTTCTCTGTATCTCATCAAGAA-GATGGGTTTGG
*
22896857 TCCACTTCTCTGTATCTCATCAGGAAGATGGGT
1 TCCACTTCTCTGTATCTCATCAAGAAGATGGGT
22896890 GGTTTGAAGT
Statistics
Matches: 80, Mismatches: 25, Indels: 16
0.66 0.21 0.13
Matches are distributed among these distances:
36 1 0.01
37 52 0.65
38 1 0.01
40 2 0.03
43 23 0.29
44 1 0.01
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (37 bp):
TCCACTTCTCTGTATCTCATCAAGAAGATGGGTTTGG
Found at i:22897201 original size:44 final size:43
Alignment explanation
Indices: 22897086--22897296 Score: 186
Period size: 45 Copynumber: 4.8 Consensus size: 43
22897076 AGGTAATAGT
22897086 TTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATTGGAAT-G-GC
1 TTCAATCTG-CCCTCTTGAC-TAGGGGTAAAAGATT-GAATGGTGC
* * *
22897130 TTCAA-CTTGCCCTTCTAGATTATGGGT-AAAGATTGAATGGTGAC
1 TTCAATC-TGCCC-TCTTGACTAGGGGTAAAAGATTGAATGGTG-C
*
22897174 TTCAATCTGCCTCTCTTGACTAGGGGTAAAAGATT-AGACGGT--
1 TTCAATCTGCC-CTCTTGACTAGGGGTAAAAGATTGA-ATGGTGC
* * * *
22897216 TTCAATCTGTCCCTCTAGATTAGAGGTAAAAGATTGGAA-GATGAC
1 TTCAATCTG-CCCTCTTGACTAGGGGTAAAAGATT-GAATGGTG-C
22897261 TTCAATCTGCCCTTCTTGACTAGGGGTAAAAGATTG
1 TTCAATCTGCCC-TCTTGACTAGGGGTAAAAGATTG
22897297 GATGATGGCT
Statistics
Matches: 137, Mismatches: 14, Indels: 32
0.75 0.08 0.17
Matches are distributed among these distances:
41 4 0.03
42 39 0.28
43 14 0.10
44 39 0.28
45 41 0.30
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.31
Consensus pattern (43 bp):
TTCAATCTGCCCTCTTGACTAGGGGTAAAAGATTGAATGGTGC
Found at i:22897289 original size:45 final size:45
Alignment explanation
Indices: 22897216--22897318 Score: 127
Period size: 45 Copynumber: 2.3 Consensus size: 45
22897206 ATTAGACGGT
*
22897216 TTCAATCTGTCCC-TCTAGATTAGAGGTAAAAGATTGGAAGATGAC
1 TTCAATCTG-CCCTTCTAGACTAGAGGTAAAAGATTGGAAGATGAC
* * * *
22897261 TTCAATCTGCCCTTCTTGACTAGGGGTAAAAGATTGGATGATGGC
1 TTCAATCTGCCCTTCTAGACTAGAGGTAAAAGATTGGAAGATGAC
* *
22897306 TTTAATTTGCCCT
1 TTCAATCTGCCCT
22897319 ATGGTCGGGG
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
44 3 0.06
45 47 0.94
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.33
Consensus pattern (45 bp):
TTCAATCTGCCCTTCTAGACTAGAGGTAAAAGATTGGAAGATGAC
Found at i:22897332 original size:87 final size:88
Alignment explanation
Indices: 22897086--22897318 Score: 282
Period size: 87 Copynumber: 2.6 Consensus size: 88
22897076 AGGTAATAGT
* * *
22897086 TTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATTGGA-ATGGCTTCAACTTGCCCTTCTAGAT
1 TTCAATCTGCCCTTCTTGAC-TAGGGGTAAAAGATTGGAGATGGCTTTAATTTGCCC-TCTAGAT
* *
22897150 TATGGGT-AAAGATT-GAATGGTGAC
64 TAGGGGTAAAAGATTGGAA-GATGAC
* *
22897174 TTCAATCTG-CCTCTCTTGACTAGGGGTAAAAGATT--AGACGG-TTTCAATCTGTCCCTCTAGA
1 TTCAATCTGCCCT-TCTTGACTAGGGGTAAAAGATTGGAGATGGCTTT-AATTTG-CCCTCTAGA
*
22897235 TTAGAGGTAAAAGATTGGAAGATGAC
63 TTAGGGGTAAAAGATTGGAAGATGAC
22897261 TTCAATCTGCCCTTCTTGACTAGGGGTAAAAGATTGGATGATGGCTTTAATTTGCCCT
1 TTCAATCTGCCCTTCTTGACTAGGGGTAAAAGATTGGA-GATGGCTTTAATTTGCCCT
22897319 ATGGTCGGGG
Statistics
Matches: 124, Mismatches: 10, Indels: 21
0.80 0.06 0.14
Matches are distributed among these distances:
85 3 0.02
86 19 0.15
87 63 0.51
88 22 0.18
89 5 0.04
90 9 0.07
91 3 0.02
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (88 bp):
TTCAATCTGCCCTTCTTGACTAGGGGTAAAAGATTGGAGATGGCTTTAATTTGCCCTCTAGATTA
GGGGTAAAAGATTGGAAGATGAC
Found at i:22897732 original size:49 final size:49
Alignment explanation
Indices: 22897563--22897758 Score: 198
Period size: 49 Copynumber: 4.0 Consensus size: 49
22897553 CTAGATCTTC
* ** **
22897563 AGGGTATAAGATTCATCGTTACGATTTCAATCTTTCCCTTCACATCTCT
1 AGGGTATAAGGTTCATCGTTGTGGCTTCAATCTTTCCCTTCACATCTCT
* * * * *
22897612 AGGGTATAAGGTTCACCGTTGTGGCTTTC-A-CCTTCCCCTCTTCATCTTT
1 AGGGTATAAGGTTCATCGTTGTGGC-TTCAATCTTTCCCTTC-ACATCTCT
* *
22897661 AGGGTATAAGATTCATCGTTGTGGCTTCAATCTTTCCCTTCACATCACT
1 AGGGTATAAGGTTCATCGTTGTGGCTTCAATCTTTCCCTTCACATCTCT
* ** * * *
22897710 AAGGTATAAGGTTTGTCATTGTGGCTTCAACCTTTCCCATCACATCTCT
1 AGGGTATAAGGTTCATCGTTGTGGCTTCAATCTTTCCCTTCACATCTCT
22897759 TAGGTGTAGA
Statistics
Matches: 118, Mismatches: 25, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
48 11 0.09
49 96 0.81
50 11 0.09
ACGTcount: A:0.21, C:0.26, G:0.16, T:0.38
Consensus pattern (49 bp):
AGGGTATAAGGTTCATCGTTGTGGCTTCAATCTTTCCCTTCACATCTCT
Found at i:22897743 original size:98 final size:98
Alignment explanation
Indices: 22897557--22897736 Score: 261
Period size: 98 Copynumber: 1.8 Consensus size: 98
22897547 ACTTCTCTAG
* * *
22897557 ATCTTCAGGGTATAAGATTCATCGTTACGATTTCAATCTTTCCCTTCACATCTCTAGGGTATAAG
1 ATCTTCAGGGTATAAGATTCATCGTTACGACTTCAATCTTTCCCTTCACATCACTAAGGTATAAG
*
22897622 GTTCACCGTTGTGGCTTTCACCTTCCCCTCTTC
66 GTTCACCATTGTGGCTTTCACCTTCCCCTCTTC
* ** *
22897655 ATCTTTAGGGTATAAGATTCATCGTTGTGGCTTCAATCTTTCCCTTCACATCACTAAGGTATAAG
1 ATCTTCAGGGTATAAGATTCATCGTTACGACTTCAATCTTTCCCTTCACATCACTAAGGTATAAG
***
22897720 GTTTGTCATTGTGGCTT
66 GTTCACCATTGTGGCTT
22897737 CAACCTTTCC
Statistics
Matches: 71, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
98 71 1.00
ACGTcount: A:0.21, C:0.23, G:0.17, T:0.39
Consensus pattern (98 bp):
ATCTTCAGGGTATAAGATTCATCGTTACGACTTCAATCTTTCCCTTCACATCACTAAGGTATAAG
GTTCACCATTGTGGCTTTCACCTTCCCCTCTTC
Found at i:22897756 original size:98 final size:98
Alignment explanation
Indices: 22897552--22897762 Score: 255
Period size: 98 Copynumber: 2.1 Consensus size: 98
22897542 AATCTACTTC
* * * * *
22897552 TCTAGATCTTCAGGGTATAAGATTCATCGTTACGATTTCAATCTTTCCCTTCACATCTCTAGGGT
1 TCTACATCTTTAGGGTATAAGATTCATCGTTACGACTTCAATCTTTCCCTTCACATCACTAAGGT
* *
22897617 ATAAGGTTCACCGTTGTGGCTTTCACCTTCCCC
66 ATAAGGTTCACCATTGTGGCTTTCACCTTCCCA
* ** *
22897650 TCTTCATCTTTAGGGTATAAGATTCATCGTTGTGGCTTCAATCTTTCCCTTCACATCACTAAGGT
1 TCTACATCTTTAGGGTATAAGATTCATCGTTACGACTTCAATCTTTCCCTTCACATCACTAAGGT
***
22897715 ATAAGGTTTGTCATTGTGGC-TTCAACCTTTCCCA
66 ATAAGGTTCACCATTGTGGCTTTC-ACC-TTCCCA
22897749 TC-ACATCTCTTAGG
1 TCTACATCT-TTAGG
22897763 TGTAGATTCG
Statistics
Matches: 95, Mismatches: 15, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
97 3 0.03
98 80 0.84
99 12 0.13
ACGTcount: A:0.21, C:0.25, G:0.16, T:0.38
Consensus pattern (98 bp):
TCTACATCTTTAGGGTATAAGATTCATCGTTACGACTTCAATCTTTCCCTTCACATCACTAAGGT
ATAAGGTTCACCATTGTGGCTTTCACCTTCCCA
Found at i:22898713 original size:28 final size:28
Alignment explanation
Indices: 22898681--22898769 Score: 94
Period size: 29 Copynumber: 3.1 Consensus size: 28
22898671 TTTTGACCTA
22898681 TTCTTTTTCTTTTTCTTCTTCCTTTTTT
1 TTCTTTTTCTTTTTCTTCTTCCTTTTTT
*
22898709 TTCTTTTTTTTTTTTCTT-TTCCCTTTTTCAT
1 TTC-TTTTTCTTTTTCTTCTT-CCTTTTT--T
22898740 TTC-TTTTC-TTTTCTCTCTTCTCTTTTTT
1 TTCTTTTTCTTTTTCT-TCTTC-CTTTTTT
22898768 TT
1 TT
22898770 TATGTAAAAT
Statistics
Matches: 52, Mismatches: 2, Indels: 14
0.76 0.03 0.21
Matches are distributed among these distances:
28 14 0.27
29 26 0.50
30 8 0.15
31 4 0.08
ACGTcount: A:0.01, C:0.21, G:0.00, T:0.78
Consensus pattern (28 bp):
TTCTTTTTCTTTTTCTTCTTCCTTTTTT
Found at i:22898719 original size:13 final size:13
Alignment explanation
Indices: 22898681--22898728 Score: 60
Period size: 13 Copynumber: 3.5 Consensus size: 13
22898671 TTTTGACCTA
22898681 TTCTTTTTCTTTTT
1 TTCTTTTT-TTTTT
**
22898695 CTTCTTCCTTTTTT
1 -TTCTTTTTTTTTT
22898709 TTCTTTTTTTTTT
1 TTCTTTTTTTTTT
22898722 TTCTTTT
1 TTCTTTT
22898729 CCCTTTTTCA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
13 18 0.62
14 5 0.17
15 6 0.21
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (13 bp):
TTCTTTTTTTTTT
Found at i:22898729 original size:5 final size:5
Alignment explanation
Indices: 22898685--22898753 Score: 54
Period size: 5 Copynumber: 13.2 Consensus size: 5
22898675 GACCTATTCT
22898685 TTTTC TTTTTC TTCTTCC TTTT- TTTTC TTTT- TTTT- TTTTC TTTTCCC
1 TTTTC -TTTTC TT-TT-C TTTTC TTTTC TTTTC TTTTC TTTTC TTTT--C
*
22898732 TTTTTC ATTTC TTTTC TTTTC T
1 -TTTTC TTTTC TTTTC TTTTC T
22898754 CTCTTCTCTT
Statistics
Matches: 54, Mismatches: 2, Indels: 15
0.76 0.03 0.21
Matches are distributed among these distances:
4 12 0.22
5 24 0.44
6 10 0.19
7 4 0.07
8 4 0.07
ACGTcount: A:0.01, C:0.20, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTTC
Found at i:22898769 original size:23 final size:23
Alignment explanation
Indices: 22898716--22898770 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
22898706 TTTTTCTTTT
*
22898716 TTTTTTTTCTTTTCCCTTTTTCA
1 TTTTTTTTCTTTTCCCTTTCTCA
* * *
22898739 TTTCTTTTCTTTTCTCTCTTCTCT
1 TTTTTTTTCTTTTCCCT-TTCTCA
22898763 TTTTTTTT
1 TTTTTTTT
22898771 ATGTAAAATG
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
23 15 0.58
24 11 0.42
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (23 bp):
TTTTTTTTCTTTTCCCTTTCTCA
Found at i:22904454 original size:30 final size:30
Alignment explanation
Indices: 22904379--22904464 Score: 84
Period size: 30 Copynumber: 2.9 Consensus size: 30
22904369 AGGAAAACAA
* * **
22904379 GGTC-AAAAATGAAATTTTGGGAAGTTCGGG
1 GGTCAAAAAAT-AATTTTTGGAAAGTTCAAG
* **
22904409 GGTCAAATACGAATTTTTGGAAAGTTCAAG
1 GGTCAAAAAATAATTTTTGGAAAGTTCAAG
*
22904439 GGTCAAAAAATAATTTTTGGACAGTT
1 GGTCAAAAAATAATTTTTGGAAAGTT
22904465 TGGGGTCGAA
Statistics
Matches: 44, Mismatches: 11, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
30 41 0.93
31 3 0.07
ACGTcount: A:0.36, C:0.08, G:0.26, T:0.30
Consensus pattern (30 bp):
GGTCAAAAAATAATTTTTGGAAAGTTCAAG
Found at i:22905263 original size:10 final size:10
Alignment explanation
Indices: 22905250--22905302 Score: 52
Period size: 10 Copynumber: 5.1 Consensus size: 10
22905240 AGTATGGAAC
22905250 TGTATATATA
1 TGTATATATA
22905260 TGTATATGTATA
1 TGTATA--TATA
*
22905272 TATATATATA
1 TGTATATATA
* *
22905282 TATGTATATA
1 TGTATATATA
*
22905292 TGTATAAATA
1 TGTATATATA
22905302 T
1 T
22905303 TAGTCTACCT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
10 27 0.75
12 9 0.25
ACGTcount: A:0.42, C:0.00, G:0.09, T:0.49
Consensus pattern (10 bp):
TGTATATATA
Found at i:22905273 original size:8 final size:8
Alignment explanation
Indices: 22905254--22905297 Score: 61
Period size: 8 Copynumber: 5.5 Consensus size: 8
22905244 TGGAACTGTA
22905254 TATATATG
1 TATATATG
* *
22905262 TATATGTA
1 TATATATG
*
22905270 TATATATA
1 TATATATG
22905278 TATATATG
1 TATATATG
22905286 TATATATG
1 TATATATG
22905294 TATA
1 TATA
22905298 AATATTAGTC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
8 32 1.00
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (8 bp):
TATATATG
Found at i:22905275 original size:18 final size:18
Alignment explanation
Indices: 22905252--22905302 Score: 75
Period size: 18 Copynumber: 2.8 Consensus size: 18
22905242 TATGGAACTG
*
22905252 TATATATATGTATATGTA
1 TATATATATATATATGTA
22905270 TATATATATATATATGTA
1 TATATATATATATATGTA
* *
22905288 TATATGTATAAATAT
1 TATATATATATATAT
22905303 TAGTCTACCT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.43, C:0.00, G:0.08, T:0.49
Consensus pattern (18 bp):
TATATATATATATATGTA
Found at i:22905297 original size:6 final size:6
Alignment explanation
Indices: 22905256--22905290 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
22905246 GAACTGTATA
* *
22905256 TATATG TATATG TATATA TATATA TATATG TATAT
1 TATATG TATATG TATATG TATATG TATATG TATAT
22905291 ATGTATAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (6 bp):
TATATG
Found at i:22905996 original size:37 final size:38
Alignment explanation
Indices: 22905931--22906018 Score: 97
Period size: 37 Copynumber: 2.3 Consensus size: 38
22905921 ACTCCGTCCC
* *
22905931 CCCTACACACCACAATAGGGCTAAGGTAGGCCCATCCA
1 CCCTGCACACCACAATAGGGCTAAGGTAGACCCATCCA
* * * * *
22905969 CCCTGCACATCAC-ATAGGGTTATGGTAGACCCTTCTA
1 CCCTGCACACCACAATAGGGCTAAGGTAGACCCATCCA
*
22906006 CCCTGCATACCAC
1 CCCTGCACACCAC
22906019 GTTGTGATCG
Statistics
Matches: 41, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
37 30 0.73
38 11 0.27
ACGTcount: A:0.27, C:0.36, G:0.17, T:0.19
Consensus pattern (38 bp):
CCCTGCACACCACAATAGGGCTAAGGTAGACCCATCCA
Found at i:22907032 original size:3 final size:3
Alignment explanation
Indices: 22907024--22907056 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
22907014 GTTTTAGGAA
22907024 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
22907057 TAAAAAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:22907622 original size:3 final size:3
Alignment explanation
Indices: 22907614--22907641 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
22907604 TCAAAAGTAA
22907614 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
22907642 CCATCTTAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:22909693 original size:17 final size:17
Alignment explanation
Indices: 22909671--22909703 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
22909661 TGAACTTCAC
22909671 CAATAATTAATCCATAA
1 CAATAATTAATCCATAA
22909688 CAATAATTAATCCATA
1 CAATAATTAATCCATA
22909704 TTTAATAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.52, C:0.18, G:0.00, T:0.30
Consensus pattern (17 bp):
CAATAATTAATCCATAA
Found at i:22911579 original size:24 final size:23
Alignment explanation
Indices: 22911551--22911637 Score: 86
Period size: 23 Copynumber: 3.7 Consensus size: 23
22911541 TCATTAACAT
* *
22911551 TGTTCGTGAACATGTTCAATTATA
1 TGTTCATGAACATGTTCGATTA-A
*
22911575 TGTTCATGAACATGTTCGTTTAA
1 TGTTCATGAACATGTTCGATTAA
* *
22911598 TGTTCCTGAACATCTTCGATT-A
1 TGTTCATGAACATGTTCGATTAA
* *
22911620 GGTTAAATGAACATGTTC
1 TGTT-CATGAACATGTTC
22911638 ATGAACACTA
Statistics
Matches: 52, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
22 4 0.08
23 29 0.56
24 19 0.37
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.40
Consensus pattern (23 bp):
TGTTCATGAACATGTTCGATTAA
Found at i:22912605 original size:2 final size:2
Alignment explanation
Indices: 22912600--22912632 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
22912590 TTTTTTTAGA
*
22912600 AT AT AT AT AT AT AT AT AT AT GT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
22912633 ATTTCAATCT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:22918910 original size:26 final size:26
Alignment explanation
Indices: 22918881--22918951 Score: 72
Period size: 29 Copynumber: 2.6 Consensus size: 26
22918871 ATACAAATTT
22918881 AATTATTTATATTTTTTCA-TATAATA
1 AATTATTTATATTTTTT-ATTATAATA
* *
22918907 AATTATTAATATAATTTATTATTTTAATA
1 AATTATT--TAT-ATTTTTTATTATAATA
22918936 AATTATTTAATATTTT
1 AATTATTT-ATATTTT
22918952 AATTTTATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
26 7 0.19
27 5 0.14
28 6 0.16
29 19 0.51
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (26 bp):
AATTATTTATATTTTTTATTATAATA
Found at i:22918920 original size:16 final size:16
Alignment explanation
Indices: 22918899--22918948 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 16
22918889 ATATTTTTTC
22918899 ATATAATAAATTATTA
1 ATATAATAAATTATTA
22918915 ATATAAT---TTATTA
1 ATATAATAAATTATTA
* *
22918928 TTTTAATAAATTATTTA
1 ATATAATAAATTA-TTA
22918945 ATAT
1 ATAT
22918949 TTTAATTTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 7
0.70 0.11 0.19
Matches are distributed among these distances:
13 11 0.42
16 10 0.38
17 5 0.19
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
ATATAATAAATTATTA
Found at i:22918977 original size:19 final size:19
Alignment explanation
Indices: 22918955--22918993 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
22918945 ATATTTTAAT
*
22918955 TTTATTTTAA-TAGTAAATA
1 TTTATTATAATTA-TAAATA
22918974 TTTATTATAATTATAAATA
1 TTTATTATAATTATAAATA
22918993 T
1 T
22918994 ATTAATAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 16 0.89
20 2 0.11
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (19 bp):
TTTATTATAATTATAAATA
Found at i:22919939 original size:17 final size:16
Alignment explanation
Indices: 22919917--22919995 Score: 61
Period size: 18 Copynumber: 4.7 Consensus size: 16
22919907 ATTGCTTCTC
22919917 AAAAATATTTTTAAGAT
1 AAAAATATTTTTAA-AT
*
22919934 AAAAATCACTTTTGAAAT
1 AAAAAT-A-TTTTTAAAT
* *
22919952 AAAAAAATTGTTAAAT
1 AAAAATATTTTTAAAT
* *
22919968 -AAAATGTTTTTGAGACT
1 AAAAATATTTTT-A-AAT
22919985 AAAAATATTTT
1 AAAAATATTTT
22919996 GAAAAAGCAT
Statistics
Matches: 48, Mismatches: 9, Indels: 9
0.73 0.14 0.14
Matches are distributed among these distances:
15 8 0.17
16 8 0.17
17 9 0.19
18 17 0.35
19 6 0.12
ACGTcount: A:0.51, C:0.04, G:0.08, T:0.38
Consensus pattern (16 bp):
AAAAATATTTTTAAAT
Found at i:22919995 original size:18 final size:17
Alignment explanation
Indices: 22919917--22919999 Score: 66
Period size: 17 Copynumber: 4.9 Consensus size: 17
22919907 ATTGCTTCTC
22919917 AAAAATATTTTT-AAGAT
1 AAAAATATTTTTGAA-AT
*
22919934 AAAAATCACTTTTGAAAT
1 AAAAAT-ATTTTTGAAAT
* *
22919952 AAAAAAATTGTT-AAAT
1 AAAAATATTTTTGAAAT
* *
22919968 -AAAATGTTTTTGAGACT
1 AAAAATATTTTTGA-AAT
22919985 AAAAATA-TTTTGAAA
1 AAAAATATTTTTGAAA
22920000 AAGCATTTTT
Statistics
Matches: 51, Mismatches: 10, Indels: 11
0.71 0.14 0.15
Matches are distributed among these distances:
15 8 0.16
16 6 0.12
17 18 0.35
18 17 0.33
19 2 0.04
ACGTcount: A:0.52, C:0.04, G:0.08, T:0.36
Consensus pattern (17 bp):
AAAAATATTTTTGAAAT
Found at i:22926159 original size:10 final size:10
Alignment explanation
Indices: 22926144--22926177 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
22926134 CCACGAAATA
22926144 TTTTTATTTT
1 TTTTTATTTT
22926154 TTTTTATTTT
1 TTTTTATTTT
*
22926164 TTTCGTATTTT
1 TTT-TTATTTT
22926175 TTT
1 TTT
22926178 CTCTACTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.09, C:0.03, G:0.03, T:0.85
Consensus pattern (10 bp):
TTTTTATTTT
Found at i:22931528 original size:58 final size:58
Alignment explanation
Indices: 22931391--22931513 Score: 158
Period size: 58 Copynumber: 2.1 Consensus size: 58
22931381 AGGAAAATGA
* * *
22931391 GTCAAGTTCAGGTACTAAATT-GAACCCCAAAAAGTTTAAGTACCAACTTAAAAAAAGT
1 GTCAAGTTCAAGTACCAAATTAG-ACCCCAAAAAATTTAAGTACCAACTTAAAAAAAGT
* * * *
22931449 GTTAAGTTCAAGTACCAAATTAGACCCTAAAAAATTTAGGTACCAAATTTAAAAAAAGT
1 GTCAAGTTCAAGTACCAAATTAGACCCCAAAAAATTTAAGTACC-AACTTAAAAAAAGT
22931508 GTCAAG
1 GTCAAG
22931514 ATTAGATACT
Statistics
Matches: 55, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
58 36 0.65
59 19 0.35
ACGTcount: A:0.46, C:0.15, G:0.14, T:0.25
Consensus pattern (58 bp):
GTCAAGTTCAAGTACCAAATTAGACCCCAAAAAATTTAAGTACCAACTTAAAAAAAGT
Found at i:22931845 original size:15 final size:16
Alignment explanation
Indices: 22931812--22931849 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
22931802 TAATGTGATT
22931812 TAAAAT-ATTATAAAAA
1 TAAAATAATTAT-AAAA
22931828 TAAAATAATTAT-AAA
1 TAAAATAATTATAAAA
22931843 TAAAATA
1 TAAAATA
22931850 TCATCAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 10 0.48
16 6 0.29
17 5 0.24
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
TAAAATAATTATAAAA
Found at i:22932076 original size:21 final size:21
Alignment explanation
Indices: 22932049--22932098 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
22932039 AATTTTTACC
*
22932049 ATTTTAAAT-ATTTTTATAAA
1 ATTTTAAATAACTTTTATAAA
* *
22932069 ATTTTTAATAACTTTTATAAT
1 ATTTTAAATAACTTTTATAAA
22932090 ATTTTAAAT
1 ATTTTAAAT
22932099 CATATCCAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
20 8 0.32
21 17 0.68
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (21 bp):
ATTTTAAATAACTTTTATAAA
Found at i:22934707 original size:20 final size:20
Alignment explanation
Indices: 22934674--22934724 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
22934664 TATTTAATGG
*
22934674 TTATA-TTTAAATATT-TAAA
1 TTATATTTTATATATTCT-AA
22934693 TTATATTTTATATATTCTAA
1 TTATATTTTATATATTCTAA
*
22934713 TTAAATTTTATA
1 TTATATTTTATA
22934725 AATAATTAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 5 0.18
20 22 0.79
21 1 0.04
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (20 bp):
TTATATTTTATATATTCTAA
Found at i:22935272 original size:14 final size:15
Alignment explanation
Indices: 22935253--22935284 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
22935243 TGTTTCATTG
22935253 AAAATAATTTTT-GA
1 AAAATAATTTTTAGA
22935267 AAAATAATTTTTAGA
1 AAAATAATTTTTAGA
22935282 AAA
1 AAA
22935285 GCACTTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (15 bp):
AAAATAATTTTTAGA
Found at i:22935640 original size:18 final size:17
Alignment explanation
Indices: 22935608--22935641 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
22935598 CATATATAAA
*
22935608 CTTAATAATAATTAATG
1 CTTAATAAAAATTAATG
22935625 CTTAATTAAAAATTAAT
1 CTTAA-TAAAAATTAAT
22935642 TTAAATTACA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.41
Consensus pattern (17 bp):
CTTAATAAAAATTAATG
Found at i:22936167 original size:15 final size:15
Alignment explanation
Indices: 22936120--22936170 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
22936110 TTTATACTGC
*
22936120 AAAAAATTTATTATT
1 AAAATATTTATTATT
* * *
22936135 AATATGTTTA-TAAT
1 AAAATATTTATTATT
22936149 -AAATATTTATTATT
1 AAAATATTTATTATT
22936163 AAAATATT
1 AAAATATT
22936171 AATGCTGAAT
Statistics
Matches: 27, Mismatches: 7, Indels: 4
0.71 0.18 0.11
Matches are distributed among these distances:
13 7 0.26
14 6 0.22
15 14 0.52
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (15 bp):
AAAATATTTATTATT
Found at i:22936370 original size:17 final size:18
Alignment explanation
Indices: 22936336--22936374 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
22936326 ATTTTATATT
* *
22936336 AATATTTTATTAATTTTA
1 AATATTTTATAAAATTTA
22936354 AATATTTT-TAAAATTTA
1 AATATTTTATAAAATTTA
22936371 AATA
1 AATA
22936375 AAAATTTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
AATATTTTATAAAATTTA
Found at i:22936760 original size:20 final size:20
Alignment explanation
Indices: 22936737--22936781 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
22936727 AAATTTAGAA
22936737 ATAGTTGTAGAT-TTCTACCG
1 ATAGTTG-AGATGTTCTACCG
*
22936757 ATAGTTGGGATGGTTCTACCG
1 ATAGTTGAGAT-GTTCTACCG
22936778 ATAG
1 ATAG
22936782 AAGTGGGACT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 3 0.14
20 7 0.32
21 12 0.55
ACGTcount: A:0.24, C:0.13, G:0.27, T:0.36
Consensus pattern (20 bp):
ATAGTTGAGATGTTCTACCG
Found at i:22937016 original size:21 final size:21
Alignment explanation
Indices: 22936978--22937017 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
22936968 TACCTTATAC
* * *
22936978 TTCTATTGATACATGTAAGAG
1 TTCTATCGAAACAAGTAAGAG
22936999 TTCTATCGAAACAAGTAAG
1 TTCTATCGAAACAAGTAAG
22937018 CAGAATTCAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (21 bp):
TTCTATCGAAACAAGTAAGAG
Found at i:22937573 original size:31 final size:31
Alignment explanation
Indices: 22937531--22937594 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
22937521 TTCTGTTACC
*
22937531 AGTATACGATGCTTCTTACACTAAGATGATG
1 AGTATACGATGCTGCTTACACTAAGATGATG
* *
22937562 AGTATATGATGCTGCTTACACTAAGCTGATG
1 AGTATACGATGCTGCTTACACTAAGATGATG
22937593 AG
1 AG
22937595 GACTTGTAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (31 bp):
AGTATACGATGCTGCTTACACTAAGATGATG
Found at i:22938722 original size:20 final size:20
Alignment explanation
Indices: 22938680--22938722 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
22938670 ACTTTCATAA
* *
22938680 TTAAGCTTAATTAACCTCTT
1 TTAACCTTAATTAACCTCAT
22938700 TTAACCTTAATTAATCCT-AT
1 TTAACCTTAATTAA-CCTCAT
22938720 TTA
1 TTA
22938723 TATTCAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 17 0.85
21 3 0.15
ACGTcount: A:0.33, C:0.19, G:0.02, T:0.47
Consensus pattern (20 bp):
TTAACCTTAATTAACCTCAT
Found at i:22941741 original size:12 final size:12
Alignment explanation
Indices: 22941724--22941931 Score: 102
Period size: 12 Copynumber: 16.8 Consensus size: 12
22941714 TTTAACTAAG
22941724 TAAATAAATAAC
1 TAAATAAATAAC
*
22941736 TAAATAAATTTTAC
1 TAAATAAA--TAAC
*
22941750 GTAGTAAATAAATAAG
1 -TA---AATAAATAAC
* *
22941766 TAAGTAAATAAG
1 TAAATAAATAAC
22941778 TAAATAAATAAC
1 TAAATAAATAAC
* *
22941790 TTAATAAATAAAA
1 TAAATAAAT-AAC
*
22941803 TAAACAAAATAA-
1 TAAA-TAAATAAC
* * *
22941815 TACATTAATTAAT
1 TA-AATAAATAAC
*
22941828 TAAAATAAATAAA
1 T-AAATAAATAAC
22941841 TAAATAAATAAC
1 TAAATAAATAAC
* *
22941853 TAACTAAATAAT
1 TAAATAAATAAC
* *
22941865 TAACTAAATAAA
1 TAAATAAATAAC
*
22941877 TAAACAAATATA-
1 TAAATAAATA-AC
*
22941889 TAAATAATTAAC
1 TAAATAAATAAC
*
22941901 T-AAT-TA-AAC
1 TAAATAAATAAC
* *
22941910 AAAATCAATAAC
1 TAAATAAATAAC
22941922 TAAATAAATA
1 TAAATAAATA
22941932 TATTTATATA
Statistics
Matches: 150, Mismatches: 30, Indels: 32
0.71 0.14 0.15
Matches are distributed among these distances:
9 3 0.02
10 3 0.02
11 5 0.03
12 101 0.67
13 18 0.12
14 8 0.05
15 4 0.03
16 2 0.01
18 6 0.04
ACGTcount: A:0.63, C:0.06, G:0.02, T:0.28
Consensus pattern (12 bp):
TAAATAAATAAC
Found at i:22941756 original size:30 final size:30
Alignment explanation
Indices: 22941699--22941908 Score: 108
Period size: 30 Copynumber: 6.9 Consensus size: 30
22941689 TCATTCATAC
22941699 AATAACTAAATAAAATTTAACTAAGTAAATA
1 AATAACTAAAT-AAATTTAACTAAGTAAATA
*
22941730 AATAACTAAATAAATTTTACGT-AGTAAATA
1 AATAACTAAATAAATTTAAC-TAAGTAAATA
* * * *
22941760 AATAAGTAAGTAAA--TAAGTAAATAAATA
1 AATAACTAAATAAATTTAACTAAGTAAATA
* * * * *
22941788 ACTTAA-TAAATAAAATAAACAAAAT-AATA
1 A-ATAACTAAATAAATTTAACTAAGTAAATA
* * * * * *
22941817 CATTAATTAATTAAA-ATAAATAAATAAATA
1 -AATAACTAAATAAATTTAACTAAGTAAATA
* *
22941847 AATAACTAACTAAATAATTAACTAAATAAATA
1 AATAACTAAATAAAT--TTAACTAAGTAAATA
* * * *
22941879 AACAAATATATAAATAATTAACTAATTAAA
1 AATAACTAAATAAAT--TTAACTAAGTAAA
22941909 CAAAATCAAT
Statistics
Matches: 142, Mismatches: 26, Indels: 21
0.75 0.14 0.11
Matches are distributed among these distances:
27 1 0.01
28 17 0.12
29 28 0.20
30 46 0.32
31 12 0.08
32 38 0.27
ACGTcount: A:0.62, C:0.06, G:0.03, T:0.29
Consensus pattern (30 bp):
AATAACTAAATAAATTTAACTAAGTAAATA
Found at i:22941761 original size:4 final size:4
Alignment explanation
Indices: 22941754--22941956 Score: 120
Period size: 4 Copynumber: 49.2 Consensus size: 4
22941744 TTTTACGTAG
* * * * *
22941754 TAAA TAAA TAAG TAAG TAAA TAAG TAAA TAAA TAAC TTAA TAAA TAAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA T-AAA
* * * * *
22941803 TAAA CAAA -ATAA TACAT TAAT TAAT TAAAA TAAA TAAA TAAA TAAA TAAC
1 TAAA TAAA TA-AA TA-AA TAAA TAAA T-AAA TAAA TAAA TAAA TAAA TAAA
* * * * * * *
22941853 TAAC TAAA TAAT TAAC TAAA TAAA TAAA CAAA TATA TAAA TAAT TAAC
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
* * * * * * *
22941901 TAAT TAAA CAAAA TCAA TAAC TAAA TAAA TATATT TATA TAAA TATA TAAA
1 TAAA TAAA -TAAA TAAA TAAA TAAA TAAA TA-A-A TAAA TAAA TAAA TAAA
22941952 TAAA T
1 TAAA T
22941957 TCATCCAGCT
Statistics
Matches: 155, Mismatches: 37, Indels: 14
0.75 0.18 0.07
Matches are distributed among these distances:
3 1 0.01
4 137 0.88
5 15 0.10
6 2 0.01
ACGTcount: A:0.64, C:0.05, G:0.01, T:0.30
Consensus pattern (4 bp):
TAAA
Found at i:22941841 original size:29 final size:28
Alignment explanation
Indices: 22941771--22941843 Score: 76
Period size: 29 Copynumber: 2.5 Consensus size: 28
22941761 ATAAGTAAGT
*
22941771 AAATAAGTAAATAAATAACTTAATAAATA
1 AAATAAATAAAT-AATAACTTAATAAATA
* *
22941800 AAATAAACAAAATAAT-ACATTAATTAATTA
1 AAATAAA-TAAATAATAAC-TTAA-TAAATA
22941830 AAATAAATAAATAA
1 AAATAAATAAATAA
22941844 ATAAATAACT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
28 2 0.05
29 19 0.51
30 16 0.43
ACGTcount: A:0.67, C:0.04, G:0.01, T:0.27
Consensus pattern (28 bp):
AAATAAATAAATAATAACTTAATAAATA
Found at i:22942028 original size:29 final size:29
Alignment explanation
Indices: 22941996--22942051 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
22941986 ACGGTCTATT
22941996 CCCCTAAATATTTTTAAAACCGACATAAG
1 CCCCTAAATATTTTTAAAACCGACATAAG
22942025 CCCCTAAATATTTTTAAAACCGACATA
1 CCCCTAAATATTTTTAAAACCGACATA
22942052 TTTGTCTGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.41, C:0.25, G:0.05, T:0.29
Consensus pattern (29 bp):
CCCCTAAATATTTTTAAAACCGACATAAG
Found at i:22950340 original size:75 final size:75
Alignment explanation
Indices: 22950215--22950355 Score: 194
Period size: 75 Copynumber: 1.9 Consensus size: 75
22950205 TCAGACCTAA
* * *
22950215 AAGTGTTGGTCTCGCAAGTGATGGTTCACCAAAATTAAACAAGCTAGGGTTCGCCAATAGAATAA
1 AAGTGTTGGCCTCGCAAGTGAGGGTTCACCAAAATTAAACAAGCTAGGGTTCACCAATAGAATAA
22950280 TCGGACCTGC
66 TCGGACCTGC
* ** * *
22950290 AAGTGTTGGCCTCGCAAGTGAGGGTTCACCAAGATTAGGCGA-CTGGGGGTTCACCAATAGAATA
1 AAGTGTTGGCCTCGCAAGTGAGGGTTCACCAAAATTAAACAAGCT-AGGGTTCACCAATAGAATA
22950354 AT
65 AT
22950356 ACCAAGAAGT
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
74 2 0.04
75 55 0.96
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.23
Consensus pattern (75 bp):
AAGTGTTGGCCTCGCAAGTGAGGGTTCACCAAAATTAAACAAGCTAGGGTTCACCAATAGAATAA
TCGGACCTGC
Found at i:22950462 original size:27 final size:26
Alignment explanation
Indices: 22950432--22950499 Score: 84
Period size: 27 Copynumber: 2.6 Consensus size: 26
22950422 TAACGAGCTA
22950432 GGGTTCACCAGGT-AAGTTGCAAACTAG
1 GGGTTCACCA-GTCAAGTTGCAAACT-G
*
22950459 GGGTTCACTAGTCAAGTTGCAAACTG
1 GGGTTCACCAGTCAAGTTGCAAACTG
* *
22950485 GGGTTCGCTAGTCAA
1 GGGTTCACCAGTCAA
22950500 AGATTAAGTC
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
26 17 0.45
27 21 0.55
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.25
Consensus pattern (26 bp):
GGGTTCACCAGTCAAGTTGCAAACTG
Found at i:22951079 original size:13 final size:13
Alignment explanation
Indices: 22951049--22951092 Score: 61
Period size: 13 Copynumber: 3.3 Consensus size: 13
22951039 TAATACTCTA
22951049 TTTTCAAGCTTATG
1 TTTTCAAG-TTATG
*
22951063 TTTTCAAGTTGTG
1 TTTTCAAGTTATG
*
22951076 TTTTAAAGTTATG
1 TTTTCAAGTTATG
22951089 TTTT
1 TTTT
22951093 ATGCGAGCTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
13 19 0.70
14 8 0.30
ACGTcount: A:0.20, C:0.07, G:0.16, T:0.57
Consensus pattern (13 bp):
TTTTCAAGTTATG
Found at i:22953361 original size:17 final size:17
Alignment explanation
Indices: 22953332--22953390 Score: 84
Period size: 17 Copynumber: 3.4 Consensus size: 17
22953322 CCCAATTTGC
22953332 ATTTCAAATTTATTTTAA
1 ATTT-AAATTTATTTTAA
*
22953350 GTTTACAA-TTATTTTAA
1 ATTTA-AATTTATTTTAA
22953367 ATTTAAATTTATTTTAA
1 ATTTAAATTTATTTTAA
22953384 ATTTAAA
1 ATTTAAA
22953391 AATTTAAAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
16 2 0.05
17 30 0.81
18 5 0.14
ACGTcount: A:0.41, C:0.03, G:0.02, T:0.54
Consensus pattern (17 bp):
ATTTAAATTTATTTTAA
Found at i:22954076 original size:3 final size:3
Alignment explanation
Indices: 22954062--22954111 Score: 57
Period size: 3 Copynumber: 16.3 Consensus size: 3
22954052 GGTAGTAAGT
* *
22954062 ATA ATA ATTA ATA ATA ATTA ATA ATA ATA TTA ATA ATA A-A ATA TTA
1 ATA ATA A-TA ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA
22954108 ATA A
1 ATA A
22954112 AAAAGGAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
2 2 0.05
3 32 0.80
4 6 0.15
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
ATA
Found at i:22954077 original size:10 final size:10
Alignment explanation
Indices: 22954062--22954111 Score: 63
Period size: 10 Copynumber: 5.4 Consensus size: 10
22954052 GGTAGTAAGT
22954062 ATAATAATTA
1 ATAATAATTA
22954072 ATAATAATTA
1 ATAATAATTA
22954082 ATAATAA-TA
1 ATAATAATTA
*
22954091 TTAATAA-TA
1 ATAATAATTA
22954100 A-AAT-ATTA
1 ATAATAATTA
22954108 ATAA
1 ATAA
22954112 AAAAGGAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
7 1 0.03
8 6 0.17
9 12 0.33
10 17 0.47
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
ATAATAATTA
Found at i:22955442 original size:22 final size:23
Alignment explanation
Indices: 22955417--22955465 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
22955407 TTATATTTAG
22955417 TTTTA-ATTATCATT-ATTTTGTA
1 TTTTATATTAT-ATTAATTTTGTA
* *
22955439 TTTTATATTCTATTAATTTTTTA
1 TTTTATATTATATTAATTTTGTA
22955462 TTTT
1 TTTT
22955466 TGTGTATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 8 0.35
23 15 0.65
ACGTcount: A:0.24, C:0.04, G:0.02, T:0.69
Consensus pattern (23 bp):
TTTTATATTATATTAATTTTGTA
Found at i:22960797 original size:30 final size:29
Alignment explanation
Indices: 22960756--22960947 Score: 153
Period size: 30 Copynumber: 6.5 Consensus size: 29
22960746 TACTTTATTT
22960756 AAAAA-TACATTTTAACCCCTTAACTTCTC
1 AAAAATTACATTTTAA-CCCTTAACTTCTC
* *
22960785 AAAAATTACATTTTCAACCC-AAAC-TCTAT
1 AAAAATTACATTTT-AACCCTTAACTTCT-C
*
22960814 AAAAATTACATTTTAACCCTTAAACTTAGT-
1 AAAAATTACATTTTAACCCTT-AACTT-CTC
* *
22960844 AAAAATTACATTTTAACCCTCGAACTTCAC
1 AAAAATTACATTTTAACCCT-TAACTTCTC
* * *
22960874 AAAAATCATATTTTGACCCTTGAACTT-TCC
1 AAAAATTACATTTTAACCCTT-AACTTCT-C
* * *
22960904 AAAAATTACTATTTTACCCCCTAACATC-C
1 AAAAATTAC-ATTTTAACCCTTAACTTCTC
22960933 AAAAATTACCATTTT
1 AAAAATTA-CATTTT
22960948 CCCCTCAAAT
Statistics
Matches: 131, Mismatches: 18, Indels: 28
0.74 0.10 0.16
Matches are distributed among these distances:
28 8 0.06
29 36 0.27
30 74 0.56
31 12 0.09
32 1 0.01
ACGTcount: A:0.40, C:0.24, G:0.02, T:0.34
Consensus pattern (29 bp):
AAAAATTACATTTTAACCCTTAACTTCTC
Found at i:22960947 original size:60 final size:60
Alignment explanation
Indices: 22960756--22960980 Score: 173
Period size: 60 Copynumber: 3.8 Consensus size: 60
22960746 TACTTTATTT
* *
22960756 AAAAA-TACATTTTAACCCCTT-AACTT-CTCAAAAATTACATTTTCAA--CCCAAAC-TCTAT
1 AAAAATTACATTTTAA-CCCTTAAACTTAC-CAAAAATTACATTTT-AACCCCCGAACATC-AC
** * *
22960814 AAAAATTACATTTTAACCCTTAAACTTAGTAAAAATTACATTTTAACCCTCGAACTTCAC
1 AAAAATTACATTTTAACCCTTAAACTTACCAAAAATTACATTTTAACCCCCGAACATCAC
* * * * * *
22960874 AAAAATCATATTTTGACCCTTGAACTTTCCAAAAATTACTATTTT-ACCCCCTAACATC-C
1 AAAAATTACATTTTAACCCTTAAACTTACCAAAAATTAC-ATTTTAACCCCCGAACATCAC
* * * *
22960933 AAAAATTACCATTTT-CCCCTCAAA-TTTCCAAAAATCACATTTTTAACC
1 AAAAATTA-CATTTTAACCCTTAAACTTACCAAAAATTACA-TTTTAACC
22960981 TCAAATTTTC
Statistics
Matches: 136, Mismatches: 21, Indels: 19
0.77 0.12 0.11
Matches are distributed among these distances:
57 1 0.01
58 29 0.21
59 46 0.34
60 53 0.39
61 7 0.05
ACGTcount: A:0.40, C:0.25, G:0.02, T:0.33
Consensus pattern (60 bp):
AAAAATTACATTTTAACCCTTAAACTTACCAAAAATTACATTTTAACCCCCGAACATCAC
Found at i:22960962 original size:29 final size:29
Alignment explanation
Indices: 22960899--22960995 Score: 90
Period size: 29 Copynumber: 3.3 Consensus size: 29
22960889 ACCCTTGAAC
* *
22960899 TTTCCAAAAATTACTATTTTACCCC-CTAA
1 TTTCCAAAAATTACCATTTT-CCCCTCAAA
**
22960928 CATCCAAAAATTACCATTTTCCCCTCAAA
1 TTTCCAAAAATTACCATTTTCCCCTCAAA
* **
22960957 TTTCCAAAAATCA-CATTTTTAACCTCAAA
1 TTTCCAAAAATTACCA-TTTTCCCCTCAAA
22960986 TTTTCCAAAA
1 -TTTCCAAAA
22960996 GTTCAATTTT
Statistics
Matches: 56, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
28 6 0.11
29 41 0.73
30 9 0.16
ACGTcount: A:0.38, C:0.28, G:0.00, T:0.34
Consensus pattern (29 bp):
TTTCCAAAAATTACCATTTTCCCCTCAAA
Found at i:22960993 original size:30 final size:29
Alignment explanation
Indices: 22960950--22961035 Score: 88
Period size: 29 Copynumber: 2.9 Consensus size: 29
22960940 ACCATTTTCC
22960950 CCTCAAA-TTTCCAAAAATCACATTTTTAA-
1 CCTCAAATTTTCCAAAAATCA-A-TTTTAAT
*
22960979 CCTCAAATTTTCCAAAAGTTCAATTTTAAT
1 CCTCAAATTTTCCAAAA-ATCAATTTTAAT
*
22961009 CCT-AATTTTTCCAAAAATTTCAATTTT
1 CCTCAAATTTTCCAAAAA--TCAATTTT
22961036 GATCGCCAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
29 25 0.51
30 21 0.43
31 3 0.06
ACGTcount: A:0.37, C:0.21, G:0.01, T:0.41
Consensus pattern (29 bp):
CCTCAAATTTTCCAAAAATCAATTTTAAT
Found at i:22961005 original size:29 final size:29
Alignment explanation
Indices: 22960950--22961035 Score: 88
Period size: 30 Copynumber: 2.9 Consensus size: 29
22960940 ACCATTTTCC
*
22960950 CCTCAAA-TTTCCAAAAATCACATTTTTAA-
1 CCTCAAATTTTCCAAAATTCA-A-TTTTAAT
22960979 CCTCAAATTTTCCAAAAGTTCAATTTTAAT
1 CCTCAAATTTTCCAAAA-TTCAATTTTAAT
*
22961009 CCT-AATTTTTCCAAAAATTTCAATTTT
1 CCTCAAATTTTCC-AAAA-TTCAATTTT
22961036 GATCGCCAAA
Statistics
Matches: 50, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
29 21 0.42
30 26 0.52
31 3 0.06
ACGTcount: A:0.37, C:0.21, G:0.01, T:0.41
Consensus pattern (29 bp):
CCTCAAATTTTCCAAAATTCAATTTTAAT
Found at i:22963242 original size:79 final size:79
Alignment explanation
Indices: 22963111--22963268 Score: 307
Period size: 79 Copynumber: 2.0 Consensus size: 79
22963101 ACATAATCGT
22963111 AATGATCCATCTTTCTTTTTGACAAAAAGTACTGGTGCACCCCAAGGAGAGAAACTAGGTCTCAC
1 AATGATCCATCTTTCTTTTTGACAAAAAGTACTGGTGCACCCCAAGGAGAGAAACTAGGTCTCAC
22963176 AAACCCTCTATCTG
66 AAACCCTCTATCTG
*
22963190 AATGATCCATCTTTCTTTTTGACAAAAAGTACTGGTGCACCCCAAGGAGAGAAACTAGGTCTCGC
1 AATGATCCATCTTTCTTTTTGACAAAAAGTACTGGTGCACCCCAAGGAGAGAAACTAGGTCTCAC
22963255 AAACCCTCTATCTG
66 AAACCCTCTATCTG
22963269 TTAATTCTTG
Statistics
Matches: 78, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
79 78 1.00
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (79 bp):
AATGATCCATCTTTCTTTTTGACAAAAAGTACTGGTGCACCCCAAGGAGAGAAACTAGGTCTCAC
AAACCCTCTATCTG
Found at i:22966743 original size:5 final size:5
Alignment explanation
Indices: 22966733--22966774 Score: 59
Period size: 5 Copynumber: 8.4 Consensus size: 5
22966723 TATATATCTC
*
22966733 TTCTT TTCTT TTCTT TTCTT TTCTT CTCTT TT-TT TCTCTT TT
1 TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT T-TCTT TT
22966775 TTTATAAATA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
4 3 0.09
5 27 0.82
6 3 0.09
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (5 bp):
TTCTT
Found at i:22966775 original size:10 final size:10
Alignment explanation
Indices: 22966729--22966777 Score: 57
Period size: 10 Copynumber: 5.1 Consensus size: 10
22966719 TATATATATA
*
22966729 TCTCTTCTTT
1 TCTCTTTTTT
*
22966739 TCT-TTTCTT
1 TCTCTTTTTT
*
22966748 T-TCTTTTCT
1 TCTCTTTTTT
22966757 TCTCTTTTTT
1 TCTCTTTTTT
22966767 TCTCTTTTTT
1 TCTCTTTTTT
22966777 T
1 T
22966778 ATAAATAAGG
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
8 1 0.03
9 10 0.31
10 21 0.66
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (10 bp):
TCTCTTTTTT
Found at i:22973048 original size:20 final size:21
Alignment explanation
Indices: 22973019--22973063 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
22973009 TTGTGTCTAA
22973019 AAAAATTATA-AAAAAATGAAG
1 AAAAATTATAGAAAAAA-GAAG
22973040 AAAAA-TATAGAAAAAAGAAG
1 AAAAATTATAGAAAAAAGAAG
22973060 AAAA
1 AAAA
22973064 GGAAAAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.76, C:0.00, G:0.11, T:0.13
Consensus pattern (21 bp):
AAAAATTATAGAAAAAAGAAG
Found at i:22984434 original size:26 final size:28
Alignment explanation
Indices: 22984403--22984474 Score: 89
Period size: 27 Copynumber: 2.7 Consensus size: 28
22984393 CTTACTAAAT
22984403 ATTCACCGGCTCAAGGCCTT-C-TATAC
1 ATTCACCGGCTCAAGGCCTTGCATATAC
*
22984429 ATTCACCGGCTCAAGG--TTGCTATATAT
1 ATTCACCGGCTCAAGGCCTTGC-ATATAC
*
22984456 ATTCACCAGCTCAAGGCCT
1 ATTCACCGGCTCAAGGCCT
22984475 GCTCATTTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
24 2 0.05
25 1 0.03
26 16 0.41
27 19 0.49
29 1 0.03
ACGTcount: A:0.25, C:0.31, G:0.17, T:0.28
Consensus pattern (28 bp):
ATTCACCGGCTCAAGGCCTTGCATATAC
Found at i:22987342 original size:3 final size:3
Alignment explanation
Indices: 22987334--22987366 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
22987324 TACATCCCAA
22987334 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA- AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
22987367 GAATAGAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:22988513 original size:15 final size:15
Alignment explanation
Indices: 22988493--22988522 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
22988483 TGGTTCATTT
22988493 GGTTTGGTTCAAATG
1 GGTTTGGTTCAAATG
*
22988508 GGTTTGGTTTAAATG
1 GGTTTGGTTCAAATG
22988523 AATTTGGGTT
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:0.20, C:0.03, G:0.33, T:0.43
Consensus pattern (15 bp):
GGTTTGGTTCAAATG
Found at i:22988532 original size:21 final size:22
Alignment explanation
Indices: 22988506--22988552 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
22988496 TTGGTTCAAA
22988506 TGGGTTTGGTTTAAAT-GAATT
1 TGGGTTTGGTTTAAATAGAATT
*
22988527 TGGGTTTGGTTTAAATAGGATT
1 TGGGTTTGGTTTAAATAGAATT
22988549 TGGG
1 TGGG
22988553 CTTAATGGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 16 0.67
22 8 0.33
ACGTcount: A:0.21, C:0.00, G:0.34, T:0.45
Consensus pattern (22 bp):
TGGGTTTGGTTTAAATAGAATT
Found at i:22988956 original size:11 final size:11
Alignment explanation
Indices: 22988923--22988997 Score: 62
Period size: 11 Copynumber: 6.5 Consensus size: 11
22988913 AAGTGTGATT
*
22988923 AAAAGAGGAAG
1 AAAAGAGAAAG
*
22988934 AAAATAGAAAAG
1 AAAAGAG-AAAG
22988946 AAAAGAGAAAG
1 AAAAGAGAAAG
22988957 AAATA-AGAAATG
1 AAA-AGAGAAA-G
* *
22988969 AATGAGAAAAAG
1 AA-AAGAGAAAG
22988981 AAAAGAGAAAG
1 AAAAGAGAAAG
*
22988992 GAAAGA
1 AAAAGA
22988998 TGAGAGGCTT
Statistics
Matches: 51, Mismatches: 8, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
11 30 0.59
12 17 0.33
13 4 0.08
ACGTcount: A:0.69, C:0.00, G:0.25, T:0.05
Consensus pattern (11 bp):
AAAAGAGAAAG
Found at i:22988965 original size:23 final size:23
Alignment explanation
Indices: 22988923--22988995 Score: 67
Period size: 23 Copynumber: 3.1 Consensus size: 23
22988913 AAGTGTGATT
*
22988923 AAAAGAGGAAGAAAATAGAAAAG
1 AAAAGAGAAAGAAAATAGAAAAG
*
22988946 AAAAGAGAAAG-AAATAAGAAATG
1 AAAAGAGAAAGAAAAT-AGAAAAG
* * * *
22988969 AATGAGAAAAAGAAAAGAGAAAGG
1 AA-AAGAGAAAGAAAATAGAAAAG
22988993 AAA
1 AAA
22988996 GATGAGAGGC
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
22 4 0.10
23 18 0.45
24 15 0.38
25 3 0.08
ACGTcount: A:0.70, C:0.00, G:0.25, T:0.05
Consensus pattern (23 bp):
AAAAGAGAAAGAAAATAGAAAAG
Found at i:22999898 original size:28 final size:28
Alignment explanation
Indices: 22999854--22999907 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
22999844 GATATCCGAT
*
22999854 TTACTCCCTATTGACCCAAAGGTCATGC
1 TTACTCCCTATTAACCCAAAGGTCATGC
*
22999882 TTACTCCCTGTTAACCCAAAGGTCAT
1 TTACTCCCTATTAACCCAAAGGTCAT
22999908 ACCTGTTACC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.26, C:0.31, G:0.13, T:0.30
Consensus pattern (28 bp):
TTACTCCCTATTAACCCAAAGGTCATGC
Found at i:23004934 original size:27 final size:26
Alignment explanation
Indices: 23004904--23005028 Score: 157
Period size: 27 Copynumber: 4.7 Consensus size: 26
23004894 CCTCTCCCCA
23004904 TTTCCCTTCTCCCTTTCTCCTTTCTCC
1 TTTCCCTT-TCCCTTTCTCCTTTCTCC
*
23004931 TTTCCCTTCCCCCTTTCTCCTTTCTCC
1 TTTCCCTT-TCCCTTTCTCCTTTCTCC
23004958 TTTCTCCTTTCTCCTTTCTCCTTTC-CC
1 TTTC-CCTTTC-CCTTTCTCCTTTCTCC
*
23004985 TTTCCCTTTCCCTTTC-CC-TTCCCTC
1 TTTCCCTTTCCCTTTCTCCTTTCTC-C
23005010 TTTCTCCTTTCCCTTTCTC
1 TTTC-CCTTTCCCTTTCTC
23005029 GTTTTCAATT
Statistics
Matches: 90, Mismatches: 2, Indels: 12
0.87 0.02 0.12
Matches are distributed among these distances:
23 3 0.03
24 3 0.03
25 11 0.12
26 18 0.20
27 38 0.42
28 17 0.19
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (26 bp):
TTTCCCTTTCCCTTTCTCCTTTCTCC
Found at i:23005008 original size:5 final size:6
Alignment explanation
Indices: 23004904--23005026 Score: 129
Period size: 7 Copynumber: 18.7 Consensus size: 6
23004894 CCTCTCCCCA
*
23004904 TTTCCC TTCTCCC TTTCTCC TTTCTCC TTTCCC TTCCCCC TTTCTCC TTTCTCC
1 TTTCCC TT-TCCC TTTC-CC TTTC-CC TTTCCC TT-TCCC TTTC-CC TTTC-CC
*
23004958 TTTCTCC TTTCTCC TTTCTCC TTTCCC TTTCCC TTTCCC TTTCCC TTCCCTC
1 TTTC-CC TTTC-CC TTTC-CC TTTCCC TTTCCC TTTCCC TTTCCC TTTCC-C
23005010 TTTCTCC TTTCCC TTTC
1 TTTC-CC TTTCCC TTTC
23005027 TCGTTTTCAA
Statistics
Matches: 107, Mismatches: 4, Indels: 12
0.87 0.03 0.10
Matches are distributed among these distances:
6 39 0.36
7 67 0.63
8 1 0.01
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (6 bp):
TTTCCC
Found at i:23005034 original size:14 final size:13
Alignment explanation
Indices: 23004904--23005028 Score: 150
Period size: 14 Copynumber: 9.5 Consensus size: 13
23004894 CCTCTCCCCA
23004904 TTTC-CCTTCTCCC
1 TTTCTCCTT-TCCC
23004917 TTTCTCCTTTCTCC
1 TTTCTCCTTTC-CC
*
23004931 TTTC-CCTTCCCCC
1 TTTCTCCTT-TCCC
23004944 TTTCTCCTTTCTCC
1 TTTCTCCTTTC-CC
23004958 TTTCTCCTTTCTCC
1 TTTCTCCTTTC-CC
23004972 TTTCTCCTTTCCC
1 TTTCTCCTTTCCC
23004985 TTTC-CCTTTCCC
1 TTTCTCCTTTCCC
*
23004997 TTTC-CCTTCCCTC
1 TTTCTCCTTTCC-C
23005010 TTTCTCCTTTCCC
1 TTTCTCCTTTCCC
23005023 TTTCTC
1 TTTCTC
23005029 GTTTTCAATT
Statistics
Matches: 101, Mismatches: 4, Indels: 14
0.85 0.03 0.12
Matches are distributed among these distances:
12 18 0.18
13 35 0.35
14 48 0.48
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (13 bp):
TTTCTCCTTTCCC
Found at i:23013726 original size:18 final size:19
Alignment explanation
Indices: 23013703--23013741 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
23013693 TTTGTTTTTT
23013703 TTATT-AATTTACAATT-TA
1 TTATTAAATTTA-AATTGTA
23013721 TTATTAAATTTAAATTGTA
1 TTATTAAATTTAAATTGTA
23013740 TT
1 TT
23013742 TATATTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (19 bp):
TTATTAAATTTAAATTGTA
Found at i:23017205 original size:18 final size:19
Alignment explanation
Indices: 23017182--23017217 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
23017172 AAATTAAATC
23017182 ACATAATTAGAT-CATTTA
1 ACATAATTAGATCCATTTA
*
23017200 ACATAATTTGATCCATTT
1 ACATAATTAGATCCATTT
23017218 TGGGAAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.39, C:0.14, G:0.06, T:0.42
Consensus pattern (19 bp):
ACATAATTAGATCCATTTA
Found at i:23020238 original size:18 final size:18
Alignment explanation
Indices: 23020212--23020267 Score: 69
Period size: 18 Copynumber: 3.1 Consensus size: 18
23020202 GCAGGTACAT
*
23020212 CATGATCAGATGCAGTCA
1 CATGCTCAGATGCAGTCA
*
23020230 CATGCTCAGATGCAATCA
1 CATGCTCAGATGCAGTCA
*
23020248 CATGCTC-GTATGCAGCCA
1 CATGCTCAG-ATGCAGTCA
23020266 CA
1 CA
23020268 ACAGACTGTA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
17 1 0.03
18 32 0.97
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (18 bp):
CATGCTCAGATGCAGTCA
Found at i:23027798 original size:306 final size:306
Alignment explanation
Indices: 23027245--23027859 Score: 1230
Period size: 306 Copynumber: 2.0 Consensus size: 306
23027235 AAGACACTCC
23027245 AATGTGAGTACATTGTGACTTATCAAAGGGGAACACTTAAATGCAAGTGTTTGAAAAAATATATA
1 AATGTGAGTACATTGTGACTTATCAAAGGGGAACACTTAAATGCAAGTGTTTGAAAAAATATATA
23027310 GCCAGAGGCTGTCACTGCAAGAGTGTGTGTCGGTGCAATTACATACTTCCTTGGGGATTGTTGCA
66 GCCAGAGGCTGTCACTGCAAGAGTGTGTGTCGGTGCAATTACATACTTCCTTGGGGATTGTTGCA
23027375 CCCCATCGTTACTTCCCAGGAACAAGGGTATAGTAATGCAATGACATCCCTCAGTCGCATAAAAG
131 CCCCATCGTTACTTCCCAGGAACAAGGGTATAGTAATGCAATGACATCCCTCAGTCGCATAAAAG
23027440 AAAAGAAAAGAAAATATAGAATAATAAATGTTGTATTGGTCAAGAGGATTTAAGATTTAAAGCAT
196 AAAAGAAAAGAAAATATAGAATAATAAATGTTGTATTGGTCAAGAGGATTTAAGATTTAAAGCAT
23027505 GATGCTAGCATTAGTGAAGTTGCAGTTTTGATTAATCATACCATTA
261 GATGCTAGCATTAGTGAAGTTGCAGTTTTGATTAATCATACCATTA
23027551 AATGTGAGTACATTGTGACTTATCAAAGGGGAACACTTAAATGCAAGTGTTTGAAAAAATATATA
1 AATGTGAGTACATTGTGACTTATCAAAGGGGAACACTTAAATGCAAGTGTTTGAAAAAATATATA
23027616 GCCAGAGGCTGTCACTGCAAGAGTGTGTGTCGGTGCAATTACATACTTCCTTGGGGATTGTTGCA
66 GCCAGAGGCTGTCACTGCAAGAGTGTGTGTCGGTGCAATTACATACTTCCTTGGGGATTGTTGCA
23027681 CCCCATCGTTACTTCCCAGGAACAAGGGTATAGTAATGCAATGACATCCCTCAGTCGCATAAAAG
131 CCCCATCGTTACTTCCCAGGAACAAGGGTATAGTAATGCAATGACATCCCTCAGTCGCATAAAAG
23027746 AAAAGAAAAGAAAATATAGAATAATAAATGTTGTATTGGTCAAGAGGATTTAAGATTTAAAGCAT
196 AAAAGAAAAGAAAATATAGAATAATAAATGTTGTATTGGTCAAGAGGATTTAAGATTTAAAGCAT
23027811 GATGCTAGCATTAGTGAAGTTGCAGTTTTGATTAATCATACCATTA
261 GATGCTAGCATTAGTGAAGTTGCAGTTTTGATTAATCATACCATTA
23027857 AAT
1 AAT
23027860 TGTCGGCACA
Statistics
Matches: 309, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
306 309 1.00
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.28
Consensus pattern (306 bp):
AATGTGAGTACATTGTGACTTATCAAAGGGGAACACTTAAATGCAAGTGTTTGAAAAAATATATA
GCCAGAGGCTGTCACTGCAAGAGTGTGTGTCGGTGCAATTACATACTTCCTTGGGGATTGTTGCA
CCCCATCGTTACTTCCCAGGAACAAGGGTATAGTAATGCAATGACATCCCTCAGTCGCATAAAAG
AAAAGAAAAGAAAATATAGAATAATAAATGTTGTATTGGTCAAGAGGATTTAAGATTTAAAGCAT
GATGCTAGCATTAGTGAAGTTGCAGTTTTGATTAATCATACCATTA
Found at i:23033730 original size:18 final size:19
Alignment explanation
Indices: 23033707--23033745 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
23033697 TTTGTTTTTT
23033707 TTATT-AATTTACAATT-TA
1 TTATTAAATTTA-AATTGTA
23033725 TTATTAAATTTAAATTGTA
1 TTATTAAATTTAAATTGTA
23033744 TT
1 TT
23033746 TATATTTGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (19 bp):
TTATTAAATTTAAATTGTA
Found at i:23039589 original size:22 final size:22
Alignment explanation
Indices: 23039561--23039641 Score: 117
Period size: 22 Copynumber: 3.7 Consensus size: 22
23039551 GAATGTAATA
* *
23039561 TGCCAATATAATTGATTGGTTG
1 TGCCAATTTAATTGATTGATTG
*
23039583 TGCCAATTTAATTGATTGATTA
1 TGCCAATTTAATTGATTGATTG
23039605 TGCCAATTTAATTGATTGATTG
1 TGCCAATTTAATTGATTGATTG
**
23039627 CACCAATTTAATTGA
1 TGCCAATTTAATTGA
23039642 ATAATTTTTT
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 53 1.00
ACGTcount: A:0.31, C:0.11, G:0.16, T:0.42
Consensus pattern (22 bp):
TGCCAATTTAATTGATTGATTG
Found at i:23043205 original size:13 final size:13
Alignment explanation
Indices: 23043187--23043212 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
23043177 AAATAGAGAG
23043187 GAGAGAAAAGCTA
1 GAGAGAAAAGCTA
23043200 GAGAGAAAAGCTA
1 GAGAGAAAAGCTA
23043213 AATGTTTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.08, G:0.31, T:0.08
Consensus pattern (13 bp):
GAGAGAAAAGCTA
Found at i:23043429 original size:29 final size:30
Alignment explanation
Indices: 23043363--23043436 Score: 109
Period size: 29 Copynumber: 2.5 Consensus size: 30
23043353 GCAGAAAACT
*
23043363 GAATAATTTATTCAATTTAAAATCAGTCAA
1 GAATAATTTATTCAATTTAAAATCAATCAA
23043393 -AA-AGATTTATTCAATTTAAAATCAAT-AA
1 GAATA-ATTTATTCAATTTAAAATCAATCAA
23043421 GAATAATTTATTCAAT
1 GAATAATTTATTCAAT
23043437 CAATTAGGAT
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
28 3 0.08
29 36 0.90
30 1 0.03
ACGTcount: A:0.49, C:0.08, G:0.05, T:0.38
Consensus pattern (30 bp):
GAATAATTTATTCAATTTAAAATCAATCAA
Found at i:23044481 original size:5 final size:5
Alignment explanation
Indices: 23044473--23044505 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
23044463 GAAGAGAATG
23044473 AGAGA AGAGA AGAGA AGAGA AGAGA AGAGA AGA
1 AGAGA AGAGA AGAGA AGAGA AGAGA AGAGA AGA
23044506 AAGGTGAGGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.61, C:0.00, G:0.39, T:0.00
Consensus pattern (5 bp):
AGAGA
Found at i:23047462 original size:21 final size:22
Alignment explanation
Indices: 23047429--23047471 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
23047419 AAATGATATC
* *
23047429 TAGTCCTTTAAAC-TAAGTTTT
1 TAGTCATTAAAACGTAAGTTTT
23047450 TAGTCATTAAAACGTAAGTTTT
1 TAGTCATTAAAACGTAAGTTTT
23047472 GAATAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.44
Consensus pattern (22 bp):
TAGTCATTAAAACGTAAGTTTT
Found at i:23049298 original size:19 final size:19
Alignment explanation
Indices: 23049248--23049300 Score: 70
Period size: 19 Copynumber: 2.8 Consensus size: 19
23049238 ACTAAGTGAA
23049248 CCGAACCCGTTGACCCGAC
1 CCGAACCCGTTGACCCGAC
* *
23049267 CCAAACCCATTGACCCGAC
1 CCGAACCCGTTGACCCGAC
* *
23049286 CTGAACTCGTTGACC
1 CCGAACCCGTTGACC
23049301 ATTGACCGTT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.25, C:0.43, G:0.17, T:0.15
Consensus pattern (19 bp):
CCGAACCCGTTGACCCGAC
Found at i:23055948 original size:20 final size:21
Alignment explanation
Indices: 23055890--23055960 Score: 90
Period size: 21 Copynumber: 3.4 Consensus size: 21
23055880 ATCACGAGCC
*
23055890 AACCTAACCCAAACCCTTTTG
1 AACCAAACCCAAACCCTTTTG
* * *
23055911 AAACTAACCCAAACCCTTTGG
1 AACCAAACCCAAACCCTTTTG
23055932 AACCAAACCCAAA-CCTTTTG
1 AACCAAACCCAAACCCTTTTG
*
23055952 ACCCAAACC
1 AACCAAACC
23055961 AAGTGAACCG
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
20 14 0.32
21 30 0.68
ACGTcount: A:0.38, C:0.38, G:0.06, T:0.18
Consensus pattern (21 bp):
AACCAAACCCAAACCCTTTTG
Found at i:23055994 original size:19 final size:18
Alignment explanation
Indices: 23055966--23056001 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
23055956 AAACCAAGTG
*
23055966 AACCGAACCCGTTGACCC
1 AACCGAACCCATTGACCC
23055984 AACCTGAACCCATTGACC
1 AACC-GAACCCATTGACC
23056002 ATTGACCGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.31, C:0.42, G:0.14, T:0.14
Consensus pattern (18 bp):
AACCGAACCCATTGACCC
Found at i:23056019 original size:14 final size:14
Alignment explanation
Indices: 23055996--23056027 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
23055986 CCTGAACCCA
23055996 TTGACCATTGACCG
1 TTGACCATTGACCG
*
23056010 TTGACTATTGACCG
1 TTGACCATTGACCG
23056024 TTGA
1 TTGA
23056028 TTGTTAGCAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.34
Consensus pattern (14 bp):
TTGACCATTGACCG
Found at i:23057113 original size:6 final size:6
Alignment explanation
Indices: 23057098--23057130 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
23057088 TAATTATATA
23057098 TTTA-T TTTATT TTTATCT TTTATT TTTATT TTT
1 TTTATT TTTATT TTTAT-T TTTATT TTTATT TTT
23057131 GGGTTTTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 4 0.15
6 16 0.62
7 6 0.23
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTATT
Found at i:23057118 original size:13 final size:12
Alignment explanation
Indices: 23057098--23057130 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
23057088 TAATTATATA
23057098 TTTA-TTTTATT
1 TTTATTTTTATT
23057109 TTTATCTTTTATT
1 TTTAT-TTTTATT
23057122 TTTATTTTT
1 TTTATTTTT
23057131 GGGTTTTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 4 0.20
12 4 0.20
13 12 0.60
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (12 bp):
TTTATTTTTATT
Found at i:23064747 original size:9 final size:10
Alignment explanation
Indices: 23064720--23064746 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
23064710 ACTGAGTTAG
23064720 TTTTTTTTAT
1 TTTTTTTTAT
23064730 TTTTTTTTAT
1 TTTTTTTTAT
23064740 TTTTTTT
1 TTTTTTT
23064747 AGCATTTAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.07, C:0.00, G:0.00, T:0.93
Consensus pattern (10 bp):
TTTTTTTTAT
Found at i:23072165 original size:15 final size:16
Alignment explanation
Indices: 23072147--23072176 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
23072137 TTTTTTATTT
23072147 ACTTTTA-TTTTTTTC
1 ACTTTTACTTTTTTTC
23072162 ACTTTTACTTTTTTT
1 ACTTTTACTTTTTTT
23072177 GTTTCAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.73
Consensus pattern (16 bp):
ACTTTTACTTTTTTTC
Found at i:23072170 original size:21 final size:20
Alignment explanation
Indices: 23072144--23072182 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
23072134 ATATTTTTTA
*
23072144 TTTACTTTTATTTTTTTCACT
1 TTTACTTTT-TTTGTTTCACT
23072165 TTTACTTTTTTTGTTTCA
1 TTTACTTTTTTTGTTTCA
23072183 AATTCCTTGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.13, C:0.13, G:0.03, T:0.72
Consensus pattern (20 bp):
TTTACTTTTTTTGTTTCACT
Found at i:23075104 original size:16 final size:16
Alignment explanation
Indices: 23075066--23075113 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
23075056 TCAATCATTT
*
23075066 GAAAAAGAAACAAAATGA
1 GAAAAAGAAAGAAAA--A
*
23075084 GAAAAAGGAAGAAAAA
1 GAAAAAGAAAGAAAAA
23075100 GAAAAAGAAAGAAA
1 GAAAAAGAAAGAAA
23075114 TTTTTGATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
16 14 0.52
18 13 0.48
ACGTcount: A:0.75, C:0.02, G:0.21, T:0.02
Consensus pattern (16 bp):
GAAAAAGAAAGAAAAA
Found at i:23079845 original size:435 final size:434
Alignment explanation
Indices: 23079035--23080340 Score: 2018
Period size: 435 Copynumber: 3.0 Consensus size: 434
23079025 ACATTTTCAC
*
23079035 GGATCATAAAAGCTTAAAGTATTTGCTTACTCAGAGAGAACTTAATTTAAGACAACGTCGTTGGT
1 GGATCATAAAAGCTTAAAGTATTTGCTTACTCAGAGAGAGCTTAATTTAAGACAACGTCGTTGGT
* * * *
23079100 TGGAACTACTGAAGGACTACGACTGTGAGATTGAGTATCACCCTAGCAAGGCTAATATGATTGTC
66 TGGAACTACTGAAGGACTACGACTGTGAGATTGAGTATCACCCTGGCAAGGCTAATGTGGTTGCC
* * * * *
23079165 GAGGCCTTAAGTCGTAGTGTTGTAACTGAACTGAGGGTTTTATTTGCCAGAATGAGTTTGTTTGA
131 GACGCCTTAAGTCGTAGTGCTATGACTGAACTGAGGGCTTTATTTGCCAGAATGAGTTTGTTTGA
* * *
23079230 GGATGGCAGTCTTTTAGCTAAACTTCGAGTTATTCCCACTTTGCTCTCGGAGATTAAAGCGGAGC
196 GGAT-GCAGTCTTTTAGCTGAACTTCGAGTTATTCCCACTTTACTCTCGGAGATTAAGGCGGAGC
23079295 AGTTTAATGATCCGTATCTAGTGCACCGTATGAGAGAGGTGGAAGAAGGTACATCTGTGGACTTT
260 AGTTTAATGATCCGTATCTAGTGCACCGTATGAGAGAGGTGGAAGAAGGTACATCTGTGGACTTT
* * *
23079360 TCCACGGATAAAAATGGTATAATATGCTTCCAAGGTCGATATTGTGTTCTGAAGGATTCTGAAAT
325 TCCATGGATAAAAATGGTATAATATGCTTCCGAGGTCGATACTGTGTTCTGAAGGATTCTGAAAT
*
23079425 TAAACAGACTATTCTCCGTGAGACGCATGATAGCCCTTATTCCAT
390 TAAACAGACTATTCTCCGTGAGGCGCATGATAGCCCTTATTCCAT
*
23079470 GGATCATAAAAGCTTAAAGTATTTGCTTACTCAGAGAGAGCTTAATTTAAGACAACGTCATTGGT
1 GGATCATAAAAGCTTAAAGTATTTGCTTACTCAGAGAGAGCTTAATTTAAGACAACGTCGTTGGT
* *
23079535 TGGATCTACTGAAGGACTACGACTGTGAGATTGAGTATCACCCTGGCAAGGTTAATGTGGTTGCC
66 TGGAACTACTGAAGGACTACGACTGTGAGATTGAGTATCACCCTGGCAAGGCTAATGTGGTTGCC
* * * * * *
23079600 AACGCCTTAAGTCGTAGTACTATGACTGAATTGAGGGCTTTATTTTCTAGGATGAGTTTGTTTGA
131 GACGCCTTAAGTCGTAGTGCTATGACTGAACTGAGGGCTTTATTTGCCAGAATGAGTTTGTTTGA
* * ** *
23079665 GGATAGCAGTCTTTTAACTGAACTTCGAGTTATTCCTACTTTACTCTCGGAGATTAAGGTAGAGT
196 GGAT-GCAGTCTTTTAGCTGAACTTCGAGTTATTCCCACTTTACTCTCGGAGATTAAGGCGGAGC
* * *
23079730 AGTTTAATGATCCATATCTAGTGCATCATATGAGAGAGGTGGAAGAAGGTACATCTGTGGACTTT
260 AGTTTAATGATCCGTATCTAGTGCACCGTATGAGAGAGGTGGAAGAAGGTACATCTGTGGACTTT
* * * *
23079795 TTCATGGATAAAAATGGTATAATATGCTTCCGAGGTCGATACTATGTTCTGAAGGGTTCTGGAAT
325 TCCATGGATAAAAATGGTATAATATGCTTCCGAGGTCGATACTGTGTTCTGAAGGATTCTGAAAT
*
23079860 TAAACAGACTATTATCCGTGAGGCGCATGATAGCCCTTATTCCAT
390 TAAACAGACTATTCTCCGTGAGGCGCATGATAGCCCTTATTCCAT
* *
23079905 GCATCATAAAAGCTTAAAGTATTTGCTTACTTAGAGAGAGCTTAATTTAAGACAACGTCGTTGGT
1 GGATCATAAAAGCTTAAAGTATTTGCTTACTCAGAGAGAGCTTAATTTAAGACAACGTCGTTGGT
* * * * *
23079970 TGGAACTATTGAAGGACTACAACTGTGAGATTAAGCATCACCCTGGCAAGGCTAATGTGGTTGCT
66 TGGAACTACTGAAGGACTACGACTGTGAGATTGAGTATCACCCTGGCAAGGCTAATGTGGTTGCC
* * * * *
23080035 GACGCCTTAAGTAGTAATGCTATGATTGAACTGAGGGCTTTATTTGCCAGAATAAGTTTTTTTGA
131 GACGCCTTAAGTCGTAGTGCTATGACTGAACTGAGGGCTTTATTTGCCAGAATGAGTTTGTTTGA
* *
23080100 GTATGACAGTCTTTTAGCTGAACTTCGAGTTATTCCCACTTTACTCTCAGAGATTAAGGCGGAGC
196 GGATG-CAGTCTTTTAGCTGAACTTCGAGTTATTCCCACTTTACTCTCGGAGATTAAGGCGGAGC
* *
23080165 AGTTTAATGATCCGTATCTAGTGCACCGTATGAGAGAGGTGGAATAAGTTACATCTGTGGACTTT
260 AGTTTAATGATCCGTATCTAGTGCACCGTATGAGAGAGGTGGAAGAAGGTACATCTGTGGACTTT
** * * *
23080230 TCCATATATCAAAATGGTATAATATGCTTTCGAGGTCGATACTGTGTTCCGAAGGATTCTGAAAT
325 TCCATGGATAAAAATGGTATAATATGCTTCCGAGGTCGATACTGTGTTCTGAAGGATTCTGAAAT
** *
23080295 TAAACAGACTATTCTCTATGAGGCGCATGATTGCCCTTATTCCAT
390 TAAACAGACTATTCTCCGTGAGGCGCATGATAGCCCTTATTCCAT
23080340 G
1 G
23080341 CATCTTGGCG
Statistics
Matches: 784, Mismatches: 86, Indels: 2
0.90 0.10 0.00
Matches are distributed among these distances:
434 1 0.00
435 783 1.00
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (434 bp):
GGATCATAAAAGCTTAAAGTATTTGCTTACTCAGAGAGAGCTTAATTTAAGACAACGTCGTTGGT
TGGAACTACTGAAGGACTACGACTGTGAGATTGAGTATCACCCTGGCAAGGCTAATGTGGTTGCC
GACGCCTTAAGTCGTAGTGCTATGACTGAACTGAGGGCTTTATTTGCCAGAATGAGTTTGTTTGA
GGATGCAGTCTTTTAGCTGAACTTCGAGTTATTCCCACTTTACTCTCGGAGATTAAGGCGGAGCA
GTTTAATGATCCGTATCTAGTGCACCGTATGAGAGAGGTGGAAGAAGGTACATCTGTGGACTTTT
CCATGGATAAAAATGGTATAATATGCTTCCGAGGTCGATACTGTGTTCTGAAGGATTCTGAAATT
AAACAGACTATTCTCCGTGAGGCGCATGATAGCCCTTATTCCAT
Found at i:23082410 original size:7 final size:7
Alignment explanation
Indices: 23082398--23082431 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
23082388 CGACCTAAAT
23082398 CCGTTGA
1 CCGTTGA
23082405 CCGTTGA
1 CCGTTGA
**
23082412 CAATTGA
1 CCGTTGA
23082419 CCGTTGA
1 CCGTTGA
23082426 CCGTTG
1 CCGTTG
23082432 TACTGTGATA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.18, C:0.26, G:0.26, T:0.29
Consensus pattern (7 bp):
CCGTTGA
Found at i:23098992 original size:21 final size:21
Alignment explanation
Indices: 23098950--23098993 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
23098940 CTTTAGTTTT
*
23098950 CTTTTGAAAATCCACAGTTTG
1 CTTTTGAAAATCCACAGATTG
* *
23098971 CTTTTGAAAATCTATAGATTG
1 CTTTTGAAAATCCACAGATTG
23098992 CT
1 CT
23098994 GCTGAAATTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.41
Consensus pattern (21 bp):
CTTTTGAAAATCCACAGATTG
Found at i:23111459 original size:18 final size:18
Alignment explanation
Indices: 23111436--23111472 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
23111426 AAAAATATCT
23111436 TGGTAAATTATTTTCACA
1 TGGTAAATTATTTTCACA
23111454 TGGTAAATTATTTTCACA
1 TGGTAAATTATTTTCACA
23111472 T
1 T
23111473 AACATGGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (18 bp):
TGGTAAATTATTTTCACA
Found at i:23121436 original size:40 final size:40
Alignment explanation
Indices: 23121361--23121437 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
23121351 AATCTGCCTT
* * *
23121361 CTTCGTTGCAACATATCATGTCTATGTTGCAACAAACACC
1 CTTCGTCGCAACATATCATGTCTACGTCGCAACAAACACC
* *
23121401 CTTCGTCGCGACATATCATGTCTACGTCGCGACAAAC
1 CTTCGTCGCAACATATCATGTCTACGTCGCAACAAAC
23121438 CCTTGAAAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.27
Consensus pattern (40 bp):
CTTCGTCGCAACATATCATGTCTACGTCGCAACAAACACC
Found at i:23132344 original size:12 final size:12
Alignment explanation
Indices: 23132313--23132350 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
23132303 GGTCTTTCTC
23132313 CTTTTTCCTCTT
1 CTTTTTCCTCTT
*
23132325 -TTTCTTCCTATT
1 CTTT-TTCCTCTT
23132337 CTTTTTCCTCTT
1 CTTTTTCCTCTT
23132349 CT
1 CT
23132351 ATCTCCACAG
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
11 3 0.14
12 16 0.73
13 3 0.14
ACGTcount: A:0.03, C:0.32, G:0.00, T:0.66
Consensus pattern (12 bp):
CTTTTTCCTCTT
Found at i:23133508 original size:16 final size:16
Alignment explanation
Indices: 23133487--23133517 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23133477 ATAATGTGAA
23133487 AATAAAGATAAAATAC
1 AATAAAGATAAAATAC
*
23133503 AATAAAGGTAAAATA
1 AATAAAGATAAAATA
23133518 GGATCCACAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.68, C:0.03, G:0.10, T:0.19
Consensus pattern (16 bp):
AATAAAGATAAAATAC
Found at i:23134349 original size:26 final size:26
Alignment explanation
Indices: 23134312--23134365 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
23134302 ATTCTAGGTG
* *
23134312 CAATTCTTGACACGTTCATGTAGCGA
1 CAATTCTAGACACGTTCATGCAGCGA
23134338 CAATTCTAGACACGTTCATGCAGCGA
1 CAATTCTAGACACGTTCATGCAGCGA
23134364 CA
1 CA
23134366 TTCCTGGGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.26
Consensus pattern (26 bp):
CAATTCTAGACACGTTCATGCAGCGA
Found at i:23134406 original size:37 final size:37
Alignment explanation
Indices: 23134355--23134453 Score: 108
Period size: 37 Copynumber: 2.7 Consensus size: 37
23134345 AGACACGTTC
*
23134355 ATGCAGCGACATTCCTGGGTGCATTTGAAGAATACTT
1 ATGCAGCGATATTCCTGGGTGCATTTGAAGAATACTT
* *** * *
23134392 ATGCAGTGATATTCCTAAATGCAATTGAAGAATATTT
1 ATGCAGCGATATTCCTGGGTGCATTTGAAGAATACTT
* * *
23134429 ATGTAGCGATAGTCTTGGGTGCATT
1 ATGCAGCGATATTCCTGGGTGCATT
23134454 CCGAAAATAT
Statistics
Matches: 47, Mismatches: 15, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
37 47 1.00
ACGTcount: A:0.29, C:0.14, G:0.23, T:0.33
Consensus pattern (37 bp):
ATGCAGCGATATTCCTGGGTGCATTTGAAGAATACTT
Found at i:23146252 original size:17 final size:18
Alignment explanation
Indices: 23146232--23146270 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
23146222 AAGTTTCTTG
*
23146232 TTTAGATTAGTT-AGAGT
1 TTTAGATTAATTAAGAGT
*
23146249 TTTAGTTTAATTAAGAGT
1 TTTAGATTAATTAAGAGT
23146267 TTTA
1 TTTA
23146271 TTTAGATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.31, C:0.00, G:0.18, T:0.51
Consensus pattern (18 bp):
TTTAGATTAATTAAGAGT
Found at i:23151048 original size:18 final size:18
Alignment explanation
Indices: 23151006--23151041 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
23150996 GCTGACATCA
23151006 GAGGCATTAATTCTTCTT
1 GAGGCATTAATTCTTCTT
23151024 GAGGCATTAATTCTTCTT
1 GAGGCATTAATTCTTCTT
23151042 TTTGCATGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.17, G:0.17, T:0.44
Consensus pattern (18 bp):
GAGGCATTAATTCTTCTT
Found at i:23169424 original size:23 final size:23
Alignment explanation
Indices: 23169398--23169540 Score: 138
Period size: 23 Copynumber: 6.4 Consensus size: 23
23169388 AGTGCTGGGC
23169398 AACAGAGAGCACACAAAGTGCTA
1 AACAGAGAGCACACAAAGTGCTA
*
23169421 AACAGAGAGTACACAAA--G-T-
1 AACAGAGAGCACACAAAGTGCTA
*
23169440 -AC--TGAGCACACAAAGTGCTA
1 AACAGAGAGCACACAAAGTGCTA
* *
23169460 ATCAGAGAGCACACGAAGTGCTA
1 AACAGAGAGCACACAAAGTGCTA
* * *
23169483 ATCGGAGAGCACACACAGTGCTAA
1 AACAGAGAGCACACAAAGTGCT-A
*
23169507 TAACAGAGAGCACACACAGTGCTA
1 -AACAGAGAGCACACAAAGTGCTA
*
23169531 ATCAGAGAGC
1 AACAGAGAGC
23169541 GCGCTAGTGT
Statistics
Matches: 99, Mismatches: 12, Indels: 18
0.77 0.09 0.14
Matches are distributed among these distances:
16 10 0.10
18 3 0.03
19 1 0.01
20 1 0.01
21 2 0.02
23 60 0.61
24 2 0.02
25 20 0.20
ACGTcount: A:0.43, C:0.22, G:0.23, T:0.12
Consensus pattern (23 bp):
AACAGAGAGCACACAAAGTGCTA
Found at i:23169458 original size:39 final size:39
Alignment explanation
Indices: 23169404--23169478 Score: 123
Period size: 39 Copynumber: 1.9 Consensus size: 39
23169394 GGGCAACAGA
*
23169404 GAGCACACAAAGTGCTAAACAGAGAGTACACAAAGTACT
1 GAGCACACAAAGTGCTAAACAGAGAGCACACAAAGTACT
* *
23169443 GAGCACACAAAGTGCTAATCAGAGAGCACACGAAGT
1 GAGCACACAAAGTGCTAAACAGAGAGCACACAAAGT
23169479 GCTAATCGGA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.44, C:0.21, G:0.23, T:0.12
Consensus pattern (39 bp):
GAGCACACAAAGTGCTAAACAGAGAGCACACAAAGTACT
Found at i:23169497 original size:25 final size:23
Alignment explanation
Indices: 23169443--23169540 Score: 144
Period size: 23 Copynumber: 4.2 Consensus size: 23
23169433 ACAAAGTACT
*
23169443 GAGCACACAAAGTGCTAATCAGA
1 GAGCACACACAGTGCTAATCAGA
*
23169466 GAGCACACGA-AGTGCTAATCGGA
1 GAGCACAC-ACAGTGCTAATCAGA
23169489 GAGCACACACAGTGCTAATAACAGA
1 GAGCACACACAGTGCTAAT--CAGA
23169514 GAGCACACACAGTGCTAATCAGA
1 GAGCACACACAGTGCTAATCAGA
23169537 GAGC
1 GAGC
23169541 GCGCTAGTGT
Statistics
Matches: 69, Mismatches: 2, Indels: 8
0.87 0.03 0.10
Matches are distributed among these distances:
22 1 0.01
23 45 0.65
24 1 0.01
25 22 0.32
ACGTcount: A:0.40, C:0.23, G:0.24, T:0.12
Consensus pattern (23 bp):
GAGCACACACAGTGCTAATCAGA
Found at i:23169517 original size:48 final size:46
Alignment explanation
Indices: 23169443--23169540 Score: 144
Period size: 48 Copynumber: 2.1 Consensus size: 46
23169433 ACAAAGTACT
*
23169443 GAGCACACAAAGTGCTAATCAGAGAGCACACGA-AGTGCTAATCGGA
1 GAGCACACAAAGTGCTAATCAGAGAGCACAC-ACAGTGCTAATCAGA
*
23169489 GAGCACACACAGTGCTAATAACAGAGAGCACACACAGTGCTAATCAGA
1 GAGCACACAAAGTGCTAAT--CAGAGAGCACACACAGTGCTAATCAGA
23169537 GAGC
1 GAGC
23169541 GCGCTAGTGT
Statistics
Matches: 47, Mismatches: 2, Indels: 4
0.89 0.04 0.08
Matches are distributed among these distances:
46 18 0.38
47 1 0.02
48 28 0.60
ACGTcount: A:0.40, C:0.23, G:0.24, T:0.12
Consensus pattern (46 bp):
GAGCACACAAAGTGCTAATCAGAGAGCACACACAGTGCTAATCAGA
Found at i:23170626 original size:33 final size:36
Alignment explanation
Indices: 23170565--23170630 Score: 93
Period size: 33 Copynumber: 1.9 Consensus size: 36
23170555 CTCTTTTACC
* *
23170565 CCTTGCTCTACTCTTTTCCTTTGTCTTCAATTTGAT
1 CCTTGCTCTACTCTTCTCCTTTCTCTTCAATTTGAT
23170601 CCTTGC-CT-CTCTTCT-CTTTCTCTTCAATTT
1 CCTTGCTCTACTCTTCTCCTTTCTCTTCAATTT
23170631 CACATAAACA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 14 0.50
34 6 0.21
35 2 0.07
36 6 0.21
ACGTcount: A:0.09, C:0.32, G:0.06, T:0.53
Consensus pattern (36 bp):
CCTTGCTCTACTCTTCTCCTTTCTCTTCAATTTGAT
Found at i:23181843 original size:6 final size:6
Alignment explanation
Indices: 23181818--23181856 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
23181808 GCAATTCATA
* * *
23181818 TCACTT TCAATT CCAATT TCACTT TCACTT TCACTT TCA
1 TCACTT TCACTT TCACTT TCACTT TCACTT TCACTT TCA
23181857 ATTTTGATCA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.23, C:0.31, G:0.00, T:0.46
Consensus pattern (6 bp):
TCACTT
Found at i:23186855 original size:22 final size:23
Alignment explanation
Indices: 23186808--23186855 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
23186798 TAGCAAACAA
* *
23186808 TTTTTTTCTTTTCTTTTCTCTCT
1 TTTTTTTCTTTCCTTTTCTCTAT
23186831 TTTTTTTCTTTCCTTTTCTC-AT
1 TTTTTTTCTTTCCTTTTCTCTAT
23186853 TTT
1 TTT
23186856 CCTTTTTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 4 0.17
23 19 0.83
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.77
Consensus pattern (23 bp):
TTTTTTTCTTTCCTTTTCTCTAT
Found at i:23187470 original size:18 final size:18
Alignment explanation
Indices: 23187447--23187487 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
23187437 TTAACAAAAG
23187447 AAATGCAATGACAA-AATA
1 AAATGCAATGACAATAA-A
23187465 AAATGCAATGACAATAAA
1 AAATGCAATGACAATAAA
23187483 AAATG
1 AAATG
23187488 TATGCAATCT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 20 0.91
19 2 0.09
ACGTcount: A:0.61, C:0.10, G:0.12, T:0.17
Consensus pattern (18 bp):
AAATGCAATGACAATAAA
Found at i:23208980 original size:52 final size:52
Alignment explanation
Indices: 23208902--23209088 Score: 259
Period size: 52 Copynumber: 3.6 Consensus size: 52
23208892 TAAATGAAAA
23208902 AGGTCTGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTTTG
1 AGGTCTGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTTTG
* *
23208954 AGGTCTGATGATTATGTGTCATCGTGAGTATATGAATCCTTTATGGATTTTG
1 AGGTCTGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTTTG
* * * ****
23209006 AGGTCTGGTGACTATGTG-CTATCGTGAGTATATGATTCTTTTACGGAACAAG
1 AGGTCTGATGACTATGTGTC-ATCGTGAGTATATGAATCCTTTACGGATTTTG
* *
23209058 AGGTCCGATGACTATGTGTCGTCGTGAGTAT
1 AGGTCTGATGACTATGTGTCATCGTGAGTAT
23209089 TAAATGAAAT
Statistics
Matches: 119, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
51 1 0.01
52 117 0.98
53 1 0.01
ACGTcount: A:0.23, C:0.13, G:0.27, T:0.37
Consensus pattern (52 bp):
AGGTCTGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTTTG
Found at i:23212877 original size:148 final size:150
Alignment explanation
Indices: 23212676--23212974 Score: 494
Period size: 148 Copynumber: 2.0 Consensus size: 150
23212666 TTCTAATCAA
* * *
23212676 TCTCTAATAGAAGTAATGTAGGAAGGTTGAAACAACTTATTTTAAACAATATCAAATAGAAGAAG
1 TCTCTAATAGAAGTAATGTAAGAAGATTGAAACAACTTATTTTAAACAATATCAAATAAAAGAAG
*
23212741 TGTACTCCTATACGGATTCCACTTGTGCAACCCCCACAGATCTTCTTATCTTGCCAC-T-TATAT
66 TGCACTCCTATACGGATTCCACTTGTGCAACCCCCACAGATCTTCTTATCTTGCCACTTATATAT
23212804 TTTATTTCTTTAACAAGAAT
131 TTTATTTCTTTAACAAGAAT
*
23212824 TCTCTAATAGAAGTAATGTAAGAAGATTGAAACACCTTATTTTAAACAATATCAAATAAAAGAAG
1 TCTCTAATAGAAGTAATGTAAGAAGATTGAAACAACTTATTTTAAACAATATCAAATAAAAGAAG
* * * *
23212889 TGCACTCTTATACGGATTCCACTTGTGCAACCCTCATAGATCTTTTTATCTTGCCACTTATATAT
66 TGCACTCCTATACGGATTCCACTTGTGCAACCCCCACAGATCTTCTTATCTTGCCACTTATATAT
*
23212954 TTTATTTCTTTAACAATAAT
131 TTTATTTCTTTAACAAGAAT
23212974 T
1 T
23212975 TGAGTCACAC
Statistics
Matches: 139, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
148 113 0.81
149 1 0.01
150 25 0.18
ACGTcount: A:0.35, C:0.18, G:0.11, T:0.35
Consensus pattern (150 bp):
TCTCTAATAGAAGTAATGTAAGAAGATTGAAACAACTTATTTTAAACAATATCAAATAAAAGAAG
TGCACTCCTATACGGATTCCACTTGTGCAACCCCCACAGATCTTCTTATCTTGCCACTTATATAT
TTTATTTCTTTAACAAGAAT
Found at i:23214035 original size:31 final size:30
Alignment explanation
Indices: 23213990--23214057 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
23213980 ATTATATTTT
* *
23213990 ATTTTT-TTTATTTAAAAAATAGATAAATTA
1 ATTTTTATATATTTAAAAAAGAG-TAAATTA
**
23214020 ATTTTTATATATTTAATCAAGAGTAAATTA
1 ATTTTTATATATTTAAAAAAGAGTAAATTA
23214050 ATTTTTAT
1 ATTTTTAT
23214058 TGTTAAAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
30 21 0.64
31 12 0.36
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.51
Consensus pattern (30 bp):
ATTTTTATATATTTAAAAAAGAGTAAATTA
Found at i:23215394 original size:27 final size:26
Alignment explanation
Indices: 23215351--23215406 Score: 69
Period size: 28 Copynumber: 2.1 Consensus size: 26
23215341 ATCTGAACTT
*
23215351 AATATTTTTTCTTAA-TTGATATCTA
1 AATATTTTTTATTAATTTGATATCTA
*
23215376 AATATTTTTTTATTCAATTTGATATTTA
1 AATA-TTTTTTATT-AATTTGATATCTA
23215404 AAT
1 AAT
23215407 TTGATGTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
25 4 0.15
26 8 0.31
27 2 0.08
28 12 0.46
ACGTcount: A:0.34, C:0.05, G:0.04, T:0.57
Consensus pattern (26 bp):
AATATTTTTTATTAATTTGATATCTA
Found at i:23215504 original size:60 final size:59
Alignment explanation
Indices: 23215334--23215520 Score: 186
Period size: 60 Copynumber: 3.2 Consensus size: 59
23215324 TTAATATAAT
*
23215334 ATTTAGTATCTGAACTTAATATTTTTTCTTAA-TTGATATCTAAATATTTTTTT--ATTCA
1 ATTTAGTATTTGAACTTAATATTTTTTCTTAATTTGATATCT-AAT-TTTTTTTAGATTCA
* * * * * * * * *
23215392 ATTT-GATATTTAAATTTGATGTTTTTTCCTATTTTGATATTTAATTTGTTTTTAGACTCG
1 ATTTAG-TATTTGAACTTAATATTTTTTCTTAATTTGATATCTAATTT-TTTTTAGATTCA
*
23215452 ATTTAGTATTTGAACTTAATATTTTTT-TTAATTTGGTATCTAAGCTTTTTTTTAGATTCA
1 ATTTAGTATTTGAACTTAATATTTTTTCTTAATTTGATATCTAA--TTTTTTTTAGATTCA
23215512 ATTTAGTAT
1 ATTTAGTAT
23215521 CTAAATTTAT
Statistics
Matches: 101, Mismatches: 20, Indels: 14
0.75 0.15 0.10
Matches are distributed among these distances:
57 3 0.03
58 31 0.31
59 20 0.20
60 43 0.43
61 4 0.04
ACGTcount: A:0.27, C:0.07, G:0.09, T:0.57
Consensus pattern (59 bp):
ATTTAGTATTTGAACTTAATATTTTTTCTTAATTTGATATCTAATTTTTTTTAGATTCA
Found at i:23223317 original size:17 final size:17
Alignment explanation
Indices: 23223291--23223342 Score: 70
Period size: 17 Copynumber: 3.1 Consensus size: 17
23223281 ACAATGATAT
23223291 ATGAAAATGCAATGACA
1 ATGAAAATGCAATGACA
* *
23223308 ATGAAGATGCAGTGACA
1 ATGAAAATGCAATGACA
23223325 A-GAAAAATGCAATGACA
1 ATG-AAAATGCAATGACA
23223342 A
1 A
23223343 ACGAAATGTG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
16 1 0.03
17 29 0.97
ACGTcount: A:0.52, C:0.12, G:0.21, T:0.15
Consensus pattern (17 bp):
ATGAAAATGCAATGACA
Found at i:23223349 original size:17 final size:16
Alignment explanation
Indices: 23223295--23223350 Score: 58
Period size: 17 Copynumber: 3.3 Consensus size: 16
23223285 TGATATATGA
*
23223295 AAATGCAATGACAATG
1 AAATGCAATGACAAAG
* *
23223311 AAGATGCAGTGACAAGAA
1 AA-ATGCAATGACAA-AG
23223329 AAATGCAATGACAAACG
1 AAATGCAATGACAAA-G
23223346 AAATG
1 AAATG
23223351 TGATGACAAC
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
16 3 0.09
17 27 0.84
18 2 0.06
ACGTcount: A:0.52, C:0.12, G:0.21, T:0.14
Consensus pattern (16 bp):
AAATGCAATGACAAAG
Found at i:23228486 original size:17 final size:17
Alignment explanation
Indices: 23228463--23228623 Score: 205
Period size: 17 Copynumber: 9.5 Consensus size: 17
23228453 AACCCATTTT
23228463 TTTAAATTTATTTTAAG
1 TTTAAATTTATTTTAAG
* *
23228480 GTTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAG
*
23228497 TTTAAATTTAATTTAAG
1 TTTAAATTTATTTTAAG
* *
23228514 TTTAAATTTGTTTTAAA
1 TTTAAATTTATTTTAAG
*
23228531 TTTAAATTTAATTTAAG
1 TTTAAATTTATTTTAAG
* *
23228548 TTTAAATTTGTTTTAAA
1 TTTAAATTTATTTTAAG
*
23228565 TTTAAATTTAATTTAAG
1 TTTAAATTTATTTTAAG
*
23228582 TTTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAG
* * *
23228599 TTTAAAATTATTCTAAA
1 TTTAAATTTATTTTAAG
23228616 TTTAAATT
1 TTTAAATT
23228624 GATAATGTCC
Statistics
Matches: 122, Mismatches: 22, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 122 1.00
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.55
Consensus pattern (17 bp):
TTTAAATTTATTTTAAG
Found at i:23228495 original size:11 final size:12
Alignment explanation
Indices: 23228481--23228603 Score: 125
Period size: 11 Copynumber: 10.8 Consensus size: 12
23228471 TATTTTAAGG
23228481 TTAAATTT-ATT
1 TTAAATTTAATT
*
23228492 TTAAATTTAAAT
1 TTAAATTTAATT
*
23228504 TT-AATTTAAGT
1 TTAAATTTAATT
*
23228515 TTAAATTT-GTT
1 TTAAATTTAATT
*
23228526 TTAAATTTAAAT
1 TTAAATTTAATT
*
23228538 TT-AATTTAAGT
1 TTAAATTTAATT
*
23228549 TTAAATTT-GTT
1 TTAAATTTAATT
*
23228560 TTAAATTTAAAT
1 TTAAATTTAATT
*
23228572 TT-AATTTAAGT
1 TTAAATTTAATT
23228583 TTAAATTT-ATT
1 TTAAATTTAATT
23228594 TTAAATTTAA
1 TTAAATTTAA
23228604 AATTATTCTA
Statistics
Matches: 92, Mismatches: 13, Indels: 13
0.78 0.11 0.11
Matches are distributed among these distances:
11 66 0.72
12 26 0.28
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (12 bp):
TTAAATTTAATT
Found at i:23228501 original size:34 final size:34
Alignment explanation
Indices: 23228463--23228623 Score: 252
Period size: 34 Copynumber: 4.7 Consensus size: 34
23228453 AACCCATTTT
* *
23228463 TTTAAATTTATTTTAAGGTTAAATTTATTTTAAA
1 TTTAAATTTAATTTAAGTTTAAATTTATTTTAAA
*
23228497 TTTAAATTTAATTTAAGTTTAAATTTGTTTTAAA
1 TTTAAATTTAATTTAAGTTTAAATTTATTTTAAA
*
23228531 TTTAAATTTAATTTAAGTTTAAATTTGTTTTAAA
1 TTTAAATTTAATTTAAGTTTAAATTTATTTTAAA
23228565 TTTAAATTTAATTTAAGTTTAAATTTATTTTAAA
1 TTTAAATTTAATTTAAGTTTAAATTTATTTTAAA
* *
23228599 TTTAAAATT-ATTCTAAATTTAAATT
1 TTTAAATTTAATT-TAAGTTTAAATT
23228624 GATAATGTCC
Statistics
Matches: 120, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
33 3 0.03
34 117 0.98
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.55
Consensus pattern (34 bp):
TTTAAATTTAATTTAAGTTTAAATTTATTTTAAA
Done.