Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032244.1 Gossypioides kirkii chromosome KI_01
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: 38174113
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1000 characters in sequence are not A, C, G, or T
File 75 of 126
Found at i:22336291 original size:21 final size:24
Alignment explanation
Indices: 22336266--22336322 Score: 75
Period size: 21 Copynumber: 2.5 Consensus size: 24
22336256 GACTTGAGTT
22336266 GTATCGGTAGTTAAAT-TAT-G-A
1 GTATCGGTAGTTAAATGTATAGAA
**
22336287 GTATCGGTAGTTGTATGTATAGAA
1 GTATCGGTAGTTAAATGTATAGAA
22336311 GTATCGGTAGTT
1 GTATCGGTAGTT
22336323 TGCATGCTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
21 14 0.45
22 3 0.10
23 1 0.03
24 13 0.42
ACGTcount: A:0.28, C:0.05, G:0.28, T:0.39
Consensus pattern (24 bp):
GTATCGGTAGTTAAATGTATAGAA
Found at i:22342104 original size:51 final size:51
Alignment explanation
Indices: 22342022--22342258 Score: 375
Period size: 51 Copynumber: 4.6 Consensus size: 51
22342012 GCTATAAACG
*
22342022 AAAGAGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTATGGATT
1 AAAG-GTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
* *
22342074 AAAGGTCCGGTGACTAAGTGTCATCATGAGTAAATGAATCCTTTACGGATT
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
* *
22342125 AAAGGTCCGATGACTAAGTATCATCGTGAGTAAATGAATCCTTTATGGATT
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
* * *
22342176 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCGTGACGAATT
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
* *
22342227 AAAGGTTCGATGACTTAGTGTCATCGTGAGTA
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTA
22342259 TATAAACTTC
Statistics
Matches: 171, Mismatches: 14, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
51 167 0.98
52 4 0.02
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (51 bp):
AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
Found at i:22351898 original size:3 final size:3
Alignment explanation
Indices: 22351890--22351941 Score: 56
Period size: 3 Copynumber: 17.7 Consensus size: 3
22351880 TCGGAACAAG
*
22351890 TTC TTC TTC TTC TTT TTC TT- TTCC TTC -TC TCTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TT-C TTC TTC T-TC TTC TTC TTC TTC
22351935 TT- TTC TT
1 TTC TTC TT
22351942 TTCCCTTCAA
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
2 6 0.14
3 31 0.74
4 5 0.12
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:22353744 original size:25 final size:25
Alignment explanation
Indices: 22353710--22353758 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
22353700 TGCAGAAACT
*
22353710 AAAGAAAAAAAATTAA-AATAAAATA
1 AAAG-AAAAAAATTAACAAAAAAATA
*
22353735 AAAGACAAAAATTAACAAAAAAAT
1 AAAGAAAAAAATTAACAAAAAAAT
22353759 TTGCAATGAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.78, C:0.04, G:0.04, T:0.14
Consensus pattern (25 bp):
AAAGAAAAAAATTAACAAAAAAATA
Found at i:22362837 original size:21 final size:21
Alignment explanation
Indices: 22362811--22362862 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
22362801 ACTTAGATGT
22362811 ATCCACAACA-AAGCCAAATGC
1 ATCCACAACAGAA-CCAAATGC
* *
22362832 ATCCACACCAGAATCAAATGC
1 ATCCACAACAGAACCAAATGC
*
22362853 AGCCACAACA
1 ATCCACAACA
22362863 CTCTTCAATG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 24 0.92
22 2 0.08
ACGTcount: A:0.46, C:0.35, G:0.10, T:0.10
Consensus pattern (21 bp):
ATCCACAACAGAACCAAATGC
Found at i:22373683 original size:52 final size:52
Alignment explanation
Indices: 22373601--22373893 Score: 451
Period size: 52 Copynumber: 5.6 Consensus size: 52
22373591 TAAATAAAGG
* * *
22373601 AAAGGTCTGATAACTATGTGTCATCATGAGTATATGAATCCTTTATGGATTA
1 AAAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATTA
**
22373653 AAAGGTCTAATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATTA
1 AAAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATTA
*
22373705 AAAGGTCCGATGACTATGTGTCATCGTGAGTATATAAATCCTTTATGGATTA
1 AAAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATTA
* * *
22373757 AAATGTCCGATGACTATGTGTCAACGTGAGTACATGAATCCTTTATGGATTA
1 AAAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATTA
* * **
22373809 AAAGGTCCGATGACTATGTGTCATCGTGAGTATATGATTCGTTTAAAGATTA
1 AAAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATTA
* *
22373861 AGAGGTCCGATGACTATGTGTCATCCTGAGTAT
1 AAAGGTCCGATGACTATGTGTCATCGTGAGTAT
22373894 TAAATGGAAT
Statistics
Matches: 222, Mismatches: 19, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 222 1.00
ACGTcount: A:0.30, C:0.13, G:0.22, T:0.34
Consensus pattern (52 bp):
AAAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATTA
Found at i:22378960 original size:52 final size:52
Alignment explanation
Indices: 22378885--22379074 Score: 308
Period size: 52 Copynumber: 3.7 Consensus size: 52
22378875 ATAATTAAAG
22378885 AAAAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATT
1 AAAAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATT
*
22378937 AAAATGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATT
1 AAAAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATT
* * **
22378989 AAAAGGTCCGATGACTATGTGTCATCGTGAGTATATGATTCCTTCACAGATT
1 AAAAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATT
* **
22379041 AAGAGGTTTGATGACTATGTGTCATCGTGAGTAT
1 AAAAGGTCCGATGACTATGTGTCATCGTGAGTAT
22379075 TAAATGGAAT
Statistics
Matches: 129, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 129 1.00
ACGTcount: A:0.28, C:0.14, G:0.23, T:0.35
Consensus pattern (52 bp):
AAAAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATT
Found at i:22379908 original size:21 final size:21
Alignment explanation
Indices: 22379858--22379909 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
22379848 AGAGTTTTTA
22379858 GTATCGGTAGAAGCATGACAT
1 GTATCGGTAGAAGCATGACAT
* * * *
22379879 GTTTTGGTAGAAGTC-TTACTT
1 GTATCGGTAGAAG-CATGACAT
22379900 GTATCGGTAG
1 GTATCGGTAG
22379910 TATTGTCTCA
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
21 23 0.96
22 1 0.04
ACGTcount: A:0.25, C:0.12, G:0.29, T:0.35
Consensus pattern (21 bp):
GTATCGGTAGAAGCATGACAT
Found at i:22380965 original size:13 final size:13
Alignment explanation
Indices: 22380933--22380971 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
22380923 TATCTTTAAC
*
22380933 TTAGATTAATTTAGT
1 TTAGATTAA--TACT
22380948 TTAGATTAATACT
1 TTAGATTAATACT
22380961 TTAGATTAATA
1 TTAGATTAATA
22380972 TCCCTCACAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 14 0.61
15 9 0.39
ACGTcount: A:0.38, C:0.03, G:0.10, T:0.49
Consensus pattern (13 bp):
TTAGATTAATACT
Found at i:22383235 original size:23 final size:24
Alignment explanation
Indices: 22383203--22383248 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
22383193 TTTGGAGAAG
*
22383203 TTTGTGTTT-ACGTTTTGAGGGTTC
1 TTTGTGTTTAAAGTTTTG-GGGTTC
22383227 TTTGT-TTTAAAGTTTTGGGGTT
1 TTTGTGTTTAAAGTTTTGGGGTT
22383249 TTATTTTATC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.11, C:0.04, G:0.28, T:0.57
Consensus pattern (24 bp):
TTTGTGTTTAAAGTTTTGGGGTTC
Found at i:22386705 original size:10 final size:10
Alignment explanation
Indices: 22386690--22386714 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
22386680 ACTTAGTTCT
22386690 CGATCATTTG
1 CGATCATTTG
22386700 CGATCATTTG
1 CGATCATTTG
22386710 CGATC
1 CGATC
22386715 CTTTATCTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.36
Consensus pattern (10 bp):
CGATCATTTG
Found at i:22403572 original size:52 final size:53
Alignment explanation
Indices: 22403498--22403607 Score: 150
Period size: 52 Copynumber: 2.1 Consensus size: 53
22403488 ATATAATTTT
* * * **
22403498 TATTATAAATGTTTTCGTTTAATTGAGTTCTATTACTTAGTATTAA-TTTACA
1 TATTTTAAATGTTTTCGCTTAATCGAGTTCTATTACTTAACATTAACTTTACA
* *
22403550 TATTTTAAATGTTTTTGCTTAATCGAGTTCTATTACTTAACATTAACTTTGCA
1 TATTTTAAATGTTTTCGCTTAATCGAGTTCTATTACTTAACATTAACTTTACA
22403603 TATTT
1 TATTT
22403608 CAAAGCTTAA
Statistics
Matches: 50, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
52 40 0.80
53 10 0.20
ACGTcount: A:0.29, C:0.10, G:0.09, T:0.52
Consensus pattern (53 bp):
TATTTTAAATGTTTTCGCTTAATCGAGTTCTATTACTTAACATTAACTTTACA
Found at i:22407696 original size:51 final size:51
Alignment explanation
Indices: 22407635--22407846 Score: 133
Period size: 51 Copynumber: 4.3 Consensus size: 51
22407625 ACTTCGTTTC
* *
22407635 AAAATTTAAACTTTTTCTTTAAAATAACTAAAAAAT-AGATTTTTATTTTTA
1 AAAATATAAACTTTTTATTTAAAATAACTAAAAAATCA-ATTTTTATTTTTA
* * * * *
22407686 AAAATATAAACTTTCTATTT---CT--TTAAAAAATCACTATTTTA--CTTA
1 AAAATATAAACTTTTTATTTAAAATAACTAAAAAATCAAT-TTTTATTTTTA
** *** *
22407731 AAAA-ACTAAAC-TTTTATTTAGAAATAGTTAAAAAAATCAAAACTT-TGTTTA
1 AAAATA-TAAACTTTTTATTTA-AAATAACT-AAAAAATCAATTTTTATTTTTA
* * * *
22407782 AAAATTTAAATTTTTTCTTTAAAATAACTAAAAAAT-AGATTGTTATTTTTA
1 AAAATATAAACTTTTTATTTAAAATAACTAAAAAATCA-ATTTTTATTTTTA
22407833 AAAATATAAACTTT
1 AAAATATAAACTTT
22407847 CACTTTTTAA
Statistics
Matches: 120, Mismatches: 25, Indels: 32
0.68 0.14 0.18
Matches are distributed among these distances:
44 8 0.07
45 12 0.10
46 9 0.08
47 6 0.05
48 2 0.02
49 1 0.01
50 14 0.12
51 60 0.50
52 8 0.07
ACGTcount: A:0.47, C:0.08, G:0.03, T:0.43
Consensus pattern (51 bp):
AAAATATAAACTTTTTATTTAAAATAACTAAAAAATCAATTTTTATTTTTA
Found at i:22407807 original size:147 final size:147
Alignment explanation
Indices: 22407320--22407925 Score: 801
Period size: 147 Copynumber: 4.1 Consensus size: 147
22407310 ACTTTACTTC
* *
22407320 AAAATCAAAACTTTGTTTAAAAATTTAAATTTTTTCTTTAAAATCACTAAAAAACAAATTTTTAT
1 AAAATCAAAACTTTGTTTAAAAATTTAAATTTTTTCTTTAAAATAACTAAAAAACAGATTTTTAT
* * * * * * *
22407385 TTTTAAAAATCTAAATTTTTTTTCTTTTTTAATGAAAATTACTACTTTACTTAAAAATCCAAGCT
66 TTTTAAAAATATAAA--CTTTCTATTTTTTAA-GAAAATCACTATTTTACTTAAAAATCCAAACT
* *
22407450 TTTATTTGGAAATAGTAAAA
128 TTTATTTAGAAATAGTTAAA
*
22407470 AAAATCAAAACTTTGTTTAAAAATTTAAATTTTTTCTTTAAAATCACTAAAAAACAGATTTTTAT
1 AAAATCAAAACTTTGTTTAAAAATTTAAATTTTTTCTTTAAAATAACTAAAAAACAGATTTTTA-
* *
22407535 TTTTTAAAAATCTAAAC--T-T-TTTTTTAATGAAAATCACTAATTTACTTAAAAATCCAAACTT
65 TTTTTAAAAATATAAACTTTCTATTTTTTAA-GAAAATCACTATTTTACTTAAAAATCCAAACTT
* *
22407596 TTATTTTGAACTAGTTAAAA
129 TTATTTAGAAATAGTT-AAA
* * * *
22407616 AAAATCAAAACTTCGTTTCAAAATTTAAACTTTTTCTTTAAAATAACTAAAAAATAGATTTTTAT
1 AAAATCAAAACTTTGTTTAAAAATTTAAATTTTTTCTTTAAAATAACTAAAAAACAGATTTTTAT
* *
22407681 TTTTAAAAATATAAACTTTCTATTTCTTTAA-AAAATCACTATTTTACTTAAAAAACTAAACTTT
66 TTTTAAAAATATAAACTTTCTATTT-TTTAAGAAAATCACTATTTTACTTAAAAATCCAAACTTT
22407745 TATTTAGAAATAGTTAAA
130 TATTTAGAAATAGTTAAA
* *
22407763 AAAATCAAAACTTTGTTTAAAAATTTAAATTTTTTCTTTAAAATAACTAAAAAATAGATTGTTAT
1 AAAATCAAAACTTTGTTTAAAAATTTAAATTTTTTCTTTAAAATAACTAAAAAACAGATTTTTAT
* * *
22407828 TTTTAAAAATATAAACTTTC-ACTTTTTAAAGAAAATCACTATTTTACTTAAAAATCAAAATTTT
66 TTTTAAAAATATAAACTTTCTA-TTTTTTAAGAAAATCACTATTTTACTTAAAAATCCAAACTTT
* **
22407892 TATTTCGAAATTTTTTAAA
130 TATTTAGAAA-TAGTTAAA
*
22407911 AAAACCCAAAACTTT
1 AAAA-TCAAAACTTT
22407926 TCCCAAGGGC
Statistics
Matches: 414, Mismatches: 31, Indels: 23
0.88 0.07 0.05
Matches are distributed among these distances:
145 68 0.16
146 68 0.16
147 128 0.31
148 54 0.13
149 12 0.03
150 68 0.16
151 16 0.04
ACGTcount: A:0.45, C:0.10, G:0.03, T:0.42
Consensus pattern (147 bp):
AAAATCAAAACTTTGTTTAAAAATTTAAATTTTTTCTTTAAAATAACTAAAAAACAGATTTTTAT
TTTTAAAAATATAAACTTTCTATTTTTTAAGAAAATCACTATTTTACTTAAAAATCCAAACTTTT
ATTTAGAAATAGTTAAA
Found at i:22410853 original size:47 final size:46
Alignment explanation
Indices: 22410768--22410906 Score: 251
Period size: 46 Copynumber: 3.0 Consensus size: 46
22410758 GAAGTGCTGG
22410768 GAATTGAATTGGGAGATATATTTGTTTATTGGATTGATTGTTAAAT
1 GAATTGAATTGGGAGATATATTTGTTTATTGGATTGATTGTTAAAT
22410814 GAATTGAATTGGGAGATATAATTTGTTTATTGGATTGATTGTTAAAT
1 GAATTGAATTGGGAGATAT-ATTTGTTTATTGGATTGATTGTTAAAT
* *
22410861 GAATTGAATTGTGAGATATATTTGTTTATTAGATTGATTGTTAAAT
1 GAATTGAATTGGGAGATATATTTGTTTATTGGATTGATTGTTAAAT
22410907 TTATTACAAG
Statistics
Matches: 90, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
46 45 0.50
47 45 0.50
ACGTcount: A:0.32, C:0.00, G:0.22, T:0.46
Consensus pattern (46 bp):
GAATTGAATTGGGAGATATATTTGTTTATTGGATTGATTGTTAAAT
Found at i:22417069 original size:18 final size:19
Alignment explanation
Indices: 22417034--22417072 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
22417024 AATAAATATA
22417034 AATACAATTTAAATTTAAT
1 AATACAATTTAAATTTAAT
22417053 AATA-AATTGTAAA-TTAAT
1 AATACAATT-TAAATTTAAT
22417071 AA
1 AA
22417073 AAAAACAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (19 bp):
AATACAATTTAAATTTAAT
Found at i:22417343 original size:23 final size:23
Alignment explanation
Indices: 22417307--22417350 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
22417297 AAAATAAAAC
22417307 AGAACAGGAATTTGAGAGAAAATA
1 AGAACAGGAATTTGAGA-AAAATA
*
22417331 AGAACAGG-TTTTGAGAAAAA
1 AGAACAGGAATTTGAGAAAAA
22417351 GCAAAAGGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 4 0.21
23 7 0.37
24 8 0.42
ACGTcount: A:0.52, C:0.05, G:0.25, T:0.18
Consensus pattern (23 bp):
AGAACAGGAATTTGAGAAAAATA
Found at i:22422862 original size:15 final size:15
Alignment explanation
Indices: 22422838--22422880 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 15
22422828 TAATTTATTT
* *
22422838 AAATTCTAAAATGTG
1 AAATTTTAAAATGTA
*
22422853 AAATTTTAAAATTTTA
1 AAATTTTAAAA-TGTA
22422869 AAATTTTAAAAT
1 AAATTTTAAAAT
22422881 TATATATCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 11 0.46
16 13 0.54
ACGTcount: A:0.51, C:0.02, G:0.05, T:0.42
Consensus pattern (15 bp):
AAATTTTAAAATGTA
Found at i:22422864 original size:8 final size:8
Alignment explanation
Indices: 22422853--22422881 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
22422843 CTAAAATGTG
22422853 AAATTTTA
1 AAATTTTA
22422861 AAATTTTA
1 AAATTTTA
22422869 AAATTTTA
1 AAATTTTA
22422877 AAATT
1 AAATT
22422882 ATATATCTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (8 bp):
AAATTTTA
Found at i:22424082 original size:16 final size:17
Alignment explanation
Indices: 22424061--22424092 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
22424051 TTTAAAATTC
22424061 ATTTATAAAAA-TAAAA
1 ATTTATAAAAAGTAAAA
22424077 ATTTATAAAAAGTAAA
1 ATTTATAAAAAGTAAA
22424093 TAAAACGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (17 bp):
ATTTATAAAAAGTAAAA
Found at i:22426253 original size:25 final size:25
Alignment explanation
Indices: 22426219--22426309 Score: 92
Period size: 25 Copynumber: 3.6 Consensus size: 25
22426209 GTCAGAAAAG
* *
22426219 GAAAGGCTTTGTGGTGAAATGTAAA
1 GAAAGCCTTTGTGGCGAAATGTAAA
* * **
22426244 GAGAGCCTTTGTGACGAAATAAAAAAA
1 GAAAGCCTTTGTGGCGAAAT--GTAAA
* *
22426271 GAAAGCTTTTGTGGCAAAATGTAAA
1 GAAAGCCTTTGTGGCGAAATGTAAA
22426296 GAAAGCCTTTGTGG
1 GAAAGCCTTTGTGG
22426310 AGCTTACTAA
Statistics
Matches: 51, Mismatches: 13, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
25 32 0.63
27 19 0.37
ACGTcount: A:0.38, C:0.09, G:0.27, T:0.25
Consensus pattern (25 bp):
GAAAGCCTTTGTGGCGAAATGTAAA
Found at i:22433135 original size:22 final size:22
Alignment explanation
Indices: 22433107--22433150 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
22433097 GCTTGATGAA
22433107 TGTGTGTGAAAGTATGTTAAGT
1 TGTGTGTGAAAGTATGTTAAGT
22433129 TGTGTGTGAAAGTATGTTAAGT
1 TGTGTGTGAAAGTATGTTAAGT
22433151 CTGTCATGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.00, G:0.32, T:0.41
Consensus pattern (22 bp):
TGTGTGTGAAAGTATGTTAAGT
Found at i:22433656 original size:29 final size:30
Alignment explanation
Indices: 22433578--22433714 Score: 156
Period size: 29 Copynumber: 4.7 Consensus size: 30
22433568 AAAAGAAGCA
* * * *
22433578 TTTGTGGCT-AAATCTATTATCTGTAAGCC
1 TTTGTGGCTGGAATCTGTTATATGTGAGCC
* **
22433607 TTTGTGGTTGGAATCTGTTATATAAGAGCC
1 TTTGTGGCTGGAATCTGTTATATGTGAGCC
*
22433637 TTTGTGG-TGGAATTTGTTATATGTGAGCC
1 TTTGTGGCTGGAATCTGTTATATGTGAGCC
*
22433666 TTTATGGCT-GAATCTGTTATATGTGAGCC
1 TTTGTGGCTGGAATCTGTTATATGTGAGCC
*
22433695 TTTGTGGCT-GAATCTATTAT
1 TTTGTGGCTGGAATCTGTTAT
22433715 GTGAAGCCTT
Statistics
Matches: 92, Mismatches: 14, Indels: 4
0.84 0.13 0.04
Matches are distributed among these distances:
29 70 0.76
30 22 0.24
ACGTcount: A:0.21, C:0.12, G:0.24, T:0.43
Consensus pattern (30 bp):
TTTGTGGCTGGAATCTGTTATATGTGAGCC
Found at i:22433870 original size:28 final size:28
Alignment explanation
Indices: 22433796--22433871 Score: 91
Period size: 28 Copynumber: 2.7 Consensus size: 28
22433786 AATTTGTAAA
*
22433796 GGATGCTTTTGTGACTATCTTTGCTTAT
1 GGATGCCTTTGTGACTATCTTTGCTTAT
* * *
22433824 GGACGTCTGTGTG-CTTATCTTTGCTTAT
1 GGATGCCTTTGTGAC-TATCTTTGCTTAT
*
22433852 GGATGCCTTTATGACTATCT
1 GGATGCCTTTGTGACTATCT
22433872 ATTGTTCATG
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
27 1 0.03
28 36 0.95
29 1 0.03
ACGTcount: A:0.14, C:0.17, G:0.22, T:0.46
Consensus pattern (28 bp):
GGATGCCTTTGTGACTATCTTTGCTTAT
Found at i:22435105 original size:15 final size:16
Alignment explanation
Indices: 22435079--22435108 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
22435069 TCAATTTTGG
22435079 TAATAGTTATATAATA
1 TAATAGTTATATAATA
22435095 TAATA-TTATATAAT
1 TAATAGTTATATAAT
22435109 CATTAAAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (16 bp):
TAATAGTTATATAATA
Found at i:22437049 original size:21 final size:20
Alignment explanation
Indices: 22437001--22437050 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
22436991 TTACAATTAC
22437001 AAAA-TTAAATGAAAAATCA
1 AAAATTTAAATGAAAAATCA
* *
22437020 AAATTTTTAAATTAAAAATGCA
1 AAA-ATTTAAATGAAAAAT-CA
22437042 AAAATTTAA
1 AAAATTTAA
22437051 TGTATCAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
19 3 0.12
21 17 0.68
22 5 0.20
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.30
Consensus pattern (20 bp):
AAAATTTAAATGAAAAATCA
Found at i:22452985 original size:13 final size:13
Alignment explanation
Indices: 22452969--22452997 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
22452959 TGTCAATTTA
22452969 GAATACTAATTAT
1 GAATACTAATTAT
22452982 GAATACTAATTAT
1 GAATACTAATTAT
22452995 GAA
1 GAA
22452998 CTTCATCTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.48, C:0.07, G:0.10, T:0.34
Consensus pattern (13 bp):
GAATACTAATTAT
Found at i:22455705 original size:18 final size:18
Alignment explanation
Indices: 22455657--22455708 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
22455647 AAATAATCAT
*
22455657 AAAATTATTAAAAAAGGTA
1 AAAATTATTAAAAAA-TTA
22455676 AAAA-TATT-AAAAATTA
1 AAAATTATTAAAAAATTA
*
22455692 AAAATTTTTAAAAAATT
1 AAAATTATTAAAAAATT
22455709 GTCAAAATAG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
16 6 0.21
17 8 0.28
18 11 0.38
19 4 0.14
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (18 bp):
AAAATTATTAAAAAATTA
Found at i:22456223 original size:19 final size:19
Alignment explanation
Indices: 22456201--22456240 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
22456191 TATTTTCATC
*
22456201 TTTTT-ACAATTTTTTAAT
1 TTTTTAACAATTTTATAAT
*
22456219 TTTTTAATAATTTTATAAT
1 TTTTTAACAATTTTATAAT
22456238 TTT
1 TTT
22456241 AAATATTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (19 bp):
TTTTTAACAATTTTATAAT
Found at i:22456229 original size:11 final size:10
Alignment explanation
Indices: 22456211--22456281 Score: 62
Period size: 10 Copynumber: 7.6 Consensus size: 10
22456201 TTTTTACAAT
22456211 TTTTTAAT--
1 TTTTTAATAA
22456219 TTTTTAATAA
1 TTTTTAATAA
22456229 -TTTT-ATAA
1 TTTTTAATAA
*
22456237 TTTTAAAT-A
1 TTTTTAATAA
*
22456246 TTTTTAAAAA
1 TTTTTAATAA
*
22456256 TCTTTAATAA
1 TTTTTAATAA
* *
22456266 TTTTTTATTA
1 TTTTTAATAA
22456276 TTTTTA
1 TTTTTA
22456282 TAAATTTCAA
Statistics
Matches: 49, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
8 12 0.24
9 14 0.29
10 23 0.47
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.63
Consensus pattern (10 bp):
TTTTTAATAA
Found at i:22456309 original size:27 final size:27
Alignment explanation
Indices: 22456264--22456315 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
22456254 AATCTTTAAT
** *
22456264 AATTTTTTATTATTTTTATAAATTTCA
1 AATTTTTTAGAATTATTATAAATTTCA
22456291 AATTTTTTAGAATTATTATAAATTT
1 AATTTTTTAGAATTATTATAAATTT
22456316 TTACCATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.60
Consensus pattern (27 bp):
AATTTTTTAGAATTATTATAAATTTCA
Found at i:22465717 original size:14 final size:14
Alignment explanation
Indices: 22465700--22465726 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
22465690 GAGAATAATG
22465700 ATTATTAAATATTA
1 ATTATTAAATATTA
22465714 ATTATTAAATATT
1 ATTATTAAATATT
22465727 TACGAGGTCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
ATTATTAAATATTA
Found at i:22467041 original size:12 final size:12
Alignment explanation
Indices: 22467024--22467048 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
22467014 CTTAAAAACA
22467024 CAATTTTTAAAT
1 CAATTTTTAAAT
22467036 CAATTTTTAAAT
1 CAATTTTTAAAT
22467048 C
1 C
22467049 TCGATCTTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.12, G:0.00, T:0.48
Consensus pattern (12 bp):
CAATTTTTAAAT
Found at i:22467780 original size:48 final size:48
Alignment explanation
Indices: 22467721--22467826 Score: 153
Period size: 48 Copynumber: 2.2 Consensus size: 48
22467711 GTCACATAGT
* *
22467721 CACATATTCACTTTGCAG-TAAAATTGCCACATAATTGCCATAAATGGC
1 CACATAATCACTTTGCAGAT-AAACTGCCACATAATTGCCATAAATGGC
* *
22467769 CACATAATCACTTTGCAGATAAACTGCCACATACTTGTCATAAATGGC
1 CACATAATCACTTTGCAGATAAACTGCCACATAATTGCCATAAATGGC
22467817 CACAT-ATCAC
1 CACATAATCAC
22467827 ATATTTGCCA
Statistics
Matches: 53, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
47 5 0.09
48 47 0.89
49 1 0.02
ACGTcount: A:0.36, C:0.25, G:0.11, T:0.27
Consensus pattern (48 bp):
CACATAATCACTTTGCAGATAAACTGCCACATAATTGCCATAAATGGC
Found at i:22470475 original size:52 final size:51
Alignment explanation
Indices: 22470296--22470537 Score: 342
Period size: 51 Copynumber: 4.7 Consensus size: 51
22470286 TAAACGAAAG
*
22470296 GGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAA
1 GGTCCGATGGCTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAA
* **
22470347 GGTCCGATGAG-TAAGTGTCATCATGAGTAAATGAATTATTTACGGATTAAA
1 GGTCCGATG-GCTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAA
* * *
22470398 GGTCCAATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTATGA
1 GGTCCGATGGCTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTA-AA
* * *
22470450 GGTCCGATGGCTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGA
1 GGTCCGATGGCTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTA-AA
* *
22470502 GGTCCGATGGCTATGTGTCATCGTGAGTATATGAAT
1 GGTCCGATGGCTAAGTGTCATCGTGAGTAAATGAAT
22470538 GAAATGAAAT
Statistics
Matches: 174, Mismatches: 14, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
51 89 0.51
52 85 0.49
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.32
Consensus pattern (51 bp):
GGTCCGATGGCTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAA
Found at i:22475397 original size:102 final size:101
Alignment explanation
Indices: 22475253--22475442 Score: 299
Period size: 102 Copynumber: 1.9 Consensus size: 101
22475243 TGAGTAAATA
22475253 AATCCTTTACGGATTAAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCATTTACGGAT
1 AATCCTTTACGGATTAAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCATTTACGGAT
*
22475318 TATGAGGTCCGATGGCTATGTGTCATAAAGTATATG
66 TATAAGGTCCGATGGCTATGTGTCATAAAGTATATG
* * * * * *
22475354 AATCCTTTACGGATTATGAGGTTCGATGGCTATGTGTCATCGTGAGTATATGAATCCTTTACGGA
1 AATCCTTTACGGATTA-AAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCATTTACGGA
*
22475419 TTATAAGGTCCGGTGGCTATGTGT
65 TTATAAGGTCCGATGGCTATGTGT
22475443 TATCGTGAGT
Statistics
Matches: 80, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
101 16 0.20
102 64 0.80
ACGTcount: A:0.27, C:0.14, G:0.25, T:0.34
Consensus pattern (101 bp):
AATCCTTTACGGATTAAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCATTTACGGAT
TATAAGGTCCGATGGCTATGTGTCATAAAGTATATG
Found at i:22475436 original size:52 final size:52
Alignment explanation
Indices: 22475220--22475460 Score: 326
Period size: 52 Copynumber: 4.7 Consensus size: 52
22475210 TAAACGAAAG
* * * *
22475220 GGTCCGATGACTAAGTGTCATCGTGAGTAAATAAATCCTTTACGGATTA-AA
1 GGTCCGATGGCTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATAA
* * * * *
22475271 GGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCATTTACGGATTATGA
1 GGTCCGATGGCTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATAA
** *
22475323 GGTCCGATGGCTATGTGTCAT--AAAGTATATGAATCCTTTACGGATTATGA
1 GGTCCGATGGCTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATAA
*
22475373 GGTTCGATGGCTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATAA
1 GGTCCGATGGCTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATAA
* *
22475425 GGTCCGGTGGCTATGTGTTATCGTGAGTATATGAAT
1 GGTCCGATGGCTATGTGTCATCGTGAGTATATGAAT
22475461 GAAATGAAAT
Statistics
Matches: 171, Mismatches: 16, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
50 45 0.26
51 47 0.27
52 79 0.46
ACGTcount: A:0.28, C:0.14, G:0.25, T:0.33
Consensus pattern (52 bp):
GGTCCGATGGCTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATAA
Found at i:22481189 original size:27 final size:26
Alignment explanation
Indices: 22481163--22481247 Score: 70
Period size: 27 Copynumber: 3.2 Consensus size: 26
22481153 GATTAGTCGA
22481163 AGCCAATAAAGAATATAGCTCATTCG
1 AGCCAATAAAGAATATAGCTCATTCG
*
22481189 AGCTCAA-AACA-AATTATTGCTCATTCG
1 AGC-CAATAA-AGAA-TATAGCTCATTCG
*
22481216 AGCCAGATACAGAATAGT-GCTTC-TTCG
1 AGCCA-ATAAAGAATA-TAGC-TCATTCG
22481243 AGCCA
1 AGCCA
22481248 GAATGCAAAG
Statistics
Matches: 49, Mismatches: 2, Indels: 15
0.74 0.03 0.23
Matches are distributed among these distances:
26 9 0.18
27 34 0.69
28 6 0.12
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.25
Consensus pattern (26 bp):
AGCCAATAAAGAATATAGCTCATTCG
Found at i:22481274 original size:28 final size:28
Alignment explanation
Indices: 22481206--22481368 Score: 172
Period size: 28 Copynumber: 5.9 Consensus size: 28
22481196 AACAAATTAT
* *
22481206 TGCTCATTCGAGCCAG-ATACAGAATAG
1 TGCTCTTTCGAGCCAGAATACAGAATAA
*
22481233 TGCT-TCTTCGAGCCAGAATGCA-AAGTAA
1 TGCTCT-TTCGAGCCAGAATACAGAA-TAA
* * *
22481261 TGCTCTTTTGAGCCAAAATTCAGAATAA
1 TGCTCTTTCGAGCCAGAATACAGAATAA
* * *
22481289 TTCTCTTTCGAACCAGAATACAGAATAG
1 TGCTCTTTCGAGCCAGAATACAGAATAA
*
22481317 TGCTCTTTCGAGCCAGAATACATAATAA
1 TGCTCTTTCGAGCCAGAATACAGAATAA
*
22481345 CT-CTCTTTCGAGCCAGAATTCAGA
1 -TGCTCTTTCGAGCCAGAATACAGA
22481369 GTATTTCTCA
Statistics
Matches: 112, Mismatches: 18, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
27 16 0.14
28 92 0.82
29 4 0.04
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (28 bp):
TGCTCTTTCGAGCCAGAATACAGAATAA
Found at i:22481316 original size:84 final size:83
Alignment explanation
Indices: 22481212--22481377 Score: 221
Period size: 84 Copynumber: 2.0 Consensus size: 83
22481202 TTATTGCTCA
* * *
22481212 TTCGAGCCAGATACAGAATAGTGCT-TCTTCGAGCCAGAATGCA-AAGTAA-TGCTCTTTTGAGC
1 TTCGAACCAGATACAGAATAGTGCTCT-TTCGAGCCAGAATACATAA-TAACT-CTCTTTCGAGC
22481274 CAAAATTCAGAATAATTCTCT
63 CAAAATTCAGAATAATTCTCT
22481295 TTCGAACCAGAATACAGAATAGTGCTCTTTCGAGCCAGAATACATAATAACTCTCTTTCGAGCCA
1 TTCGAACCAG-ATACAGAATAGTGCTCTTTCGAGCCAGAATACATAATAACTCTCTTTCGAGCCA
* * *
22481360 GAATTCAGAGTATTTCTC
65 AAATTCAGAATAATTCTC
22481378 AAGCCTTCAC
Statistics
Matches: 73, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
83 9 0.12
84 60 0.82
85 4 0.05
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.29
Consensus pattern (83 bp):
TTCGAACCAGATACAGAATAGTGCTCTTTCGAGCCAGAATACATAATAACTCTCTTTCGAGCCAA
AATTCAGAATAATTCTCT
Found at i:22485902 original size:71 final size:71
Alignment explanation
Indices: 22485819--22485961 Score: 277
Period size: 71 Copynumber: 2.0 Consensus size: 71
22485809 CTCAGCTCTT
*
22485819 CCAGCTCATCAAGTTTTAACATCCTTCTTTCATCGGCTTGCTTAAGATAAAAATTCAACTGCTTC
1 CCAGCTCATCAAGTTTTAACATCCTTCTCTCATCGGCTTGCTTAAGATAAAAATTCAACTGCTTC
22485884 AAAGCC
66 AAAGCC
22485890 CCAGCTCATCAAGTTTTAACATCCTTCTCTCATCGGCTTGCTTAAGATAAAAATTCAACTGCTTC
1 CCAGCTCATCAAGTTTTAACATCCTTCTCTCATCGGCTTGCTTAAGATAAAAATTCAACTGCTTC
22485955 AAAGCC
66 AAAGCC
22485961 C
1 C
22485962 AGTGAGCTTT
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 71 1.00
ACGTcount: A:0.29, C:0.28, G:0.11, T:0.31
Consensus pattern (71 bp):
CCAGCTCATCAAGTTTTAACATCCTTCTCTCATCGGCTTGCTTAAGATAAAAATTCAACTGCTTC
AAAGCC
Found at i:22494798 original size:21 final size:21
Alignment explanation
Indices: 22494772--22494828 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
22494762 AACAGTGCAG
*
22494772 ACTTCTACCGATACAAGT-AT
1 ACTTCTACCGATACAAATCAT
* *
22494792 AACTTCTATCGAAACAAATCAT
1 -ACTTCTACCGATACAAATCAT
22494814 ACTTCTACCCGATAC
1 ACTTCTA-CCGATAC
22494829 TAAAAACTCA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
21 22 0.76
22 7 0.24
ACGTcount: A:0.37, C:0.28, G:0.07, T:0.28
Consensus pattern (21 bp):
ACTTCTACCGATACAAATCAT
Found at i:22494922 original size:24 final size:24
Alignment explanation
Indices: 22494888--22494968 Score: 64
Period size: 24 Copynumber: 3.5 Consensus size: 24
22494878 CAAGCATCTT
*
22494888 AACTACCAATACAAGCATACACAG
1 AACTACTAATACAAGCATACACAG
* *
22494912 AACTACTAATAC---C-TACTATAC
1 AACTACTAATACAAGCATAC-ACAG
*
22494933 AACTAAC-GATACAAGCATACACAG
1 AACT-ACTAATACAAGCATACACAG
*
22494957 AACTACTGATAC
1 AACTACTAATAC
22494969 TACTATACAA
Statistics
Matches: 44, Mismatches: 6, Indels: 14
0.69 0.09 0.22
Matches are distributed among these distances:
20 3 0.07
21 11 0.25
22 2 0.05
23 2 0.05
24 23 0.52
25 3 0.07
ACGTcount: A:0.47, C:0.27, G:0.07, T:0.19
Consensus pattern (24 bp):
AACTACTAATACAAGCATACACAG
Found at i:22494976 original size:24 final size:24
Alignment explanation
Indices: 22494904--22494977 Score: 61
Period size: 24 Copynumber: 3.2 Consensus size: 24
22494894 CAATACAAGC
*
22494904 ATACACAGAACTACTAATACCTACT
1 ATACACAGAACTACTGATA-CTACT
*
22494929 AT--AC--AACTAAC-GATACAAGC-
1 ATACACAGAACT-ACTGATACTA-CT
22494949 ATACACAGAACTACTGATACTACT
1 ATACACAGAACTACTGATACTACT
22494973 ATACA
1 ATACA
22494978 ATTACCGATA
Statistics
Matches: 38, Mismatches: 3, Indels: 17
0.66 0.05 0.29
Matches are distributed among these distances:
20 4 0.11
21 8 0.21
22 4 0.11
23 5 0.13
24 15 0.39
25 2 0.05
ACGTcount: A:0.46, C:0.26, G:0.07, T:0.22
Consensus pattern (24 bp):
ATACACAGAACTACTGATACTACT
Found at i:22494987 original size:44 final size:45
Alignment explanation
Indices: 22494888--22494990 Score: 163
Period size: 45 Copynumber: 2.3 Consensus size: 45
22494878 CAAGCATCTT
*
22494888 AACTACCAATACAAGCATACACAGAACTACTAATACCTACTATAC
1 AACTACCGATACAAGCATACACAGAACTACTAATACCTACTATAC
* *
22494933 AACTAACGATACAAGCATACACAGAACTACTGATA-CTACTATAC
1 AACTACCGATACAAGCATACACAGAACTACTAATACCTACTATAC
*
22494977 AATTACCGATACAA
1 AACTACCGATACAA
22494991 CCCAACTCAG
Statistics
Matches: 53, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
44 21 0.40
45 32 0.60
ACGTcount: A:0.47, C:0.26, G:0.07, T:0.20
Consensus pattern (45 bp):
AACTACCGATACAAGCATACACAGAACTACTAATACCTACTATAC
Found at i:22495632 original size:41 final size:41
Alignment explanation
Indices: 22495514--22495734 Score: 212
Period size: 41 Copynumber: 5.3 Consensus size: 41
22495504 CAGGTTCACA
* * * *
22495514 AGTCTTCCTTTAATACAATCTTATGCTC-TACCGAGTCATA
1 AGTCTTCCTTTAATATAATCTCATGCTCATCCCGAGTCATG
* * * *
22495554 AGTCTTCCTTTTTAAAATAATCTCACGCTTAAT-CCGAGGCATG
1 AGTCTTCC--TTTAATATAATCTCATGC-TCATCCCGAGTCATG
* *
22495597 AGTCTTCCTTTAATATAATCTCATTCTCATCCCGAGACATG
1 AGTCTTCCTTTAATATAATCTCATGCTCATCCCGAGTCATG
* * * * * *
22495638 AGTTTTCCTTTAACATATTCTCATGCTCATTCTGAGTCACG
1 AGTCTTCCTTTAATATAATCTCATGCTCATCCCGAGTCATG
* *
22495679 AGTCTTCCTTTTATATAAATTCTCATGCTCAACCCGAGTCATG
1 AGTCTTCCTTTAATAT-AA-TCTCATGCTCATCCCGAGTCATG
22495722 AGTCTTCCATTTA
1 AGTCTTCC-TTTA
22495735 TACATCAAGT
Statistics
Matches: 144, Mismatches: 29, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
40 11 0.08
41 70 0.49
42 15 0.10
43 44 0.31
44 4 0.03
ACGTcount: A:0.26, C:0.25, G:0.11, T:0.38
Consensus pattern (41 bp):
AGTCTTCCTTTAATATAATCTCATGCTCATCCCGAGTCATG
Found at i:22501340 original size:53 final size:53
Alignment explanation
Indices: 22501256--22501445 Score: 191
Period size: 53 Copynumber: 3.6 Consensus size: 53
22501246 TGCCAAAGAT
* * *
22501256 TAAAGGTCCGATGACTCTGTGTCATTGTGAGTTATATGAATCCTATCACAGAA
1 TAAAGGTTCGATGACTATGTGTCATCGTGAGTTATATGAATCCTATCACAGAA
* * * * * * ** *
22501309 TAAAGGTTCGATGAGTGTGTGTGATCATGAGTTATATGAATTCTATTATGGAT
1 TAAAGGTTCGATGACTATGTGTCATCGTGAGTTATATGAATCCTATCACAGAA
* * * * *
22501362 TAAAGGTTCGATGATTATGTGTCATCGTAAGTTATATGAATCCTATTACGGAT
1 TAAAGGTTCGATGACTATGTGTCATCGTGAGTTATATGAATCCTATCACAGAA
* * * *
22501415 TAAGGGTCCAATGACTTTGTGTCATCGTGAG
1 TAAAGGTTCGATGACTATGTGTCATCGTGAG
22501446 GTACACAAAT
Statistics
Matches: 113, Mismatches: 24, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
53 113 1.00
ACGTcount: A:0.28, C:0.12, G:0.24, T:0.36
Consensus pattern (53 bp):
TAAAGGTTCGATGACTATGTGTCATCGTGAGTTATATGAATCCTATCACAGAA
Found at i:22501457 original size:53 final size:53
Alignment explanation
Indices: 22501351--22501492 Score: 144
Period size: 53 Copynumber: 2.7 Consensus size: 53
22501341 TATATGAATT
* * * **
22501351 CTATTATGGATTAAAGGTTCGATGA-TTATGTGTCATCGTAAGTTATATGAATC
1 CTATTATGGATTAAAGGTCCGATGACTT-TGTGTCATCGTAAGGTACACAAATC
* * * *
22501404 CTATTACGGATTAAGGGTCCAATGACTTTGTGTCATCGTGAGGTACACAAATC
1 CTATTATGGATTAAAGGTCCGATGACTTTGTGTCATCGTAAGGTACACAAATC
* * * *
22501457 C-ATCATGGATTAAAGGTCTGATGACTCTATGTCATC
1 CTATTATGGATTAAAGGTCCGATGACTTTGTGTCATC
22501493 ATACATTATC
Statistics
Matches: 72, Mismatches: 16, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
52 28 0.39
53 42 0.58
54 2 0.03
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.35
Consensus pattern (53 bp):
CTATTATGGATTAAAGGTCCGATGACTTTGTGTCATCGTAAGGTACACAAATC
Found at i:22503991 original size:53 final size:53
Alignment explanation
Indices: 22503912--22504151 Score: 297
Period size: 53 Copynumber: 4.6 Consensus size: 53
22503902 CTTGCGCCAA
22503912 AGATTAAA-GTCCGATGACTCTGTGTCATCGTGAGTTATATGAATCCTATCAT
1 AGATTAAAGGTCCGATGACTCTGTGTCATCGTGAGTTATATGAATCCTATCAT
*
22503964 AGATTAAAGGTTCGATGACTCTGTGTCATCGTGAGTTATATGAATCCTATCAT
1 AGATTAAAGGTCCGATGACTCTGTGTCATCGTGAGTTATATGAATCCTATCAT
* * * * *
22504017 -GAATTAAAGGTCCGATGATTATGAGTCATCGTGAGTTATATGAATCCTATTAC
1 AG-ATTAAAGGTCCGATGACTCTGTGTCATCGTGAGTTATATGAATCCTATCAT
* * * * * * * **
22504070 GGATTAAGGGTCTGATGACTTTTTGTCATCGTGAGATACACAAATCC-ATCAT
1 AGATTAAAGGTCCGATGACTCTGTGTCATCGTGAGTTATATGAATCCTATCAT
* *
22504122 GGATTTAAGGTCCGATGACTCTGTGTCATC
1 AGATTAAAGGTCCGATGACTCTGTGTCATC
22504152 ATACATTATC
Statistics
Matches: 161, Mismatches: 24, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
52 37 0.23
53 123 0.76
54 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.34
Consensus pattern (53 bp):
AGATTAAAGGTCCGATGACTCTGTGTCATCGTGAGTTATATGAATCCTATCAT
Found at i:22511980 original size:248 final size:246
Alignment explanation
Indices: 22511542--22512040 Score: 946
Period size: 248 Copynumber: 2.0 Consensus size: 246
22511532 GGTCGAAACC
*
22511542 ACATTGGACAAAAATCCCGATCTTTCACTAACGACAACAATTTCCAGACCATCACTATTACTTAA
1 ACATTGGACAAAAATCCCGATCTTTCACCAACGACAACAATTTCCAGACCATCACTATTACTTAA
*
22511607 AGTAATTCGCTTCGTCTCAAAATCTACCTTAGCCTTATGCTAAGTCAACCAATTCATTTCAAAAA
66 AGTAATTCGCTTCATCTCAAAATCTACCTTAGCCTTATGCTAAGTCAACCAATTCATTTCAAAAA
*
22511672 TTACATCGAACCCATAAAACGACAATTCCATAAGGTCAATAGAGAATACGTGCCCTTGGGTCATA
131 TTACATCAAACCCATAAAACGACAATTCCATAAGGTCAATAGAGAATACGTGCCCTTGGGTCATA
22511737 AGGGGGTATCTACGGTAAACTCTATTCACTATCACACTATCCCCAAAGGAACT
196 A-GGGGTATCTACGGTAAACTCTATTCACTATCACACTATCCCCAAA-GAACT
22511790 ACATTGGACAAAAATCCCGATCTTTCACCAACGACAACAATTTCCAGACCATCACTATTACTTAA
1 ACATTGGACAAAAATCCCGATCTTTCACCAACGACAACAATTTCCAGACCATCACTATTACTTAA
22511855 AGTAATTCGCTTCATCTCAAAATCTACCTTAGCCTTATGCTAAGTCAACCAATTCATTTCAAAAA
66 AGTAATTCGCTTCATCTCAAAATCTACCTTAGCCTTATGCTAAGTCAACCAATTCATTTCAAAAA
22511920 TTACATCAAACCCATAAAACGACAATTCCATAAGGTCAATAGAGAATACGTGCCCTTGGGTCATA
131 TTACATCAAACCCATAAAACGACAATTCCATAAGGTCAATAGAGAATACGTGCCCTTGGGTCATA
22511985 AGGGGTATCTACGGTAAACTCTATTCACTATCACACTATCCCCAAAGAACT
196 AGGGGTATCTACGGTAAACTCTATTCACTATCACACTATCCCCAAAGAACT
22512036 A-ATTG
1 ACATTG
22512041 CAGTCATTCC
Statistics
Matches: 248, Mismatches: 3, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
245 4 0.02
246 6 0.02
247 45 0.18
248 193 0.78
ACGTcount: A:0.36, C:0.25, G:0.12, T:0.27
Consensus pattern (246 bp):
ACATTGGACAAAAATCCCGATCTTTCACCAACGACAACAATTTCCAGACCATCACTATTACTTAA
AGTAATTCGCTTCATCTCAAAATCTACCTTAGCCTTATGCTAAGTCAACCAATTCATTTCAAAAA
TTACATCAAACCCATAAAACGACAATTCCATAAGGTCAATAGAGAATACGTGCCCTTGGGTCATA
AGGGGTATCTACGGTAAACTCTATTCACTATCACACTATCCCCAAAGAACT
Found at i:22513101 original size:23 final size:22
Alignment explanation
Indices: 22513085--22513175 Score: 119
Period size: 23 Copynumber: 4.0 Consensus size: 22
22513075 TTTACACAAT
22513085 AATCATATTAACATTTAAGCATA
1 AATCATATTAACATTTAA-CATA
*
22513108 AATCATATTAACATTTAAGTATA
1 AATCATATTAACATTTAA-CATA
*
22513131 AATCACATTAACATTTAAGCATA
1 AATCATATTAACATTTAA-CATA
* *
22513154 AATCACATTAATATTTAACATA
1 AATCATATTAACATTTAACATA
22513176 TAATGCATTA
Statistics
Matches: 64, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
22 4 0.06
23 60 0.94
ACGTcount: A:0.48, C:0.13, G:0.03, T:0.35
Consensus pattern (22 bp):
AATCATATTAACATTTAACATA
Found at i:22521328 original size:38 final size:34
Alignment explanation
Indices: 22521272--22521352 Score: 90
Period size: 34 Copynumber: 2.3 Consensus size: 34
22521262 CACCCAAGAC
* * *
22521272 TGTCGCTGCATAAATATTCTTCAAATTGCATCTAGAAA
1 TGTCACTGCATAAATA---TTC-AATTGCACCCAGAAA
*
22521310 TGTCACTGCATAAGTATTCAATTGCACCCAGAAA
1 TGTCACTGCATAAATATTCAATTGCACCCAGAAA
22521344 TGTCACTGC
1 TGTCACTGC
22521353 CTGAACATGT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
34 22 0.56
35 3 0.08
38 14 0.36
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.31
Consensus pattern (34 bp):
TGTCACTGCATAAATATTCAATTGCACCCAGAAA
Found at i:22523967 original size:16 final size:16
Alignment explanation
Indices: 22523948--22523978 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
22523938 AAAAGAATTG
22523948 TATAACAGTATATATA
1 TATAACAGTATATATA
*
22523964 TATAATAGTATATAT
1 TATAACAGTATATAT
22523979 GTAAAAACAA
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:0.48, C:0.03, G:0.06, T:0.42
Consensus pattern (16 bp):
TATAACAGTATATATA
Found at i:22527690 original size:7 final size:7
Alignment explanation
Indices: 22527666--22527758 Score: 52
Period size: 7 Copynumber: 13.3 Consensus size: 7
22527656 TATGTTTGTA
22527666 TTTAGAGT
1 TTTAG-GT
22527674 TTT-GGAT
1 TTTAGG-T
22527681 TTTAGGT
1 TTTAGGT
22527688 TTTAGGT
1 TTTAGGT
*
22527695 TTTA-GC
1 TTTAGGT
22527701 TTTAGGGT
1 TTTA-GGT
*
22527709 TTTAGCT
1 TTTAGGT
*
22527716 TTAAGG-
1 TTTAGGT
22527722 TTTAGAG-
1 TTTAG-GT
* *
22527729 TATGGGT
1 TTTAGGT
*
22527736 TTTA-GC
1 TTTAGGT
22527742 TTTAGGGT
1 TTTA-GGT
22527750 TTTAGGT
1 TTTAGGT
22527757 TT
1 TT
22527759 AGGGCCTAGG
Statistics
Matches: 65, Mismatches: 12, Indels: 17
0.69 0.13 0.18
Matches are distributed among these distances:
6 16 0.25
7 34 0.52
8 15 0.23
ACGTcount: A:0.17, C:0.03, G:0.28, T:0.52
Consensus pattern (7 bp):
TTTAGGT
Found at i:22527759 original size:14 final size:14
Alignment explanation
Indices: 22527666--22527762 Score: 83
Period size: 14 Copynumber: 6.9 Consensus size: 14
22527656 TATGTTTGTA
* *
22527666 TTTAGAGTTTTGGAT
1 TTTAG-GTTTAGGGT
22527681 TTTAGGTTTTA-GGT
1 TTTAGG-TTTAGGGT
*
22527695 TTTAGCTTTAGGGT
1 TTTAGGTTTAGGGT
* *
22527709 TTTAGCTTTAAGG-
1 TTTAGGTTTAGGGT
*
22527722 TTTAGAGTAT-GGGT
1 TTTAG-GTTTAGGGT
*
22527736 TTTAGCTTTAGGGT
1 TTTAGGTTTAGGGT
22527750 TTTAGGTTTAGGG
1 TTTAGGTTTAGGG
22527763 CCTAGGGTTC
Statistics
Matches: 67, Mismatches: 10, Indels: 11
0.76 0.11 0.12
Matches are distributed among these distances:
13 13 0.19
14 46 0.69
15 8 0.12
ACGTcount: A:0.18, C:0.03, G:0.30, T:0.49
Consensus pattern (14 bp):
TTTAGGTTTAGGGT
Found at i:22528643 original size:8 final size:8
Alignment explanation
Indices: 22528630--22528666 Score: 58
Period size: 8 Copynumber: 4.8 Consensus size: 8
22528620 CTAAATTTTT
*
22528630 CTTAAACC
1 CTTAAAAC
22528638 CTTAAAAC
1 CTTAAAAC
22528646 CTT-AAAC
1 CTTAAAAC
22528653 CTTAAAAC
1 CTTAAAAC
22528661 CTTAAA
1 CTTAAA
22528667 CCCTAAATAC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
7 7 0.26
8 20 0.74
ACGTcount: A:0.46, C:0.27, G:0.00, T:0.27
Consensus pattern (8 bp):
CTTAAAAC
Found at i:22528654 original size:7 final size:7
Alignment explanation
Indices: 22528630--22528673 Score: 52
Period size: 7 Copynumber: 5.9 Consensus size: 7
22528620 CTAAATTTTT
22528630 CTTAAACC
1 CTTAAA-C
22528638 CTTAAAAC
1 CTT-AAAC
22528646 CTTAAAC
1 CTTAAAC
22528653 CTTAAAAC
1 CTT-AAAC
22528661 CTTAAAC
1 CTTAAAC
*
22528668 CCTAAA
1 CTTAAA
22528674 TACAAACATA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
7 16 0.48
8 14 0.42
9 3 0.09
ACGTcount: A:0.45, C:0.30, G:0.00, T:0.25
Consensus pattern (7 bp):
CTTAAAC
Found at i:22528657 original size:15 final size:15
Alignment explanation
Indices: 22528630--22528673 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 15
22528620 CTAAATTTTT
22528630 CTTAAACCCTTAAAAC
1 CTTAAA-CCTTAAAAC
22528646 CTTAAACCTTAAAAC
1 CTTAAACCTTAAAAC
*
22528661 CTTAAACCCTAAA
1 CTTAAACCTTAAA
22528674 TACAAACATA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
15 21 0.78
16 6 0.22
ACGTcount: A:0.45, C:0.30, G:0.00, T:0.25
Consensus pattern (15 bp):
CTTAAACCTTAAAAC
Found at i:22528699 original size:26 final size:26
Alignment explanation
Indices: 22528670--22528748 Score: 140
Period size: 26 Copynumber: 3.0 Consensus size: 26
22528660 CCTTAAACCC
22528670 TAAATACAAACATAAACATAATTAAT
1 TAAATACAAACATAAACATAATTAAT
22528696 TAAATACAAACATAAACATAATTAAT
1 TAAATACAAACATAAACATAATTAAT
* *
22528722 TAATTACAAATATAAACATAATTAAT
1 TAAATACAAACATAAACATAATTAAT
22528748 T
1 T
22528749 CCAAATTTAT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 51 1.00
ACGTcount: A:0.59, C:0.10, G:0.00, T:0.30
Consensus pattern (26 bp):
TAAATACAAACATAAACATAATTAAT
Found at i:22534558 original size:21 final size:21
Alignment explanation
Indices: 22534534--22534573 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
22534524 TAGTGTAGAC
*
22534534 TTCTACCGATACAAGTGACAG
1 TTCTACCGAAACAAGTGACAG
*
22534555 TTCTACCGAAATAAGTGAC
1 TTCTACCGAAACAAGTGAC
22534574 TCTTTTACCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.25
Consensus pattern (21 bp):
TTCTACCGAAACAAGTGACAG
Found at i:22535478 original size:52 final size:52
Alignment explanation
Indices: 22535355--22535648 Score: 383
Period size: 52 Copynumber: 5.6 Consensus size: 52
22535345 TTGCATTTTT
* * * ** *
22535355 TATACTCACGATGACATAGAGTCATCGGACCT-TTAATCCGTATTGGGAATTATA
1 TATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTA-AAGG-ATT-CA
* * *
22535409 TATACTCACGATGACACATAATCATCGAACCTCATAATCCGTAAGGGATTCA
1 TATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCA
22535461 TATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCA
1 TATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCA
* * *
22535513 TATATTCACGATGACACATAGTCATTGGACCTCATAATCCGTAAAAGATTCA
1 TATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCA
* * * * *
22535565 TACACTCACGATGACACATAGTTATCGGACCTCATTACCCATAAAGGATTCA
1 TATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCA
* *
22535617 TATACTCACAATGACACATAGTCATTGGACCT
1 TATACTCACGATGACACATAGTCATCGGACCT
22535649 TTTTCATTTA
Statistics
Matches: 214, Mismatches: 25, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
52 171 0.80
53 3 0.01
54 31 0.14
55 9 0.04
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (52 bp):
TATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCA
Found at i:22541491 original size:71 final size:71
Alignment explanation
Indices: 22541375--22541522 Score: 190
Period size: 71 Copynumber: 2.1 Consensus size: 71
22541365 TTGACTTTTT
* * *
22541375 TCGGTAGAAGTTCCAAGCCATAACTTCTTTGCTCTCTAGAGTTTGTTCTACCGATAGAA-CTCTT
1 TCGGTAGAAGTCCCAAGCCACAACTTCTTTGCTCTCTAGAGTTTGTTCTAACGATAGAAGC-CTT
**
22541439 GGTTGTA
65 AATTGTA
* * * * *
22541446 TCGGTAGAAGTCCCATGCCACAACTTCTTTTCTCTTTGGATTTTGTTCTAACGATAGAAGCCTTA
1 TCGGTAGAAGTCCCAAGCCACAACTTCTTTGCTCTCTAGAGTTTGTTCTAACGATAGAAGCCTTA
22541511 ATTGTA
66 ATTGTA
22541517 TCGGTA
1 TCGGTA
22541523 CAACCAAGAG
Statistics
Matches: 66, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
71 65 0.98
72 1 0.02
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.37
Consensus pattern (71 bp):
TCGGTAGAAGTCCCAAGCCACAACTTCTTTGCTCTCTAGAGTTTGTTCTAACGATAGAAGCCTTA
ATTGTA
Found at i:22553560 original size:17 final size:18
Alignment explanation
Indices: 22553540--22553578 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
22553530 AGATGTACTA
* *
22553540 ACAAATGA-AATGCAGTG
1 ACAAATGATAATACAATG
22553557 ACAAATGATAATACAATG
1 ACAAATGATAATACAATG
22553575 ACAA
1 ACAA
22553579 CTAAATAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.54, C:0.13, G:0.15, T:0.18
Consensus pattern (18 bp):
ACAAATGATAATACAATG
Found at i:22559561 original size:42 final size:42
Alignment explanation
Indices: 22559500--22559726 Score: 337
Period size: 42 Copynumber: 5.4 Consensus size: 42
22559490 GGAGTTGTGT
22559500 ATGGCTTCAATCTGCCCCTCTAGATTAGGGGTAAAAGATTGG
1 ATGGCTTCAATCTGCCCCTCTAGATTAGGGGTAAAAGATTGG
* * * *
22559542 ATGGCTTCAATCTGTCCCTCTAGATTAGGGGTAAAATACTAG
1 ATGGCTTCAATCTGCCCCTCTAGATTAGGGGTAAAAGATTGG
* * *
22559584 ATGGCTTCAATTTGCCCCTCTGGATTTGGGGTAAAAAGATTGG
1 ATGGCTTCAATCTGCCCCTCTAGATTAGGGGT-AAAAGATTGG
* * *
22559627 ATGGCTTCAATCTGCTCCTCTAGATTAGGGGTAAAAGACTAG
1 ATGGCTTCAATCTGCCCCTCTAGATTAGGGGTAAAAGATTGG
* *
22559669 ATGGCTTCAATCTACCCCTCTAGATTAAGGGTAAAAGATTGG
1 ATGGCTTCAATCTGCCCCTCTAGATTAGGGGTAAAAGATTGG
22559711 ATGGCTTCAATCTGCC
1 ATGGCTTCAATCTGCC
22559727 ACTATGGATT
Statistics
Matches: 161, Mismatches: 23, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
42 126 0.78
43 35 0.22
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (42 bp):
ATGGCTTCAATCTGCCCCTCTAGATTAGGGGTAAAAGATTGG
Found at i:22559647 original size:85 final size:85
Alignment explanation
Indices: 22559500--22559725 Score: 375
Period size: 85 Copynumber: 2.7 Consensus size: 85
22559490 GGAGTTGTGT
22559500 ATGGCTTCAATCTGCCCCTCTAGATTAGGGGTAAAAGATTGGATGGCTTCAATCTG-TCCCTCTA
1 ATGGCTTCAATCTGCCCCTCTAGATTAGGGGTAAAAGATTGGATGGCTTCAATCTGCTCCCTCTA
*
22559564 GATTAGGGGTAAAATACTAG
66 GATTAGGGGTAAAAGACTAG
* * *
22559584 ATGGCTTCAATTTGCCCCTCTGGATTTGGGGTAAAAAGATTGGATGGCTTCAATCTGCT-CCTCT
1 ATGGCTTCAATCTGCCCCTCTAGATTAGGGGT-AAAAGATTGGATGGCTTCAATCTGCTCCCTCT
22559648 AGATTAGGGGTAAAAGACTAG
65 AGATTAGGGGTAAAAGACTAG
* *
22559669 ATGGCTTCAATCTACCCCTCTAGATTAAGGGTAAAAGATTGGATGGCTTCAATCTGC
1 ATGGCTTCAATCTGCCCCTCTAGATTAGGGGTAAAAGATTGGATGGCTTCAATCTGC
22559726 CACTATGGAT
Statistics
Matches: 131, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
84 54 0.41
85 76 0.58
86 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (85 bp):
ATGGCTTCAATCTGCCCCTCTAGATTAGGGGTAAAAGATTGGATGGCTTCAATCTGCTCCCTCTA
GATTAGGGGTAAAAGACTAG
Found at i:22559672 original size:127 final size:127
Alignment explanation
Indices: 22559500--22559738 Score: 370
Period size: 127 Copynumber: 1.9 Consensus size: 127
22559490 GGAGTTGTGT
* * **
22559500 ATGGCTTCAATCTGCCCCTCTAGATTAGGGGTAAAAGATTGGATGGCTTCAATCTGTCCCTCTAG
1 ATGGCTTCAATCTGCCCCTCTAGATTAGGGGTAAAAGACTAGATGGCTTCAATCTACCCCTCTAG
* * * * *
22559565 ATTAGGGGTAAAATACTAGATGGCTTCAATTTGCCCCTCTGGATTTGGGGTAAAAAGATTGG
66 ATTAAGGGTAAAAGACTAGATGGCTTCAATCTGCCACTATGGATTTGGGGTAAAAAGATTGG
*
22559627 ATGGCTTCAATCTGCTCCTCTAGATTAGGGGTAAAAGACTAGATGGCTTCAATCTACCCCTCTAG
1 ATGGCTTCAATCTGCCCCTCTAGATTAGGGGTAAAAGACTAGATGGCTTCAATCTACCCCTCTAG
* *
22559692 ATTAAGGGTAAAAGATTGGATGGCTTCAATCTGCCACTATGGATTTG
66 ATTAAGGGTAAAAGACTAGATGGCTTCAATCTGCCACTATGGATTTG
22559739 CAACACCCAA
Statistics
Matches: 100, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
127 100 1.00
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.31
Consensus pattern (127 bp):
ATGGCTTCAATCTGCCCCTCTAGATTAGGGGTAAAAGACTAGATGGCTTCAATCTACCCCTCTAG
ATTAAGGGTAAAAGACTAGATGGCTTCAATCTGCCACTATGGATTTGGGGTAAAAAGATTGG
Found at i:22560013 original size:21 final size:21
Alignment explanation
Indices: 22559989--22560040 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
22559979 TGAGACAATA
*
22559989 CTACCGATACAAGT-ATGACTT
1 CTACCGAAACAAGTCATG-CTT
*
22560010 CTACCGAAACATGTCATGCTT
1 CTACCGAAACAAGTCATGCTT
22560031 CTACCGAAAC
1 CTACCGAAAC
22560041 TAAAAACTCC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 25 0.89
22 3 0.11
ACGTcount: A:0.33, C:0.29, G:0.13, T:0.25
Consensus pattern (21 bp):
CTACCGAAACAAGTCATGCTT
Found at i:22562521 original size:16 final size:16
Alignment explanation
Indices: 22562496--22562526 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
22562486 ACAATTAACT
22562496 TTTAACCCTTTTTCAA
1 TTTAACCCTTTTTCAA
*
22562512 TTTAATCCTTTTTCA
1 TTTAACCCTTTTTCA
22562527 TTAATTAAGC
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:0.23, C:0.23, G:0.00, T:0.55
Consensus pattern (16 bp):
TTTAACCCTTTTTCAA
Found at i:22562953 original size:42 final size:42
Alignment explanation
Indices: 22562850--22563002 Score: 180
Period size: 42 Copynumber: 3.6 Consensus size: 42
22562840 GGCTGTTACA
* * * * *
22562850 GGATTAAGGGTAAAAGACTGAATGACTTCAATCTGCCCCTCT
1 GGATTAGGGGTAAAAGATTGGATGGCTTCAATCTACCCCTCT
22562892 GGATTAGGGGTAAAAGATTGGATGGCTTCAATCTACCCCTCT
1 GGATTAGGGGTAAAAGATTGGATGGCTTCAATCTACCCCTCT
* * * * *
22562934 CGATTAGGGGTAAATGATTGGGTGGTGGTTTCAATCTACCCCTTT
1 GGATTAGGGGTAAAAGATT--G-GATGGCTTCAATCTACCCCTCT
*
22562979 GGATTAGGGGTAAGAGATTGGATG
1 GGATTAGGGGTAAAAGATTGGATG
22563003 TGGTGATGTA
Statistics
Matches: 94, Mismatches: 14, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
42 57 0.61
43 1 0.01
44 1 0.01
45 35 0.37
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (42 bp):
GGATTAGGGGTAAAAGATTGGATGGCTTCAATCTACCCCTCT
Found at i:22562984 original size:45 final size:43
Alignment explanation
Indices: 22562875--22562999 Score: 155
Period size: 45 Copynumber: 2.9 Consensus size: 43
22562865 GACTGAATGA
*
22562875 CTTCAATCTGCCCCTCTGGATTAGGGGTAAAAGATT--GGATGG
1 CTTCAATCTACCCCTCTGGATTAGGGGT-AAAGATTGGGGATGG
* *
22562917 CTTCAATCTACCCCTCTCGATTAGGGGTAAATGATTGGGTGGTGG
1 CTTCAATCTACCCCTCTGGATTAGGGGTAAA-GATTGGG-GATGG
* *
22562962 TTTCAATCTACCCCTTTGGATTAGGGGTAAGAGATTGG
1 CTTCAATCTACCCCTCTGGATTAGGGGTAA-AGATTGG
22563000 ATGTGGTGAT
Statistics
Matches: 72, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
41 3 0.04
42 30 0.42
44 1 0.01
45 37 0.51
46 1 0.01
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.31
Consensus pattern (43 bp):
CTTCAATCTACCCCTCTGGATTAGGGGTAAAGATTGGGGATGG
Found at i:22574109 original size:52 final size:52
Alignment explanation
Indices: 22574051--22574240 Score: 235
Period size: 52 Copynumber: 3.7 Consensus size: 52
22574041 GATGACTAAG
*
22574051 TGTCATCGTGAGTATATGAATCCTTTACGGATTAAACGGTCTAATGACTCTA
1 TGTCATCGTGAGTATATGAATCCTTTACGGATTAAACGGTCCAATGACTCTA
* * *
22574103 TGTCATCGCGAGTATATAAATCCTTTACGGTTTAAACGGTCCAATGA-T-TAA
1 TGTCATCGTGAGTATATGAATCCTTTACGGATTAAACGGTCCAATGACTCT-A
* * * *
22574154 GTGTCATCGTGAGTATATGGATCCTTTATGGATTAAGA-GGTCCGATGACTCTG
1 -TGTCATCGTGAGTATATGAATCCTTTACGGATTAA-ACGGTCCAATGACTCTA
*
22574207 TGTCATCGTGAGTATACGAATACC-TTACGGATTA
1 TGTCATCGTGAGTATATGAAT-CCTTTACGGATTA
22574241 TAAGGTTCGG
Statistics
Matches: 118, Mismatches: 14, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
50 1 0.01
51 2 0.02
52 110 0.93
53 4 0.03
54 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.34
Consensus pattern (52 bp):
TGTCATCGTGAGTATATGAATCCTTTACGGATTAAACGGTCCAATGACTCTA
Found at i:22574235 original size:104 final size:104
Alignment explanation
Indices: 22574042--22574236 Score: 277
Period size: 104 Copynumber: 1.9 Consensus size: 104
22574032 AAGAGGTTCG
*
22574042 ATGACTAAGTGTCATCGTGAGTATATGAATCCTTTACGGATTAAACGGTCTAATGACTCTATGTC
1 ATGACTAAGTGTCATCGTGAGTATATGAATCCTTTACGGATTAAACGGTCCAATGACTCTATGTC
*
22574107 ATCGCGAGTATATAAATCCTTTACGGTTTAAACGGTCCA
66 ATCGCGAGTATACAAATCCTTTACGGTTTAAACGGTCCA
* * * * *
22574146 ATGATTAAGTGTCATCGTGAGTATATGGATCCTTTATGGATTAAGA-GGTCCGATGACTCTGTGT
1 ATGACTAAGTGTCATCGTGAGTATATGAATCCTTTACGGATTAA-ACGGTCCAATGACTCTATGT
* *
22574210 CATCGTGAGTATACGAATACC-TTACGG
65 CATCGCGAGTATACAAAT-CCTTTACGG
22574237 ATTATAAGGT
Statistics
Matches: 80, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
104 77 0.96
105 3 0.04
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (104 bp):
ATGACTAAGTGTCATCGTGAGTATATGAATCCTTTACGGATTAAACGGTCCAATGACTCTATGTC
ATCGCGAGTATACAAATCCTTTACGGTTTAAACGGTCCA
Found at i:22575016 original size:21 final size:21
Alignment explanation
Indices: 22574991--22575048 Score: 75
Period size: 21 Copynumber: 2.8 Consensus size: 21
22574981 GATGCATGAC
22574991 ATGTATCGGTAGAAATCA-TA
1 ATGTATCGGTAGAAATCAGTA
*
22575011 ATTGTATCGGTAGAACT-AGTA
1 A-TGTATCGGTAGAAATCAGTA
*
22575032 AGGTATCGGTAGAAATC
1 ATGTATCGGTAGAAATC
22575049 TACACCATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
20 15 0.47
21 17 0.53
ACGTcount: A:0.36, C:0.10, G:0.24, T:0.29
Consensus pattern (21 bp):
ATGTATCGGTAGAAATCAGTA
Found at i:22577689 original size:109 final size:109
Alignment explanation
Indices: 22577493--22577714 Score: 417
Period size: 109 Copynumber: 2.0 Consensus size: 109
22577483 GGTAACAATC
*
22577493 AAGAATAAATACCTGTTACCTCGTATTAATGAGTTGTTTGATCAGTTGAGAGGTGCGACCATCTT
1 AAGAATAAATACCTATTACCTCGTATTAATGAGTTGTTTGATCAGTTGAGAGGTGCGACCATCTT
*
22577558 TTCTAAAATAGATCTCTGATCGGGTTATTATCAGATGCGAGTAA
66 TTCTAAAATAGATCTCTAATCGGGTTATTATCAGATGCGAGTAA
*
22577602 AAGAATAAATACCTATTACCTCGTATTGATGAGTTGTTTGATCAGTTGAGAGGTGCGACCATCTT
1 AAGAATAAATACCTATTACCTCGTATTAATGAGTTGTTTGATCAGTTGAGAGGTGCGACCATCTT
22577667 TTCTAAAATAGATCTCTAATCGGGTTATTATCAGATGCGAGTAA
66 TTCTAAAATAGATCTCTAATCGGGTTATTATCAGATGCGAGTAA
22577711 AAGA
1 AAGA
22577715 TAGTGATGTG
Statistics
Matches: 110, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
109 110 1.00
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.33
Consensus pattern (109 bp):
AAGAATAAATACCTATTACCTCGTATTAATGAGTTGTTTGATCAGTTGAGAGGTGCGACCATCTT
TTCTAAAATAGATCTCTAATCGGGTTATTATCAGATGCGAGTAA
Found at i:22592281 original size:28 final size:27
Alignment explanation
Indices: 22592236--22592324 Score: 74
Period size: 26 Copynumber: 3.1 Consensus size: 27
22592226 TAAGATTACT
*
22592236 ATATAAAAAATTTT-AATAAATAAAAA
1 ATATATAAAATTTTAAATAAATAAAAA
*
22592262 ATATATAAAATTATTAAAT-ACTAAAATA
1 ATATATAAAATT-TTAAATAAATAAAA-A
*
22592290 ATATAATATAATATTTTTAAAAAAATTAAAAA
1 ATAT-ATA-AA-A-TTTTAAATAAA-TAAAAA
22592322 ATA
1 ATA
22592325 ATGTGAGCAG
Statistics
Matches: 50, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
26 11 0.22
27 8 0.16
28 8 0.16
29 3 0.06
30 2 0.04
31 6 0.12
32 7 0.14
33 5 0.10
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.35
Consensus pattern (27 bp):
ATATATAAAATTTTAAATAAATAAAAA
Found at i:22614972 original size:6 final size:6
Alignment explanation
Indices: 22614961--22614999 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
22614951 CAGTAATTTA
*
22614961 TTCTTT TTCTTT TTCTTT CTTCTTT TTCTTA TT-TTT TTC
1 TTCTTT TTCTTT TTCTTT -TTCTTT TTCTTT TTCTTT TTC
22615000 AAGTGACTGC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
5 4 0.14
6 19 0.66
7 6 0.21
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (6 bp):
TTCTTT
Found at i:22614985 original size:13 final size:12
Alignment explanation
Indices: 22614961--22614999 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 12
22614951 CAGTAATTTA
22614961 TTCTTTTTCTTT
1 TTCTTTTTCTTT
22614973 TTCTTTCTTCTTT
1 TTCTTT-TTCTTT
*
22614986 TTCTTATT-TTT
1 TTCTTTTTCTTT
22614997 TTC
1 TTC
22615000 AAGTGACTGC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
11 6 0.24
12 8 0.32
13 11 0.44
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (12 bp):
TTCTTTTTCTTT
Found at i:22623790 original size:220 final size:220
Alignment explanation
Indices: 22623408--22623847 Score: 871
Period size: 220 Copynumber: 2.0 Consensus size: 220
22623398 ATATAATATT
22623408 AAAAGACACTCTCGTATTCATTTAATATCATCAAAATCCATCATCGTTTAGGAAGAATTAAAGAG
1 AAAAGACACTCTCGTATTCATTTAATATCATCAAAATCCATCATCGTTTAGGAAGAATTAAAGAG
22623473 TACAACGAAGCTTACTATCTCTAGACTACTAGGCCTACTCCCTAATTGTTCCTCTTGCCTTACAT
66 TACAACGAAGCTTACTATCTCTAGACTACTAGGCCTACTCCCTAATTGTTCCTCTTGCCTTACAT
22623538 CAAACACCTTCTCGTCAGAAGTGACTGCATACTTGCTTCATCATCTTCCCAATTCCCAGCTCAAA
131 CAAACACCTTCTCGTCAGAAGTGACTGCATACTTGCTTCATCATCTTCCCAATTCCCAGCTCAAA
22623603 TCTCCAAAATCACACAGAAATTATA
196 TCTCCAAAATCACACAGAAATTATA
22623628 AAAAGACACTCTCGTATTCATTTAATATCATCAAAATCCATCATCGTTTAGGAAGAATTAAAGAG
1 AAAAGACACTCTCGTATTCATTTAATATCATCAAAATCCATCATCGTTTAGGAAGAATTAAAGAG
*
22623693 TACAACGAAGCTTACTATCTCTAGACTACTAGGCCTACTCCCTAATTGTTCCTCTTGCCTTGCAT
66 TACAACGAAGCTTACTATCTCTAGACTACTAGGCCTACTCCCTAATTGTTCCTCTTGCCTTACAT
22623758 CAAACACCTTCTCGTCAGAAGTGACTGCATACTTGCTTCATCATCTTCCCAATTCCCAGCTCAAA
131 CAAACACCTTCTCGTCAGAAGTGACTGCATACTTGCTTCATCATCTTCCCAATTCCCAGCTCAAA
22623823 TCTCCAAAATCACACAGAAATTATA
196 TCTCCAAAATCACACAGAAATTATA
22623848 GAATTTTATC
Statistics
Matches: 219, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
220 219 1.00
ACGTcount: A:0.33, C:0.27, G:0.11, T:0.30
Consensus pattern (220 bp):
AAAAGACACTCTCGTATTCATTTAATATCATCAAAATCCATCATCGTTTAGGAAGAATTAAAGAG
TACAACGAAGCTTACTATCTCTAGACTACTAGGCCTACTCCCTAATTGTTCCTCTTGCCTTACAT
CAAACACCTTCTCGTCAGAAGTGACTGCATACTTGCTTCATCATCTTCCCAATTCCCAGCTCAAA
TCTCCAAAATCACACAGAAATTATA
Found at i:22628204 original size:16 final size:16
Alignment explanation
Indices: 22628150--22628207 Score: 64
Period size: 16 Copynumber: 3.4 Consensus size: 16
22628140 GGTAAAAATT
22628150 TATTTTATAATTTTTAA
1 TATTTTA-AATTTTTAA
*
22628167 T-TTATTAACTTTTTAA
1 TATT-TTAAATTTTTAA
22628183 TTTATTTTAAATTTTTAA
1 --TATTTTAAATTTTTAA
22628201 TATTTTA
1 TATTTTA
22628208 TACTGATTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
16 17 0.49
17 4 0.11
18 12 0.34
19 2 0.06
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.66
Consensus pattern (16 bp):
TATTTTAAATTTTTAA
Found at i:22641056 original size:20 final size:22
Alignment explanation
Indices: 22641020--22641071 Score: 58
Period size: 20 Copynumber: 2.5 Consensus size: 22
22641010 AATGGTATGG
*
22641020 TTTATATTAA-GTGTAAATAT-A
1 TTTA-ATTAAGGTGTAAAAATGA
22641041 TTTAATTAAGGT-TAAAAATGA
1 TTTAATTAAGGTGTAAAAATGA
22641062 -TTAATTAAGG
1 TTTAATTAAGG
22641072 CTCAATGTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 21 0.75
21 7 0.25
ACGTcount: A:0.44, C:0.00, G:0.13, T:0.42
Consensus pattern (22 bp):
TTTAATTAAGGTGTAAAAATGA
Found at i:22649458 original size:93 final size:94
Alignment explanation
Indices: 22649323--22649536 Score: 317
Period size: 93 Copynumber: 2.3 Consensus size: 94
22649313 TTATGCATAC
* * *
22649323 TCCC-GACAGCTCGTGTGAGTAGCAACGTTAGGAAACAGTTCACAGTACAGATAGACACTGTACC
1 TCCCTGACAGCTCGTGTGAGCAGCATCGTTAGGAAACAATTCACAGTACAGATAGACACTGTACC
* * *
22649387 GATGGCT-GGGTACCGTATAAGTTGCGAG
66 GATGGCTAAGGCACCGCATAAGTTGCGAG
22649415 TCCCTGACAGCTCGTGTGAGCAGCATCGTTAGGAAACAATTCACAGTACAGATAGACACTGTACC
1 TCCCTGACAGCTCGTGTGAGCAGCATCGTTAGGAAACAATTCACAGTACAGATAGACACTGTACC
*
22649480 GATGGTTAAGGCACCGCATAAGTTGCGAG
66 GATGGCTAAGGCACCGCATAAGTTGCGAG
* *
22649509 T-CCTCGACAGCTCATATGAGCAGCATCG
1 TCCCT-GACAGCTCGTGTGAGCAGCATCG
22649537 GGTACTGGTA
Statistics
Matches: 110, Mismatches: 9, Indels: 4
0.89 0.07 0.03
Matches are distributed among these distances:
92 4 0.04
93 66 0.60
94 40 0.36
ACGTcount: A:0.29, C:0.24, G:0.26, T:0.21
Consensus pattern (94 bp):
TCCCTGACAGCTCGTGTGAGCAGCATCGTTAGGAAACAATTCACAGTACAGATAGACACTGTACC
GATGGCTAAGGCACCGCATAAGTTGCGAG
Found at i:22653305 original size:7 final size:7
Alignment explanation
Indices: 22653295--22653326 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
22653285 TCTTTTCTTT
*
22653295 TTCTCTC
1 TTCTCCC
22653302 TTCTCCC
1 TTCTCCC
22653309 TTCTCCC
1 TTCTCCC
22653316 TTCTCCC
1 TTCTCCC
22653323 TTCT
1 TTCT
22653327 TATTGTGTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (7 bp):
TTCTCCC
Found at i:22657390 original size:15 final size:16
Alignment explanation
Indices: 22657364--22657393 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
22657354 TATTATTTAA
22657364 AAATTAAAATAATTTG
1 AAATTAAAATAATTTG
22657380 AAATT-AAATAATTT
1 AAATTAAAATAATTT
22657394 TTATGAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (16 bp):
AAATTAAAATAATTTG
Found at i:22657460 original size:22 final size:22
Alignment explanation
Indices: 22657381--22657460 Score: 58
Period size: 22 Copynumber: 3.6 Consensus size: 22
22657371 AATAATTTGA
*
22657381 AATTAAATA-ATTTTTATGAAAT
1 AATTAAATATATTTTTA-AAAAT
* *
22657403 AATATAAA-ATTAATTTTGAAAAT
1 AAT-TAAATA-TATTTTTAAAAAT
** *
22657426 -ATTACTTAAATTTTTAAAAAT
1 AATTAAATATATTTTTAAAAAT
22657447 AATTAAATATATTT
1 AATTAAATATATTT
22657461 AATTAATATA
Statistics
Matches: 42, Mismatches: 11, Indels: 10
0.67 0.17 0.16
Matches are distributed among these distances:
21 12 0.29
22 17 0.40
23 8 0.19
24 5 0.12
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.45
Consensus pattern (22 bp):
AATTAAATATATTTTTAAAAAT
Found at i:22669070 original size:17 final size:15
Alignment explanation
Indices: 22669042--22669088 Score: 60
Period size: 17 Copynumber: 3.1 Consensus size: 15
22669032 TCTTTTGAAA
*
22669042 TATTTATATTTTATT
1 TATTTATGTTTTATT
22669057 TAGTTTTATGTTTTATT
1 TA--TTTATGTTTTATT
22669074 TATTTA-GTTTTATT
1 TATTTATGTTTTATT
22669088 T
1 T
22669089 GTGCTTTTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
14 9 0.31
15 6 0.21
17 14 0.48
ACGTcount: A:0.21, C:0.00, G:0.06, T:0.72
Consensus pattern (15 bp):
TATTTATGTTTTATT
Found at i:22669119 original size:34 final size:33
Alignment explanation
Indices: 22669060--22669124 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 33
22669050 TTTTATTTAG
22669060 TTTTATGTTTTATTTATTTAGTTTTATTTGTGC
1 TTTTATGTTTTATTTATTTAGTTTTATTTGTGC
22669093 TTTTAT-TTTTATTGTTATTT-GTTTTTATTTGT
1 TTTTATGTTTTA-T-TTATTTAG-TTTTATTTGT
22669125 TTTGGACTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
32 5 0.17
33 8 0.28
34 16 0.55
ACGTcount: A:0.14, C:0.02, G:0.11, T:0.74
Consensus pattern (33 bp):
TTTTATGTTTTATTTATTTAGTTTTATTTGTGC
Found at i:22669122 original size:10 final size:10
Alignment explanation
Indices: 22669050--22669127 Score: 54
Period size: 10 Copynumber: 7.3 Consensus size: 10
22669040 AATATTTATA
22669050 TTTTATTTAG-
1 TTTTATTT-GT
22669060 TTTTATGTT-T
1 TTTTAT-TTGT
22669070 TATTTATTTAG-
1 T-TTTATTT-GT
22669081 TTTTATTTGT
1 TTTTATTTGT
*
22669091 GCTTTTATTTTT
1 --TTTTATTTGT
22669103 ATTGTTATTTGT
1 -TT-TTATTTGT
22669115 TTTTATTTGT
1 TTTTATTTGT
22669125 TTT
1 TTT
22669128 GGACTTATAT
Statistics
Matches: 56, Mismatches: 3, Indels: 18
0.73 0.04 0.23
Matches are distributed among these distances:
9 1 0.02
10 27 0.48
11 12 0.21
12 16 0.29
ACGTcount: A:0.14, C:0.01, G:0.10, T:0.74
Consensus pattern (10 bp):
TTTTATTTGT
Found at i:22670944 original size:29 final size:28
Alignment explanation
Indices: 22670881--22670945 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 28
22670871 AGGCCACATG
* *
22670881 ACCATGTAACCCACACAGGCACCACACG
1 ACCATGTGACCCACACAGGCACCACACA
** * *
22670909 ATTATGTGACCCATACGGGCTACCACACA
1 ACCATGTGACCCACACAGGC-ACCACACA
22670938 ACCATGTG
1 ACCATGTG
22670946 GTAGGTCGTG
Statistics
Matches: 28, Mismatches: 8, Indels: 1
0.76 0.22 0.03
Matches are distributed among these distances:
28 15 0.54
29 13 0.46
ACGTcount: A:0.32, C:0.35, G:0.17, T:0.15
Consensus pattern (28 bp):
ACCATGTGACCCACACAGGCACCACACA
Found at i:22671324 original size:7 final size:7
Alignment explanation
Indices: 22671312--22671336 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
22671302 TAAATACTTA
22671312 ATGTGTC
1 ATGTGTC
22671319 ATGTGTC
1 ATGTGTC
22671326 ATGTGTC
1 ATGTGTC
22671333 ATGT
1 ATGT
22671337 TGTTGTCGTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.12, G:0.28, T:0.44
Consensus pattern (7 bp):
ATGTGTC
Found at i:22695211 original size:106 final size:106
Alignment explanation
Indices: 22695055--22695260 Score: 297
Period size: 106 Copynumber: 1.9 Consensus size: 106
22695045 TATACTATGC
** *
22695055 AATACATACATCGAGAGATTAATGATTTGTAAAGATGACAAAAACTTTTGTTGTCTAAACATACC
1 AATACATACATCGAGAGATTAATGATAGGTAAAGATGACAAAAACATTTGTTGTCTAAACATACC
* *
22695120 CTTTGAGGTTTCTCTTAAAAAG-TGAGAGTGAACATCCATGT
66 ATTTGAAGTTTCTCTTAAAAAGAT-AGAGTGAACATCCATGT
* * * *
22695161 AATATATACATCTAGAGATTAATGATAGGTAAAGATTACAGAAACATTTGTTGTCTAAACATACC
1 AATACATACATCGAGAGATTAATGATAGGTAAAGATGACAAAAACATTTGTTGTCTAAACATACC
**
22695226 ATTTGAAGTTTCTCTTGTAAAGATAGAGTGAACAT
66 ATTTGAAGTTTCTCTTAAAAAGATAGAGTGAACAT
22695261 TGATGGAACA
Statistics
Matches: 88, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
106 87 0.99
107 1 0.01
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.33
Consensus pattern (106 bp):
AATACATACATCGAGAGATTAATGATAGGTAAAGATGACAAAAACATTTGTTGTCTAAACATACC
ATTTGAAGTTTCTCTTAAAAAGATAGAGTGAACATCCATGT
Found at i:22698039 original size:20 final size:21
Alignment explanation
Indices: 22698016--22698054 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
22698006 TTATTCAATA
22698016 AATAAAATT-GTTATTTTTTT
1 AATAAAATTAGTTATTTTTTT
*
22698036 AATAAAATTATTTATTTTT
1 AATAAAATTAGTTATTTTT
22698055 GACTTTGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (21 bp):
AATAAAATTAGTTATTTTTTT
Found at i:22699855 original size:27 final size:27
Alignment explanation
Indices: 22699825--22699892 Score: 84
Period size: 27 Copynumber: 2.5 Consensus size: 27
22699815 TCATTCGGGG
* *
22699825 TGGTCAGGCGAT-ATATATCATACGAGT
1 TGGTCAGGCCATGA-ATATAATACGAGT
* *
22699852 TGGTCAGGCCATGAATATAATATGGGT
1 TGGTCAGGCCATGAATATAATACGAGT
22699879 TGGTCAGGCCATGA
1 TGGTCAGGCCATGA
22699893 GTATCATTCG
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
27 35 0.97
28 1 0.03
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (27 bp):
TGGTCAGGCCATGAATATAATACGAGT
Found at i:22700326 original size:26 final size:28
Alignment explanation
Indices: 22700280--22700336 Score: 100
Period size: 26 Copynumber: 2.1 Consensus size: 28
22700270 GAATTTGGAA
22700280 TTAATTATATTTATGTTTATGTTTGTAT
1 TTAATTATATTTATGTTTATGTTTGTAT
22700308 TTAATTA-A-TTATGTTTATGTTTGTAT
1 TTAATTATATTTATGTTTATGTTTGTAT
22700334 TTA
1 TTA
22700337 GGGTTTTGGG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
26 21 0.72
27 1 0.03
28 7 0.24
ACGTcount: A:0.26, C:0.00, G:0.11, T:0.63
Consensus pattern (28 bp):
TTAATTATATTTATGTTTATGTTTGTAT
Found at i:22700355 original size:22 final size:21
Alignment explanation
Indices: 22700330--22700370 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
22700320 GTTTATGTTT
*
22700330 GTATTTAGGGTTTTGGGTTTTG
1 GTATTTA-GGTTTTGAGTTTTG
22700352 GTATTTAGGTTTTGAGTTT
1 GTATTTAGGTTTTGAGTTT
22700371 AAGGTTTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.12, C:0.00, G:0.32, T:0.56
Consensus pattern (21 bp):
GTATTTAGGTTTTGAGTTTTG
Found at i:22700362 original size:14 final size:14
Alignment explanation
Indices: 22700345--22700391 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
22700335 TAGGGTTTTG
*
22700345 GGTTTTG-GTATTTA
1 GGTTTTGAGT-TTAA
22700359 GGTTTTGAGTTTAA
1 GGTTTTGAGTTTAA
22700373 GGTTTT-AGCTTTAA
1 GGTTTTGAG-TTTAA
22700387 GGTTT
1 GGTTT
22700392 AAAGTATGGG
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
13 2 0.07
14 26 0.87
15 2 0.07
ACGTcount: A:0.17, C:0.02, G:0.28, T:0.53
Consensus pattern (14 bp):
GGTTTTGAGTTTAA
Found at i:22700379 original size:21 final size:21
Alignment explanation
Indices: 22700330--22700380 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
22700320 GTTTATGTTT
* *
22700330 GTATTTAGGGTTTTGGGTTTTG
1 GTATTTA-GGTTTTGAGTTTAG
22700352 GTATTTAGGTTTTGAGTTTAAG
1 GTATTTAGGTTTTGAGTTT-AG
22700374 GT-TTTAG
1 GTATTTAG
22700381 CTTTAAGGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 16 0.62
22 10 0.38
ACGTcount: A:0.16, C:0.00, G:0.31, T:0.53
Consensus pattern (21 bp):
GTATTTAGGTTTTGAGTTTAG
Found at i:22701302 original size:15 final size:15
Alignment explanation
Indices: 22701276--22701318 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
22701266 TGAATTTTTA
22701276 TTAAACCCTTAAAACC
1 TTAAA-CCTTAAAACC
22701292 TTAAACCTTAAAACC
1 TTAAACCTTAAAACC
* *
22701307 CTAAACCCTAAA
1 TTAAACCTTAAA
22701319 TACAAATATC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 20 0.80
16 5 0.20
ACGTcount: A:0.47, C:0.30, G:0.00, T:0.23
Consensus pattern (15 bp):
TTAAACCTTAAAACC
Found at i:22701364 original size:26 final size:26
Alignment explanation
Indices: 22701315--22701393 Score: 122
Period size: 26 Copynumber: 3.0 Consensus size: 26
22701305 CCCTAAACCC
*
22701315 TAAATACAAATATCAACATAATTAAT
1 TAAATACAAATATAAACATAATTAAT
* * *
22701341 TAAATACAAACATAAAAATTATTAAT
1 TAAATACAAATATAAACATAATTAAT
22701367 TAAATACAAATATAAACATAATTAAT
1 TAAATACAAATATAAACATAATTAAT
22701393 T
1 T
22701394 CCAAATTCAT
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 46 1.00
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.32
Consensus pattern (26 bp):
TAAATACAAATATAAACATAATTAAT
Found at i:22703866 original size:21 final size:21
Alignment explanation
Indices: 22703840--22703896 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
22703830 GAGTTCCATC
*
22703840 TTCTACCGATACAAGTGACAG
1 TTCTACCGAAACAAGTGACAG
* **
22703861 TTCTACCGAAATAAGTGACTC
1 TTCTACCGAAACAAGTGACAG
*
22703882 TTCTATCGAAACAAG
1 TTCTACCGAAACAAG
22703897 CCTTACTTCT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (21 bp):
TTCTACCGAAACAAGTGACAG
Found at i:22704651 original size:54 final size:52
Alignment explanation
Indices: 22704583--22704876 Score: 410
Period size: 52 Copynumber: 5.6 Consensus size: 52
22704573 TTGCATTTTG
* * * * * * * *
22704583 TATACTAACGATGACATAGAGTCATCGAACCT-TTAATCCATATTGGGAATTATA
1 TATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTA-AGGG-ATT-CA
*
22704637 TATACTCACGATGACACATAATCATCGGACCTCATAATCCGTAAGGGATTCA
1 TATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAGGGATTCA
* *
22704689 TATACTCATGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCA
1 TATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAGGGATTCA
* *
22704741 TATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGACTCA
1 TATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAGGGATTCA
* * *
22704793 TACACTCACGATGACACATAGTCATCGGACCTCATAACCCGTAAAGGATTCA
1 TATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAGGGATTCA
22704845 TATACTCACGATGACACATAGTCATCGGACCT
1 TATACTCACGATGACACATAGTCATCGGACCT
22704877 TTTTCATTTA
Statistics
Matches: 221, Mismatches: 18, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
52 180 0.81
53 3 0.01
54 30 0.14
55 8 0.04
ACGTcount: A:0.35, C:0.24, G:0.15, T:0.26
Consensus pattern (52 bp):
TATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAGGGATTCA
Found at i:22704706 original size:52 final size:52
Alignment explanation
Indices: 22704636--22704876 Score: 428
Period size: 52 Copynumber: 4.6 Consensus size: 52
22704626 TGGGAATTAT
* *
22704636 ATATACTCACGATGACACATAATCATCGGACCTCATAATCCGTAAGGGATTC
1 ATATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTC
*
22704688 ATATACTCATGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTC
1 ATATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTC
*
22704740 ATATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGACTC
1 ATATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTC
* *
22704792 ATACACTCACGATGACACATAGTCATCGGACCTCATAACCCGTAAAGGATTC
1 ATATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTC
22704844 ATATACTCACGATGACACATAGTCATCGGACCT
1 ATATACTCACGATGACACATAGTCATCGGACCT
22704877 TTTTCATTTA
Statistics
Matches: 180, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 180 1.00
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.24
Consensus pattern (52 bp):
ATATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTC
Found at i:22710752 original size:71 final size:71
Alignment explanation
Indices: 22710615--22710755 Score: 210
Period size: 71 Copynumber: 2.0 Consensus size: 71
22710605 GTTTCAGTAG
* * * ** *
22710615 AAGTTCCAAGCCATAACTTCTTTGCTCTCTGGAGTTTGTTCTACCGATAGAACTCTTGGTTGTAT
1 AAGTCCCAAGCCACAACTTCTTTGCTCTCTGGAGTTTGTTCTAACGATAGAACTCTTAATTATAT
22710680 CGGTAA
66 CGGTAA
* *
22710686 AAGTCCCAAGCCACAACTTCTTTGCTCTCTGGAGTTTTTTCTAACGATAGAAGTCTTAATTATAT
1 AAGTCCCAAGCCACAACTTCTTTGCTCTCTGGAGTTTGTTCTAACGATAGAACTCTTAATTATAT
22710751 CGGTA
66 CGGTA
22710756 GAACTAAGAG
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
71 62 1.00
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (71 bp):
AAGTCCCAAGCCACAACTTCTTTGCTCTCTGGAGTTTGTTCTAACGATAGAACTCTTAATTATAT
CGGTAA
Found at i:22712945 original size:11 final size:11
Alignment explanation
Indices: 22712929--22712954 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
22712919 AAAACAGTAT
22712929 ATATGTATAAA
1 ATATGTATAAA
22712940 ATATGTATAAA
1 ATATGTATAAA
22712951 ATAT
1 ATAT
22712955 ACAATTAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (11 bp):
ATATGTATAAA
Found at i:22716470 original size:27 final size:27
Alignment explanation
Indices: 22716428--22716496 Score: 111
Period size: 27 Copynumber: 2.6 Consensus size: 27
22716418 AATATCTACA
* *
22716428 ACTTTGCATCCATTGGACTCAAATATT
1 ACTTTGAATCCCTTGGACTCAAATATT
22716455 ACTTTGAATCCCTTGGACTCAAATATT
1 ACTTTGAATCCCTTGGACTCAAATATT
*
22716482 TCTTTGAATCCCTTG
1 ACTTTGAATCCCTTG
22716497 TCACAATGTT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.26, C:0.23, G:0.12, T:0.39
Consensus pattern (27 bp):
ACTTTGAATCCCTTGGACTCAAATATT
Found at i:22717706 original size:3 final size:3
Alignment explanation
Indices: 22717698--22717732 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
22717688 TCTTTTCCTT
*
22717698 ATC ATC ATC ATC ATC ATC ATC ATT ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
22717733 TGGAATCTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.34, C:0.29, G:0.00, T:0.37
Consensus pattern (3 bp):
ATC
Found at i:22717800 original size:12 final size:12
Alignment explanation
Indices: 22717779--22717808 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
22717769 AGGCAACTCC
*
22717779 CACTTTCTTTGG
1 CACTTCCTTTGG
22717791 CACTTCCTTTGG
1 CACTTCCTTTGG
22717803 CACTTC
1 CACTTC
22717809 ATTGGTTACT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.10, C:0.33, G:0.13, T:0.43
Consensus pattern (12 bp):
CACTTCCTTTGG
Found at i:22719505 original size:71 final size:71
Alignment explanation
Indices: 22719401--22719535 Score: 216
Period size: 71 Copynumber: 1.9 Consensus size: 71
22719391 GAAGTTCCAA
* **
22719401 GCCACAACTTCTTTGCTCTCTGGAGTTTGTTCTACCGATAGAACTCTTGGTTGTATCGGTAGAAG
1 GCCACAACTTCTTTGCTCTCTGGAGTTTGTTCTAACGATAGAACTCTTAATTGTATCGGTAGAAG
22719466 TCCTAG
66 TCCTAG
* * *
22719472 GCCACAACTTCTTTGCTCTTTGGAGTTTGTTCTAATGATAGAAGTCTTAATTGTATCGGTAGAA
1 GCCACAACTTCTTTGCTCTCTGGAGTTTGTTCTAACGATAGAACTCTTAATTGTATCGGTAGAA
22719536 CCAAGAGATG
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
71 58 1.00
ACGTcount: A:0.22, C:0.19, G:0.21, T:0.37
Consensus pattern (71 bp):
GCCACAACTTCTTTGCTCTCTGGAGTTTGTTCTAACGATAGAACTCTTAATTGTATCGGTAGAAG
TCCTAG
Found at i:22722281 original size:18 final size:18
Alignment explanation
Indices: 22722260--22722303 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
22722250 CTCTATCTCA
*
22722260 TCCTCCTCCTCTTCA-CTT
1 TCCTCCTCCCCTTCATC-T
*
22722278 TCCTCTTCCCCTTCATCT
1 TCCTCCTCCCCTTCATCT
22722296 TCCTCCTC
1 TCCTCCTC
22722304 ATCATGTTCC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 21 0.95
19 1 0.05
ACGTcount: A:0.05, C:0.52, G:0.00, T:0.43
Consensus pattern (18 bp):
TCCTCCTCCCCTTCATCT
Found at i:22723945 original size:9 final size:8
Alignment explanation
Indices: 22723931--22723987 Score: 62
Period size: 8 Copynumber: 6.8 Consensus size: 8
22723921 TAAACACAAT
22723931 TAAAATTAA
1 TAAAA-TAA
22723940 TAAAATAA
1 TAAAATAA
22723948 -ACAAATAA
1 TA-AAATAA
22723956 TAAAATAA
1 TAAAATAA
22723964 TAATAATAA
1 TAA-AATAA
22723973 TAAAACTAA
1 TAAAA-TAA
*
22723982 CAAAAT
1 TAAAAT
22723988 TTAAAGTAGA
Statistics
Matches: 43, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
7 1 0.02
8 21 0.49
9 21 0.49
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (8 bp):
TAAAATAA
Found at i:22723949 original size:24 final size:24
Alignment explanation
Indices: 22723921--22723972 Score: 63
Period size: 24 Copynumber: 2.1 Consensus size: 24
22723911 TAAAAGAAAC
22723921 TAAACACAAT-TAAAATTAATAA-AA
1 TAAACA-AATATAAAA-TAATAATAA
22723945 TAAACAAATAATAAAATAATAATAA
1 TAAACAAAT-ATAAAATAATAATAA
22723970 TAA
1 TAA
22723973 TAAAACTAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
23 3 0.12
24 12 0.48
25 10 0.40
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.25
Consensus pattern (24 bp):
TAAACAAATATAAAATAATAATAA
Found at i:22727610 original size:14 final size:14
Alignment explanation
Indices: 22727591--22727620 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
22727581 CTATGAAAAG
*
22727591 AAAAATAAATGCTT
1 AAAAATAAATACTT
22727605 AAAAATAAATACTT
1 AAAAATAAATACTT
22727619 AA
1 AA
22727621 GAAAAGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.63, C:0.07, G:0.03, T:0.27
Consensus pattern (14 bp):
AAAAATAAATACTT
Found at i:22730638 original size:14 final size:15
Alignment explanation
Indices: 22730608--22730641 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
22730598 ATATTATATG
*
22730608 GAATTTTGAATTTGT
1 GAATTTTGAATTAGT
22730623 GAATTTT-AATTAGT
1 GAATTTTGAATTAGT
22730637 GAATT
1 GAATT
22730642 AATTGTTAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.32, C:0.00, G:0.18, T:0.50
Consensus pattern (15 bp):
GAATTTTGAATTAGT
Found at i:22732281 original size:24 final size:24
Alignment explanation
Indices: 22732254--22732304 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
22732244 GTCTACTGGT
* *
22732254 TAACTATTTTGGGCTCGTAAGAGC
1 TAACTATTCTAGGCTCGTAAGAGC
* *
22732278 TAACTATTCTAGGCTTGTGAGAGC
1 TAACTATTCTAGGCTCGTAAGAGC
22732302 TAA
1 TAA
22732305 AGTTATCTGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (24 bp):
TAACTATTCTAGGCTCGTAAGAGC
Found at i:22737077 original size:24 final size:24
Alignment explanation
Indices: 22737045--22737095 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
22737035 GTATACTGGT
*
22737045 TAACTATTCTGGGCTCGTAAGAGC
1 TAACTATTCTAGGCTCGTAAGAGC
* *
22737069 TAACTATTCTAGGCTTGTGAGAGC
1 TAACTATTCTAGGCTCGTAAGAGC
22737093 TAA
1 TAA
22737096 AGTTATCTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (24 bp):
TAACTATTCTAGGCTCGTAAGAGC
Found at i:22737793 original size:21 final size:21
Alignment explanation
Indices: 22737769--22737815 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
22737759 GGTATTAGTT
*
22737769 GAAGTGAAACTTGTATCGGTA
1 GAAGTGAAACTTGTACCGGTA
* **
22737790 GAAGAGTCACTTGTACCGGTA
1 GAAGTGAAACTTGTACCGGTA
22737811 GAAGT
1 GAAGT
22737816 ATCACATGTG
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.32, C:0.13, G:0.30, T:0.26
Consensus pattern (21 bp):
GAAGTGAAACTTGTACCGGTA
Found at i:22740885 original size:24 final size:24
Alignment explanation
Indices: 22740836--22740886 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
22740826 GTATATTGGT
* *
22740836 TAACTATTCTGGGCTCGTAAGGGC
1 TAACTATTCTAGGCTCGTAAGAGC
* *
22740860 TAACTATTCTAGGCTTGTGAGAGC
1 TAACTATTCTAGGCTCGTAAGAGC
22740884 TAA
1 TAA
22740887 AGTTATCTGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.31
Consensus pattern (24 bp):
TAACTATTCTAGGCTCGTAAGAGC
Found at i:22741574 original size:21 final size:21
Alignment explanation
Indices: 22741550--22741602 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 21
22741540 TAAGTTTTTA
* *
22741550 GTATCGGTAGAAGTGAAACTT
1 GTATCGGTAGAAGAGAAACCT
* **
22741571 GTAT-GGTGGAAGAGTCACCT
1 GTATCGGTAGAAGAGAAACCT
22741591 GTATCGGTAGAA
1 GTATCGGTAGAA
22741603 TTGTCACATG
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
20 15 0.60
21 10 0.40
ACGTcount: A:0.30, C:0.11, G:0.32, T:0.26
Consensus pattern (21 bp):
GTATCGGTAGAAGAGAAACCT
Found at i:22741609 original size:21 final size:21
Alignment explanation
Indices: 22741584--22741623 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
22741574 TGGTGGAAGA
* *
22741584 GTCACCTGTATCGGTAGAATT
1 GTCACATGTATCGATAGAATT
*
22741605 GTCACATGTGTCGATAGAA
1 GTCACATGTATCGATAGAA
22741624 AATTTTTACT
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:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (21 bp):
GTCACATGTATCGATAGAATT
Found at i:22741976 original size:21 final size:21
Alignment explanation
Indices: 22741947--22741992 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
22741937 AGATAAACTA
* *
22741947 CCACTTAATTGCTAATAATGG
1 CCACCTAATTGCCAATAATGG
22741968 CCACCTAATTGCCAATAATGG
1 CCACCTAATTGCCAATAATGG
22741989 CCAC
1 CCAC
22741993 ATATCTTCCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.26
Consensus pattern (21 bp):
CCACCTAATTGCCAATAATGG
Found at i:22742156 original size:16 final size:16
Alignment explanation
Indices: 22742132--22742193 Score: 52
Period size: 16 Copynumber: 3.6 Consensus size: 16
22742122 TAACATGCTT
*
22742132 TTCATATTTCACATCA
1 TTCACATTTCACATCA
*
22742148 TTCACATTTTCAAATCACATA
1 TTCACA-TTTCACAT--C--A
*
22742169 TTCACTTTTCACATCA
1 TTCACATTTCACATCA
22742185 TTCACATTT
1 TTCACATTT
22742194 TCAAATCACA
Statistics
Matches: 36, Mismatches: 5, Indels: 10
0.71 0.10 0.20
Matches are distributed among these distances:
16 14 0.39
17 7 0.19
18 1 0.03
19 1 0.03
20 7 0.19
21 6 0.17
ACGTcount: A:0.31, C:0.26, G:0.00, T:0.44
Consensus pattern (16 bp):
TTCACATTTCACATCA
Done.