Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 ID=Chr02-JGI_221_v2.0
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: 62769430
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1067035 characters in sequence are not A, C, G, or T
File 179 of 206
Found at i:54500177 original size:77 final size:75
Alignment explanation
Indices: 54500082--54500244 Score: 184
Period size: 77 Copynumber: 2.1 Consensus size: 75
54500072 TAATTTAAAT
* * * *
54500082 AACTTTATATTTATGTAATGACTTTTTTTCCA-TTCTAGTTATTAATTTCAGGGTTTTGTTTTGC
1 AACTTTGTATTTATGTAATAACTTTTTTGCCATTTC-AGTTATTAATTTCAGGG-GTT-TTTTGC
* *
54500146 AATTTAAATAGTC
63 AATTTAAATAATA
* ** * *
54500159 AACTTTGTATTTGTGTAATAACTTTTTTGCCATTTCAGTTATTCTTTTTAGGGGTTTTTTGTAAT
1 AACTTTGTATTTATGTAATAACTTTTTTGCCATTTCAGTTATTAATTTCAGGGGTTTTTTGCAAT
54500224 TTAAATAATA
66 TTAAATAATA
*
54500234 AAATTTGTATT
1 AACTTTGTATT
54500245 ATTTACGTAA
Statistics
Matches: 73, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
75 26 0.36
76 2 0.03
77 42 0.58
78 3 0.04
ACGTcount: A:0.26, C:0.09, G:0.12, T:0.53
Consensus pattern (75 bp):
AACTTTGTATTTATGTAATAACTTTTTTGCCATTTCAGTTATTAATTTCAGGGGTTTTTTGCAAT
TTAAATAATA
Found at i:54501777 original size:46 final size:46
Alignment explanation
Indices: 54501724--54501908 Score: 300
Period size: 46 Copynumber: 4.0 Consensus size: 46
54501714 ACAACGCTAT
*
54501724 AACTCAGTATGGTTTTCTTCACAGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTACTTTTCAC
* * *
54501770 AACTCAGTATGGTTTTCTTTACCGAATTACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTACTTTTCAC
*
54501816 AACTCAGTATGGTTTTCTTCATTGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTACTTTTCAC
*
54501862 AACTCAGTATGGTTTTCTTCACTGGAATACCATACCTA-TGTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTACT-TTTCAC
54501908 A
1 A
54501909 CTTTGCCATG
Statistics
Matches: 129, Mismatches: 9, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
45 1 0.01
46 128 0.99
ACGTcount: A:0.28, C:0.25, G:0.10, T:0.37
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTACTTTTCAC
Found at i:54503137 original size:17 final size:17
Alignment explanation
Indices: 54503115--54503147 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
54503105 AAATTCTTTT
54503115 TAAATCACAAAATTCAA
1 TAAATCACAAAATTCAA
54503132 TAAATCACAAAATTCA
1 TAAATCACAAAATTCA
54503148 CTAATTTAAA
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:0.58, C:0.18, G:0.00, T:0.24
Consensus pattern (17 bp):
TAAATCACAAAATTCAA
Found at i:54505665 original size:26 final size:26
Alignment explanation
Indices: 54505627--54505676 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
54505617 TGAGTGTCCC
*
54505627 ATTATATGGCTCTTCGTGAGCTTTCTG
1 ATTATATGACTCTTCGTGAG-TTTCTG
*
54505654 ATTATA-GACTCTTTGTGAGTTTC
1 ATTATATGACTCTTCGTGAGTTTC
54505677 CCTATATGGC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 4 0.19
26 11 0.52
27 6 0.29
ACGTcount: A:0.18, C:0.16, G:0.20, T:0.46
Consensus pattern (26 bp):
ATTATATGACTCTTCGTGAGTTTCTG
Found at i:54510292 original size:19 final size:19
Alignment explanation
Indices: 54510238--54510292 Score: 51
Period size: 19 Copynumber: 3.0 Consensus size: 19
54510228 ATTTAGAAAC
* *
54510238 TAACAAAATTAATAAC--C
1 TAACAAAATTACTAACAAA
* **
54510255 TAACAAAATAACTTTCAAA
1 TAACAAAATTACTAACAAA
54510274 TAACAAAATTACTAACAAA
1 TAACAAAATTACTAACAAA
54510293 ACTTTCTATT
Statistics
Matches: 28, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
17 12 0.43
19 16 0.57
ACGTcount: A:0.60, C:0.16, G:0.00, T:0.24
Consensus pattern (19 bp):
TAACAAAATTACTAACAAA
Found at i:54510639 original size:14 final size:15
Alignment explanation
Indices: 54510612--54510646 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
54510602 AACCACTAGT
*
54510612 AAAATAATATTTTTA
1 AAAAAAATATTTTTA
54510627 AAAAAAATA-TTTTA
1 AAAAAAATATTTTTA
54510641 AAAAAA
1 AAAAAA
54510647 GGTGGTGGCG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 11 0.58
15 8 0.42
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
AAAAAAATATTTTTA
Found at i:54513556 original size:4 final size:4
Alignment explanation
Indices: 54513547--54513571 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
54513537 ACATTATGTG
54513547 ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA A
54513572 AAGAGAAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:54517972 original size:35 final size:35
Alignment explanation
Indices: 54517931--54517998 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
54517921 TTTATATGCC
* * * *
54517931 ATGTTAAATGCAATATTGTATAATATTGAGTTATA
1 ATGTTAAATACAATATTATATAACAATGAGTTATA
54517966 ATGTTAAATACAATATTATATAACAATGAGTTA
1 ATGTTAAATACAATATTATATAACAATGAGTTA
54517999 AGAAATAGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.44, C:0.04, G:0.12, T:0.40
Consensus pattern (35 bp):
ATGTTAAATACAATATTATATAACAATGAGTTATA
Found at i:54518437 original size:20 final size:20
Alignment explanation
Indices: 54518403--54518444 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
54518393 AACTATTTAA
** *
54518403 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
54518423 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
54518443 AT
1 AT
54518445 GTTTTATTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:54520819 original size:44 final size:44
Alignment explanation
Indices: 54520734--54520819 Score: 106
Period size: 44 Copynumber: 2.0 Consensus size: 44
54520724 GTTCCTGGAA
* *
54520734 AAAAATAAGAAAATAATAGAATTAAAGATTTGGATCTGAAAACG
1 AAAAATAAGAAAAAAATAGAATTAAAGATTTGAATCTGAAAACG
54520778 AAAAATAA-AATAAAAATAGAATT-AAGAATATTGAATC-GAAAA
1 AAAAATAAGAA-AAAAATAGAATTAAAG-AT-TTGAATCTGAAAA
54520820 TTCGAGAAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
43 5 0.14
44 26 0.70
45 6 0.16
ACGTcount: A:0.62, C:0.03, G:0.13, T:0.22
Consensus pattern (44 bp):
AAAAATAAGAAAAAAATAGAATTAAAGATTTGAATCTGAAAACG
Found at i:54524365 original size:32 final size:32
Alignment explanation
Indices: 54524323--54524383 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
54524313 TTTTTTGAAA
54524323 AATAATTATAACTATTTAAAT-AAT-ATTATTTG
1 AATAATTATAAC-A-TTAAATGAATAATTATTTG
*
54524355 AATAGTTATAACATTAAATGAATAATTAT
1 AATAATTATAACATTAAATGAATAATTAT
54524384 GTTTTTATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 6 0.23
31 4 0.15
32 16 0.62
ACGTcount: A:0.49, C:0.03, G:0.05, T:0.43
Consensus pattern (32 bp):
AATAATTATAACATTAAATGAATAATTATTTG
Found at i:54527394 original size:16 final size:16
Alignment explanation
Indices: 54527373--54527403 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
54527363 CAAATAATTA
54527373 AAAGAAAGTTGAACAT
1 AAAGAAAGTTGAACAT
54527389 AAAGAAAGTTGAACA
1 AAAGAAAGTTGAACA
54527404 ATTCTATGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.58, C:0.06, G:0.19, T:0.16
Consensus pattern (16 bp):
AAAGAAAGTTGAACAT
Found at i:54541379 original size:26 final size:26
Alignment explanation
Indices: 54541346--54541397 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
54541336 TAACTTTCTC
54541346 ATCACAATTTTA-CCCTCGATAAAATT
1 ATCACAATTTTACCCCT-GATAAAATT
54541372 ATCACAATTTTACCCCTGATAAAATT
1 ATCACAATTTTACCCCTGATAAAATT
54541398 TTTGAGAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 21 0.84
27 4 0.16
ACGTcount: A:0.38, C:0.23, G:0.04, T:0.35
Consensus pattern (26 bp):
ATCACAATTTTACCCCTGATAAAATT
Found at i:54541565 original size:6 final size:6
Alignment explanation
Indices: 54541546--54541590 Score: 72
Period size: 6 Copynumber: 7.3 Consensus size: 6
54541536 TGTAAATGAA
*
54541546 TTCATT TCTCATT TTCATT TTCATT TTCATT TTCATT TCCATT TT
1 TTCATT T-TCATT TTCATT TTCATT TTCATT TTCATT TTCATT TT
54541591 GAGAAAACCA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
6 30 0.83
7 6 0.17
ACGTcount: A:0.16, C:0.20, G:0.00, T:0.64
Consensus pattern (6 bp):
TTCATT
Found at i:54541988 original size:27 final size:27
Alignment explanation
Indices: 54541958--54542035 Score: 64
Period size: 27 Copynumber: 3.2 Consensus size: 27
54541948 TTCTCCAAAT
54541958 ATTATCCTATTTTATCTCATGGTAACC
1 ATTATCCTATTTTATCTCATGGTAACC
** *
54541985 ATTA--C-ATTTCCT-TCA-CG-AA--
1 ATTATCCTATTTTATCTCATGGTAACC
*
54542004 ATGATCCTATTTTATCTCATGGTAACC
1 ATTATCCTATTTTATCTCATGGTAACC
54542031 ATTAT
1 ATTAT
54542036 ATCTTCCTTC
Statistics
Matches: 35, Mismatches: 8, Indels: 16
0.59 0.14 0.27
Matches are distributed among these distances:
19 3 0.09
21 3 0.09
22 6 0.17
23 6 0.17
24 6 0.17
25 3 0.09
27 8 0.23
ACGTcount: A:0.28, C:0.22, G:0.08, T:0.42
Consensus pattern (27 bp):
ATTATCCTATTTTATCTCATGGTAACC
Found at i:54542028 original size:46 final size:47
Alignment explanation
Indices: 54541961--54542051 Score: 157
Period size: 46 Copynumber: 2.0 Consensus size: 47
54541951 TCCAAATATT
54541961 ATCCTATTTTATCTCATGGTAACCATTACAT-TTCCTTCACGAAATG
1 ATCCTATTTTATCTCATGGTAACCATTACATCTTCCTTCACGAAATG
* *
54542007 ATCCTATTTTATCTCATGGTAACCATTATATCTTCCTTCATGAAA
1 ATCCTATTTTATCTCATGGTAACCATTACATCTTCCTTCACGAAA
54542052 AGTCAAATAC
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
46 30 0.71
47 12 0.29
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.41
Consensus pattern (47 bp):
ATCCTATTTTATCTCATGGTAACCATTACATCTTCCTTCACGAAATG
Found at i:54546112 original size:22 final size:22
Alignment explanation
Indices: 54546084--54546126 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
54546074 TTTATTGTTC
54546084 AAACATGAGAGCTTAGTACGTG
1 AAACATGAGAGCTTAGTACGTG
54546106 AAACATGAGAGCTTAGTACGT
1 AAACATGAGAGCTTAGTACGT
54546127 TAGCGAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.37, C:0.14, G:0.26, T:0.23
Consensus pattern (22 bp):
AAACATGAGAGCTTAGTACGTG
Found at i:54552798 original size:33 final size:33
Alignment explanation
Indices: 54552761--54552826 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
54552751 CCCGTGAGTT
54552761 AGGGTACAATTTCTCGAAGCTCTAAACACGGAA
1 AGGGTACAATTTCTCGAAGCTCTAAACACGGAA
54552794 AGGGTACAATTTCTCGAAGCTCTAAACACGGAA
1 AGGGTACAATTTCTCGAAGCTCTAAACACGGAA
54552827 TATTACCTTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.21
Consensus pattern (33 bp):
AGGGTACAATTTCTCGAAGCTCTAAACACGGAA
Found at i:54554777 original size:42 final size:42
Alignment explanation
Indices: 54554730--54554810 Score: 144
Period size: 42 Copynumber: 1.9 Consensus size: 42
54554720 AATTGTAATT
54554730 TCAATCCACTCCACTGCAACTTCAGGGAGATAAGACTTGACA
1 TCAATCCACTCCACTGCAACTTCAGGGAGATAAGACTTGACA
**
54554772 TCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTG
1 TCAATCCACTCCACTGCAACTTCAGGGAGATAAGACTTG
54554811 GCTTTGGTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (42 bp):
TCAATCCACTCCACTGCAACTTCAGGGAGATAAGACTTGACA
Found at i:54555193 original size:143 final size:143
Alignment explanation
Indices: 54554933--54555417 Score: 754
Period size: 143 Copynumber: 3.4 Consensus size: 143
54554923 ACTGTAATCT
* ** *
54554933 GCCATAATTTGTAGCTTTAATCTGTTCCACTGCAATGTTAGGGAAATAAGATTTGCTATCTTCAG
1 GCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTATCTTCAG
* * * *
54554998 TCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTAGTGGCCTCAATCTTCTCCACTGTAACTTCAG
66 TTTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTACTCCACTGTAACTTCAG
*
54555063 AAAGATAAGATCC
131 GAAGATAAGATCC
* *
54555076 GCCATAATTTGTAGCTTTAATTTGTTCCACTGCAACGCCAGAGAAATAAGATTCGCTATCTTCAG
1 GCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTATCTTCAG
* * *
54555141 TTTGCTCCGCTGCAACTTTAGGGAGATAAGGCTGGTGGCTTCATTCTACTCCATTGTAACTTCAG
66 TTTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTACTCCACTGTAACTTCAG
54555206 GAAGATAAGATCC
131 GAAGATAAGATCC
* * * * *
54555219 GCCATAATTTTTAGCTTTAATCTGTTCCACTGCAATGCTAGGGAAATAAGATTCGTTGTCTTCAG
1 GCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTATCTTCAG
* * *
54555284 TTTGCTCCGCTGTAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAG
66 TTTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTACTCCACTGTAACTTCAG
54555349 GAAGATAAGATCC
131 GAAGATAAGATCC
* *
54555362 GCCATAATTTGTAGCTTTAATCTGTTTCATTGCAACGCCAGGGAAATAAGATTCGC
1 GCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGC
54555418 CAGGATGACT
Statistics
Matches: 309, Mismatches: 33, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
143 309 1.00
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (143 bp):
GCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTATCTTCAG
TTTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTACTCCACTGTAACTTCAG
GAAGATAAGATCC
Found at i:54556826 original size:13 final size:13
Alignment explanation
Indices: 54556810--54556835 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
54556800 TTTAAGCCTC
54556810 TAATTATTTTTAT
1 TAATTATTTTTAT
54556823 TAATTATTTTTAT
1 TAATTATTTTTAT
54556836 GATTTTCCAA
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:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TAATTATTTTTAT
Found at i:54558039 original size:23 final size:23
Alignment explanation
Indices: 54558008--54558058 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
54557998 ACCTACTTTC
* * *
54558008 TTACTGTAGTAATTTACGGGGTA
1 TTACAGTAGCAATTTACGGGATA
*
54558031 TTACAGTAGCAATTTTCGGGATA
1 TTACAGTAGCAATTTACGGGATA
54558054 TTACA
1 TTACA
54558059 CGAGGAAGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.29, C:0.12, G:0.22, T:0.37
Consensus pattern (23 bp):
TTACAGTAGCAATTTACGGGATA
Found at i:54559533 original size:16 final size:16
Alignment explanation
Indices: 54559514--54559548 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
54559504 GCAAAAGCCT
*
54559514 AAAAAGAAAAGAGAAA
1 AAAAAGAAAAAAGAAA
*
54559530 AAAAATAAAAAAGAAA
1 AAAAAGAAAAAAGAAA
54559546 AAA
1 AAA
54559549 GAATCTGGCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.86, C:0.00, G:0.11, T:0.03
Consensus pattern (16 bp):
AAAAAGAAAAAAGAAA
Found at i:54562818 original size:3 final size:3
Alignment explanation
Indices: 54562805--54562869 Score: 121
Period size: 3 Copynumber: 21.7 Consensus size: 3
54562795 ATAATCAAAT
*
54562805 ATA AAA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
54562853 ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA AT
54562870 GAAACATTCA
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:54564314 original size:50 final size:50
Alignment explanation
Indices: 54564255--54564729 Score: 270
Period size: 50 Copynumber: 9.5 Consensus size: 50
54564245 TGATGTCGAT
* * *
54564255 GAAGCAAGATTTGCTGTTGTAGCTTCAATCTGTTCCACTACACCGCCTGG
1 GAAGCAAGATTCGCTGTTGTAGCTTTAATCTGTTCCACTGCACCGCCTGG
* * ** ** * *
54564305 GAAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCAGG
1 GAAGCAAGATTCGCTGTTGTAGCTTTAATCTGTTCCACTGCACCGCCTGG
* * * *
54564355 GAAGCAAGATTCG-TCGTTGTGGCATTAATCTGTTCCACTGCACCGCTTGA
1 GAAGCAAGATTCGCT-GTTGTAGCTTTAATCTGTTCCACTGCACCGCCTGG
* * ** ** * *
54564405 GAAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGG
1 GAAGCAAGATTCGCTGTTGTAGCTTTAATCTGTTCCACTGCACCGCCTGG
* * * * * *
54564455 GAAGCAAGGTTC-ATCGTTGTGGCGTTAATCTATTCCACTGCACCGCTTGG
1 GAAGCAAGATTCGCT-GTTGTAGCTTTAATCTGTTCCACTGCACCGCCTGG
* * * ** ** * *
54564505 GAAGTAAGATTCGCTGTGGTAGCTTTAATCTTTTTAACTGCAATGTCGGG
1 GAAGCAAGATTCGCTGTTGTAGCTTTAATCTGTTCCACTGCACCGCCTGG
* * * * * * * * *
54564555 GAAGCAAGGTTCCCCGTTGTGGCGTTAATCTGTTCCATTACACCGCTTGA
1 GAAGCAAGATTCGCTGTTGTAGCTTTAATCTGTTCCACTGCACCGCCTGG
* ** * * * * * * ** * ** * *
54564605 AAAATAAAATTCGGTATGGTAGCTTTAATATTTTTAATTGCAATGTCGGG
1 GAAGCAAGATTCGCTGTTGTAGCTTTAATCTGTTCCACTGCACCGCCTGG
* * * * * * * *
54564655 GAAGCAAGGTTCGCCGTTGTGGCGTTAATCTGTTACACTGCATCGCTTGA
1 GAAGCAAGATTCGCTGTTGTAGCTTTAATCTGTTCCACTGCACCGCCTGG
*
54564705 GAAGTAAGATTCGCTGTTGTAGCTT
1 GAAGCAAGATTCGCTGTTGTAGCTT
54564730 AATGCCGGGG
Statistics
Matches: 291, Mismatches: 130, Indels: 8
0.68 0.30 0.02
Matches are distributed among these distances:
49 2 0.01
50 287 0.99
51 2 0.01
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (50 bp):
GAAGCAAGATTCGCTGTTGTAGCTTTAATCTGTTCCACTGCACCGCCTGG
Found at i:54564400 original size:100 final size:100
Alignment explanation
Indices: 54564227--54565358 Score: 1066
Period size: 100 Copynumber: 11.5 Consensus size: 100
54564217 TAACTCGCAA
* ** ** * * * *
54564227 CTTTAATCTGTTTAACTGTGATGTCGATGAAGCAAGATTTGCTGTTGTAGC-TTCAATCTGTTCC
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGGTTCGCCGTTGTGGCGTT-AATCTGTTCC
* * *
54564291 ACTACACCGCCTGGGAAGTAAGATTCGCTGTTGTAG
65 ACTGCACCGCTTGAGAAGTAAGATTCGCTGTTGTAG
* * * *
54564327 CTTTAATCTTTTTAACTGCAATGTCAGGGAAGCAAGATTCGTCGTTGTGGCATTAATCTGTTCCA
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGGTTCGCCGTTGTGGCGTTAATCTGTTCCA
54564392 CTGCACCGCTTGAGAAGTAAGATTCGCTGTTGTAG
66 CTGCACCGCTTGAGAAGTAAGATTCGCTGTTGTAG
** *
54564427 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGGTTCATCGTTGTGGCGTTAATCTATTCCA
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGGTTCGCCGTTGTGGCGTTAATCTGTTCCA
* *
54564492 CTGCACCGCTTGGGAAGTAAGATTCGCTGTGGTAG
66 CTGCACCGCTTGAGAAGTAAGATTCGCTGTTGTAG
*
54564527 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGGTTCCCCGTTGTGGCGTTAATCTGTTCCA
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGGTTCGCCGTTGTGGCGTTAATCTGTTCCA
* * * * * * * *
54564592 TTACACCGCTTGAAAAATAAAATTCGGTATGGTAG
66 CTGCACCGCTTGAGAAGTAAGATTCGCTGTTGTAG
* * *
54564627 CTTTAATATTTTTAATTGCAATGTCGGGGAAGCAAGGTTCGCCGTTGTGGCGTTAATCTGTTACA
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGGTTCGCCGTTGTGGCGTTAATCTGTTCCA
*
54564692 CTGCATCGCTTGAGAAGTAAGATTCGCTGTTGTAG
66 CTGCACCGCTTGAGAAGTAAGATTCGCTGTTGTAG
***** * * * ** *
54564727 C-TTAATGCCGGGGAA--GCAA-GATTC-----ACCAATG-T-GGC-TT-TAATCTGTTCCA-CT
1 CTTTAAT-CTTTTTAACTGCAATG--TCGGGGAAGCAAGGTTCGCCGTTGT-GGC-GTT-AATCT
* * * ** * *
54564778 G---CACCGC-CAG--AGAAGTAAGATTCGCTGTTG-TAGCTT-TA-
60 GTTCCACTGCACCGCTTG-AG-AAG-TAAGAT-TCGCT-G-TTGTAG
* * * * * * *
54564816 ATCT--T-TT--TGACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCA
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGGTTCGCCGTTGTGGCGTTAATCTGTTCCA
* * * *
54564876 CTGCATCGCCTGGGGAGTAAGATTCGCTGTTGTAG
66 CTGCACCGCTTGAGAAGTAAGATTCGCTGTTGTAG
* * * * *
54564911 CTTTAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCA
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGGTTCGCCGTTGTGGCGTTAATCTGTTCCA
* * * * *
54564976 CTGCATCACCTGGGGAGTAAGATTCGCTGTTGTAG
66 CTGCACCGCTTGAGAAGTAAGATTCGCTGTTGTAG
* * * * * *
54565011 CTTTAATCTTTCTAACTGCAATGTCGGGGAAGAAAGATTCACCGATGTGGCTTTAATCTGTTCCA
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGGTTCGCCGTTGTGGCGTTAATCTGTTCCA
* * * * *
54565076 CTGCATCACTTGGGGAGTAAAATTCGCTGTTGTAG
66 CTGCACCGCTTGAGAAGTAAGATTCGCTGTTGTAG
* *
54565111 CTTTAATCTTTTTAACTGCAATGTTGGGGAAGCAAGATTCGCCGTTGTGGCGTTAATCTGTTCCA
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGGTTCGCCGTTGTGGCGTTAATCTGTTCCA
* *
54565176 CTGCACCGCTTGAGAAGTAAGATTCACTATTGTAG
66 CTGCACCGCTTGAGAAGTAAGATTCGCTGTTGTAG
54565211 CTTTAATCTTTTTAACTGCAATGTC-GGGAAGCAAGGTTCGCCGTTGTGGCGTTAATCTGTTCCA
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGGTTCGCCGTTGTGGCGTTAATCTGTTCCA
* *
54565275 CTGCACCGCTTGAAAAGTAAGATTCGCT-TGGTAG
66 CTGCACCGCTTGAGAAGTAAGATTCGCTGTTGTAG
* * * * * *
54565309 CTTTAATCTTTTTTACTGTAATGTCGGAGAAGCAAGATTCACCGATGTGG
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGGTTCGCCGTTGTGG
54565359 TTTAAATAGT
Statistics
Matches: 866, Mismatches: 124, Indels: 85
0.81 0.12 0.08
Matches are distributed among these distances:
84 1 0.00
85 2 0.00
86 5 0.01
87 3 0.00
88 5 0.01
89 9 0.01
90 11 0.01
91 7 0.01
92 14 0.02
93 6 0.01
94 11 0.01
95 11 0.01
96 3 0.00
97 3 0.00
98 35 0.04
99 91 0.11
100 647 0.75
101 2 0.00
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (100 bp):
CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGGTTCGCCGTTGTGGCGTTAATCTGTTCCA
CTGCACCGCTTGAGAAGTAAGATTCGCTGTTGTAG
Found at i:54564575 original size:200 final size:200
Alignment explanation
Indices: 54564227--54565358 Score: 1438
Period size: 200 Copynumber: 5.8 Consensus size: 200
54564217 TAACTCGCAA
* ** ** * ** * *
54564227 CTTTAATCTGTTTAACTGTGATGTCGATGAAGCAAGATTTGCTGTTGTAGC-TTCAATCTGTTCC
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGGTTCACCGTTGTGGCGTT-AATCTGTTCC
* * *
54564291 ACTACACCGCCTGGGAAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCAGGG
65 ACTGCACCGCTTGGGAAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGG
** * *
54564356 AAGCAAGATTCGTCGTTGTGGCATTAATCTGTTCCACTGCACCGCTTGAGAAGTAAGATTCGCTG
130 AAGCAAGATTCACCGATGTGGCGTTAATCTGTTCCACTGCACCGCTTGAGAAGTAAGATTCGCTG
54564421 TTGTAG
195 TTGTAG
* *
54564427 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGGTTCATCGTTGTGGCGTTAATCTATTCCA
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGGTTCACCGTTGTGGCGTTAATCTGTTCCA
*
54564492 CTGCACCGCTTGGGAAGTAAGATTCGCTGTGGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGA
66 CTGCACCGCTTGGGAAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGA
* * * * * * * * * *
54564557 AGCAAGGTTCCCCGTTGTGGCGTTAATCTGTTCCATTACACCGCTTGAAAAATAAAATTCGGTAT
131 AGCAAGATTCACCGATGTGGCGTTAATCTGTTCCACTGCACCGCTTGAGAAGTAAGATTCGCTGT
*
54564622 GGTAG
196 TGTAG
* * * *
54564627 CTTTAATATTTTTAATTGCAATGTCGGGGAAGCAAGGTTCGCCGTTGTGGCGTTAATCTGTTACA
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGGTTCACCGTTGTGGCGTTAATCTGTTCCA
* *
54564692 CTGCATCGCTTGAGAAGTAAGATTCGCTGTTGTAG-------C---TTAA-TGC-----CGGGGA
66 CTGCACCGCTTGGGAAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGA
* * **
54564741 AGCAAGATTCACCAATGTGGCTTTAATCTGTTCCACTGCACCGCCAGAGAAGTAAGATTCGCTGT
131 AGCAAGATTCACCGATGTGGCGTTAATCTGTTCCACTGCACCGCTTGAGAAGTAAGATTCGCTGT
54564806 TGTAG
196 TGTAG
* * * *
54564811 CTTTAATCTTTTTGACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCA
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGGTTCACCGTTGTGGCGTTAATCTGTTCCA
* * * *
54564876 CTGCATCGCCTGGGGAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAATTGCAATGTCGGGGA
66 CTGCACCGCTTGGGAAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGA
* * * * * *
54564941 AGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCATCACCTGGGGAGTAAGATTCGCTGT
131 AGCAAGATTCACCGATGTGGCGTTAATCTGTTCCACTGCACCGCTTGAGAAGTAAGATTCGCTGT
54565006 TGTAG
196 TGTAG
* * * * *
54565011 CTTTAATCTTTCTAACTGCAATGTCGGGGAAGAAAGATTCACCGATGTGGCTTTAATCTGTTCCA
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGGTTCACCGTTGTGGCGTTAATCTGTTCCA
* * * * *
54565076 CTGCATCACTTGGGGAGTAAAATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTTGGGGA
66 CTGCACCGCTTGGGAAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGA
* * * *
54565141 AGCAAGATTCGCCGTTGTGGCGTTAATCTGTTCCACTGCACCGCTTGAGAAGTAAGATTCACTAT
131 AGCAAGATTCACCGATGTGGCGTTAATCTGTTCCACTGCACCGCTTGAGAAGTAAGATTCGCTGT
54565206 TGTAG
196 TGTAG
*
54565211 CTTTAATCTTTTTAACTGCAATGTC-GGGAAGCAAGGTTCGCCGTTGTGGCGTTAATCTGTTCCA
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGGTTCACCGTTGTGGCGTTAATCTGTTCCA
** * * * *
54565275 CTGCACCGCTTGAAAAGTAAGATTCGCT-TGGTAGCTTTAATCTTTTTTACTGTAATGTCGGAGA
66 CTGCACCGCTTGGGAAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGA
54565339 AGCAAGATTCACCGATGTGG
131 AGCAAGATTCACCGATGTGG
54565359 TTTAAATAGT
Statistics
Matches: 809, Mismatches: 106, Indels: 36
0.85 0.11 0.04
Matches are distributed among these distances:
184 150 0.19
189 3 0.00
190 4 0.00
191 1 0.00
193 1 0.00
194 4 0.00
195 3 0.00
198 49 0.06
199 56 0.07
200 536 0.66
201 2 0.00
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (200 bp):
CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGGTTCACCGTTGTGGCGTTAATCTGTTCCA
CTGCACCGCTTGGGAAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGA
AGCAAGATTCACCGATGTGGCGTTAATCTGTTCCACTGCACCGCTTGAGAAGTAAGATTCGCTGT
TGTAG
Found at i:54564772 original size:50 final size:49
Alignment explanation
Indices: 54564730--54565272 Score: 250
Period size: 50 Copynumber: 10.9 Consensus size: 49
54564720 GTTGTAGCTT
* *
54564730 AATGCCGGGGAAGCAAGATTCACCAATGTGGCTTTAATCTGTTCCACTGC
1 AATGCCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCTACT-C
** * * * * * * * *
54564780 ACCGCCAGAGAAGTAAGATTCGCTGTTGTAGCTTTAATCT-TTTTGACTGC
1 AATGCCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCT-ACT-C
* *
54564830 AATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGC
1 AATGCCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCTACT-C
* * * * * * *
54564880 -ATCGCCTGGGG-AGTAAGATTCGCTGTTGTAGCTTTAATCT-TTTTAATTGC
1 AAT-GCC-GGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCT-ACT-C
* *
54564930 AATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGC
1 AATGCCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCTACT-C
* * * * * *
54564980 -ATCACCTGGGG-AGTAAGATTCGCTGTTGTAGCTTTAATCT-TTCTAACTGC
1 AAT-GCC-GGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCT-ACT-C
* * *
54565030 AATGTCGGGGAAGAAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGC
1 AATGCCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCTACT-C
* * * * * * *
54565080 -AT-CACTTGGGG-AGTAAAATTCGCTGTTGTAGCTTTAATCT-TTTTAACTGC
1 AATGC-C--GGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCT-ACT-C
** * * * *
54565130 AATGTTGGGGAAGCAAGATTCGCCGTTGTGGCGTTAATCTGTTCCACTGC
1 AATGCCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCTACT-C
** ** * * * * *
54565180 ACCGCTTGAGAAGTAAGATTCA-CTATTGTAGCTTTAATCT-TTTTAACTGC
1 AATGCCGGGGAAGCAAGATTCACCGA-TGTGGCTTTAATCTGTTCT-ACT-C
* * * * *
54565230 AATGTC-GGGAAGCAAGGTTCGCCGTTGTGGCGTTAATCTGTTC
1 AATGCCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTC
54565273 CACTGCACCG
Statistics
Matches: 365, Mismatches: 102, Indels: 52
0.70 0.20 0.10
Matches are distributed among these distances:
49 54 0.15
50 284 0.78
51 27 0.07
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.33
Consensus pattern (49 bp):
AATGCCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCTACTC
Found at i:54564792 original size:84 final size:84
Alignment explanation
Indices: 54564646--54564813 Score: 246
Period size: 84 Copynumber: 2.0 Consensus size: 84
54564636 TTTTAATTGC
* * * ** * **
54564646 AATGTCGGGGAAGCAAGGTTCGCCGTTGTGGCGTTAATCTGTTACACTGCATCGCTTGAGAAGTA
1 AATGCCGGGGAAGCAAGATTCACCAATGTGGCGTTAATCTGTTACACTGCACCGCCAGAGAAGTA
54564711 AGATTCGCTGTTGTAGCTT
66 AGATTCGCTGTTGTAGCTT
* *
54564730 AATGCCGGGGAAGCAAGATTCACCAATGTGGCTTTAATCTGTTCCACTGCACCGCCAGAGAAGTA
1 AATGCCGGGGAAGCAAGATTCACCAATGTGGCGTTAATCTGTTACACTGCACCGCCAGAGAAGTA
54564795 AGATTCGCTGTTGTAGCTT
66 AGATTCGCTGTTGTAGCTT
54564814 TAATCTTTTT
Statistics
Matches: 74, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
84 74 1.00
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (84 bp):
AATGCCGGGGAAGCAAGATTCACCAATGTGGCGTTAATCTGTTACACTGCACCGCCAGAGAAGTA
AGATTCGCTGTTGTAGCTT
Found at i:54565346 original size:49 final size:48
Alignment explanation
Indices: 54564787--54565348 Score: 235
Period size: 50 Copynumber: 11.3 Consensus size: 48
54564777 TGCACCGCCA
* *
54564787 GAGAAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTGACTGCAATGTCG
1 GAGAAGCAAGATTCGC--TTGTAGCTTTAATCTTTTTAACTGCAATGTCG
* * * * * ** *
54564837 GGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGC-ATCGCCTG
1 GAGAAGCAAGATTC-GC-TTGTAGCTTTAATCTTTTTAACTGCAAT-GTC-G
* * *
54564888 G-GGAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAATTGCAATGTCG
1 GAGAAGCAAGATTCGC--TTGTAGCTTTAATCTTTTTAACTGCAATGTCG
* * * * * ** **
54564937 GGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGC-ATCACCTG
1 GAGAAGCAAGATTC-GC-TTGTAGCTTTAATCTTTTTAACTGCAAT-GTC-G
* * *
54564988 G-GGAGTAAGATTCGCTGTTGTAGCTTTAATCTTTCTAACTGCAATGTCG
1 GAGAAGCAAGATTCGC--TTGTAGCTTTAATCTTTTTAACTGCAATGTCG
* * * * * * **
54565037 GGGAAGAAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCATCACT-T-G
1 GAGAAGCAAGATTC-GC-TTGTAGCTTTAATCTTTTTAACTGCA--A-TGTCG
* * * *
54565088 G-GGAGTAAAATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTTG
1 GAGAAGCAAGATTCGC--TTGTAGCTTTAATCTTTTTAACTGCAATGTCG
* * * * ** ** *
54565137 GGGAAGCAAGATTCGCCGTTGTGGCGTTAATCTGTTCCACTGCACCG-CTT
1 GAGAAGCAAGATTCG-C-TTGTAGCTTTAATCTTTTTAACTGCAATGTC-G
* *
54565187 GAGAAGTAAGATTCACTATTGTAGCTTTAATCTTTTTAACTGCAATGTCG
1 GAGAAGCAAGATTCGC--TTGTAGCTTTAATCTTTTTAACTGCAATGTCG
* * * * ** ** *
54565237 G-GAAGCAAGGTTCGCCGTTGTGGCGTTAATCTGTTCCACTGCACCG-CTT
1 GAGAAGCAAGATTCG-C-TTGTAGCTTTAATCTTTTTAACTGCAATGTC-G
* * * *
54565286 GAAAAGTAAGATTCGCTTGGTAGCTTTAATCTTTTTTACTGTAATGTCG
1 GAGAAGCAAGATTCGCTT-GTAGCTTTAATCTTTTTAACTGCAATGTCG
54565335 GAGAAGCAAGATTC
1 GAGAAGCAAGATTC
54565349 ACCGATGTGG
Statistics
Matches: 374, Mismatches: 109, Indels: 59
0.69 0.20 0.11
Matches are distributed among these distances:
47 1 0.00
48 5 0.01
49 79 0.21
50 271 0.72
51 15 0.04
52 2 0.01
53 1 0.00
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.34
Consensus pattern (48 bp):
GAGAAGCAAGATTCGCTTGTAGCTTTAATCTTTTTAACTGCAATGTCG
Found at i:54571934 original size:3 final size:3
Alignment explanation
Indices: 54571928--54571996 Score: 138
Period size: 3 Copynumber: 23.0 Consensus size: 3
54571918 TACAAAGCGG
54571928 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
54571976 TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA
54571997 AGAAACATTC
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 66 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:54573648 original size:25 final size:25
Alignment explanation
Indices: 54573614--54573664 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
54573604 ATATTTATGG
*
54573614 AAAGTTAAAGATATGGGTATCAAAT
1 AAAGTCAAAGATATGGGTATCAAAT
*
54573639 AAAGTCAAAGATATGTGTATCAAAT
1 AAAGTCAAAGATATGGGTATCAAAT
54573664 A
1 A
54573665 TTGGAAAGTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.49, C:0.06, G:0.18, T:0.27
Consensus pattern (25 bp):
AAAGTCAAAGATATGGGTATCAAAT
Found at i:54573675 original size:30 final size:30
Alignment explanation
Indices: 54573611--54573699 Score: 107
Period size: 30 Copynumber: 3.1 Consensus size: 30
54573601 TCCATATTTA
* *
54573611 TGGAAAGTTAAAGATATGGGTATC-AA-A-
1 TGGAAAGTCAAAGATATGTGTATCAAATAT
54573638 T--AAAGTCAAAGATATGTGTATCAAATAT
1 TGGAAAGTCAAAGATATGTGTATCAAATAT
*
54573666 TGGAAAGTCAAAGATATGTGTATCGAGATAT
1 TGGAAAGTCAAAGATATGTGTATC-AAATAT
54573697 TGG
1 TGG
54573700 CATAAGAAAT
Statistics
Matches: 53, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
25 19 0.36
26 2 0.04
27 2 0.04
28 1 0.02
30 21 0.40
31 8 0.15
ACGTcount: A:0.42, C:0.06, G:0.24, T:0.29
Consensus pattern (30 bp):
TGGAAAGTCAAAGATATGTGTATCAAATAT
Found at i:54578633 original size:24 final size:24
Alignment explanation
Indices: 54578605--54578656 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
54578595 TTAGTAGGTC
*
54578605 AAATAAACTAT-GCTAATAAATGCT
1 AAATAAACTATAG-TAATAAATACT
* *
54578629 AAATATATTATAGTAATAAATACT
1 AAATAAACTATAGTAATAAATACT
54578653 AAAT
1 AAAT
54578657 CTTCTAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 23 0.96
25 1 0.04
ACGTcount: A:0.54, C:0.08, G:0.06, T:0.33
Consensus pattern (24 bp):
AAATAAACTATAGTAATAAATACT
Found at i:54582517 original size:39 final size:39
Alignment explanation
Indices: 54582474--54582578 Score: 92
Period size: 35 Copynumber: 2.8 Consensus size: 39
54582464 GGTATATCCA
*
54582474 ACTAGTGCTGGGCACACATTTGATATCGTCGGTTATCTG
1 ACTAGTGCTGGGCACACATTTGATATCGTCAGTTATCTG
** ** * * *
54582513 ACTAGCACTGGGCGTA-AATT-AT-T-ATCAGTTATTTG
1 ACTAGTGCTGGGCACACATTTGATATCGTCAGTTATCTG
* *
54582548 ACTAGTGCTGGGCTCCCATTTGATATCGTCA
1 ACTAGTGCTGGGCACACATTTGATATCGTCA
54582579 TTAGTGTTGG
Statistics
Matches: 47, Mismatches: 15, Indels: 8
0.67 0.21 0.11
Matches are distributed among these distances:
35 20 0.43
36 4 0.09
37 4 0.09
38 4 0.09
39 15 0.32
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.34
Consensus pattern (39 bp):
ACTAGTGCTGGGCACACATTTGATATCGTCAGTTATCTG
Found at i:54602580 original size:33 final size:33
Alignment explanation
Indices: 54602538--54602661 Score: 115
Period size: 33 Copynumber: 3.5 Consensus size: 33
54602528 TCCCCCAAGG
*
54602538 GGTTGCTAAGTGCTGATTCCCCGAGTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
*
54602571 GGTTGCTAAGTGCTGATTCCACCGTATTTTAT-ATGTGAAGGG
1 GGTTGCTAAGTGCTGATTCC-CCG-A----ATCAT-T---GGT
* *
54602613 GGTTGCTCAGTGCTGATTCCCCGAATCACTGGT
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
54602646 GGTTGCTAAGTGCTGA
1 GGTTGCTAAGTGCTGA
54602662 ATCCATCGAT
Statistics
Matches: 74, Mismatches: 6, Indels: 22
0.73 0.06 0.22
Matches are distributed among these distances:
33 37 0.50
34 3 0.04
35 1 0.01
36 3 0.04
37 1 0.01
38 2 0.03
39 2 0.03
40 1 0.01
41 3 0.04
42 21 0.28
ACGTcount: A:0.18, C:0.19, G:0.30, T:0.33
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
Found at i:54631838 original size:49 final size:49
Alignment explanation
Indices: 54631781--54631880 Score: 182
Period size: 49 Copynumber: 2.0 Consensus size: 49
54631771 ATTTGTAAGC
*
54631781 TGGTATTTGATGTCAGCATCATTGCAAATAGCTTGAAACTGAGCTAAAG
1 TGGTATTTGATGTCAGCATCATTGCAAATAGCTGGAAACTGAGCTAAAG
*
54631830 TGGTATTTGATGTCAGCATCATTGCAAATAGCTGGAAACTGAGCTGAAG
1 TGGTATTTGATGTCAGCATCATTGCAAATAGCTGGAAACTGAGCTAAAG
54631879 TG
1 TG
54631881 TACTCAGTGC
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.30
Consensus pattern (49 bp):
TGGTATTTGATGTCAGCATCATTGCAAATAGCTGGAAACTGAGCTAAAG
Found at i:54651850 original size:15 final size:15
Alignment explanation
Indices: 54651830--54651860 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
54651820 CTATCATCTT
54651830 TAACTGCTAACAGAC
1 TAACTGCTAACAGAC
54651845 TAACTGCTAACAGAC
1 TAACTGCTAACAGAC
54651860 T
1 T
54651861 TACAACGGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.26, G:0.13, T:0.23
Consensus pattern (15 bp):
TAACTGCTAACAGAC
Found at i:54651894 original size:20 final size:20
Alignment explanation
Indices: 54651869--54651910 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
54651859 CTTACAACGG
*
54651869 TACAACGGTTTTGACTATAT
1 TACAACGGCTTTGACTATAT
*
54651889 TACAACTGCTTTGACTATAT
1 TACAACGGCTTTGACTATAT
54651909 TA
1 TA
54651911 ACTCTAACAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.40
Consensus pattern (20 bp):
TACAACGGCTTTGACTATAT
Found at i:54656178 original size:20 final size:20
Alignment explanation
Indices: 54656139--54656180 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
54656129 ATGTTAGAGT
*
54656139 TAATATAGTCAAAGCAGTTG
1 TAATATAGTCAAAACAGTTG
*
54656159 TAATATAGTCAAAACCGTTG
1 TAATATAGTCAAAACAGTTG
54656179 TA
1 TA
54656181 CCGTTGTAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.31
Consensus pattern (20 bp):
TAATATAGTCAAAACAGTTG
Found at i:54656209 original size:15 final size:15
Alignment explanation
Indices: 54656189--54656219 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
54656179 TACCGTTGTA
*
54656189 AGTCTGTTAGTAGTT
1 AGTCTGTTAGCAGTT
54656204 AGTCTGTTAGCAGTT
1 AGTCTGTTAGCAGTT
54656219 A
1 A
54656220 AAGATGATAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.23, C:0.10, G:0.26, T:0.42
Consensus pattern (15 bp):
AGTCTGTTAGCAGTT
Found at i:54656844 original size:15 final size:15
Alignment explanation
Indices: 54656824--54656854 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
54656814 CTATCATCTT
54656824 TAACTGCTAACAGAC
1 TAACTGCTAACAGAC
54656839 TAACTGCTAACAGAC
1 TAACTGCTAACAGAC
54656854 T
1 T
54656855 TACAACGGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.26, G:0.13, T:0.23
Consensus pattern (15 bp):
TAACTGCTAACAGAC
Found at i:54656888 original size:20 final size:20
Alignment explanation
Indices: 54656863--54656904 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
54656853 CTTACAACGG
*
54656863 TACAACGGTTTTGACTATAT
1 TACAACGGCTTTGACTATAT
*
54656883 TACAACTGCTTTGACTATAT
1 TACAACGGCTTTGACTATAT
54656903 TA
1 TA
54656905 ACTCTAACAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.40
Consensus pattern (20 bp):
TACAACGGCTTTGACTATAT
Found at i:54691619 original size:40 final size:40
Alignment explanation
Indices: 54691562--54691641 Score: 133
Period size: 40 Copynumber: 2.0 Consensus size: 40
54691552 TACTCTTTGC
*
54691562 CTGGTGTGTTTCAGTTGGATTAGCTCTTCTGAGCTTCTGT
1 CTGGTGTGTTTCAGTTGGATTAGCTCTTATGAGCTTCTGT
**
54691602 CTGGTGTGTTTTGGTTGGATTAGCTCTTATGAGCTTCTGT
1 CTGGTGTGTTTCAGTTGGATTAGCTCTTATGAGCTTCTGT
54691642 TGATTTGACG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.10, C:0.15, G:0.29, T:0.46
Consensus pattern (40 bp):
CTGGTGTGTTTCAGTTGGATTAGCTCTTATGAGCTTCTGT
Found at i:54692735 original size:8 final size:8
Alignment explanation
Indices: 54692722--54692789 Score: 52
Period size: 8 Copynumber: 8.4 Consensus size: 8
54692712 GTTAAAATAT
54692722 ATATTATA
1 ATATTATA
54692730 ATATTATA
1 ATATTATA
54692738 ATATTAT-
1 ATATTATA
*
54692745 ATCTTA-A
1 ATATTATA
*
54692752 TTATTAAGTA
1 ATATT-A-TA
*
54692762 TATATATATT
1 -ATAT-TATA
54692772 ATATTAT-
1 ATATTATA
54692779 ATATTATA
1 ATATTATA
54692787 ATA
1 ATA
54692790 AGTAAATATA
Statistics
Matches: 48, Mismatches: 5, Indels: 14
0.72 0.07 0.21
Matches are distributed among these distances:
7 15 0.31
8 22 0.46
9 4 0.08
10 2 0.04
11 4 0.08
12 1 0.02
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (8 bp):
ATATTATA
Found at i:54692799 original size:32 final size:34
Alignment explanation
Indices: 54692729--54692803 Score: 86
Period size: 34 Copynumber: 2.3 Consensus size: 34
54692719 TATATATTAT
* *
54692729 AATAT-TATAATATTATATCTTAATTATTAAGTA
1 AATATATATAATATTATATATTAATTAATAAGTA
* *
54692762 TATATATATTATATTATATATT-A-TAATAAGTA
1 AATATATATAATATTATATATTAATTAATAAGTA
54692794 AATATA-ATAA
1 AATATATATAA
54692804 ATAAAAGAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
31 3 0.09
32 13 0.37
33 5 0.14
34 14 0.40
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.47
Consensus pattern (34 bp):
AATATATATAATATTATATATTAATTAATAAGTA
Found at i:54696166 original size:30 final size:31
Alignment explanation
Indices: 54696131--54696191 Score: 106
Period size: 30 Copynumber: 2.0 Consensus size: 31
54696121 TATCAGTATA
*
54696131 GTGTGGGCCTTAGCCCATTACAGTAA-CAGT
1 GTGTGGGCCTTAGCCCAATACAGTAATCAGT
54696161 GTGTGGGCCTTAGCCCAATACAGTAATCAGT
1 GTGTGGGCCTTAGCCCAATACAGTAATCAGT
54696192 ACAATGCAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 25 0.86
31 4 0.14
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (31 bp):
GTGTGGGCCTTAGCCCAATACAGTAATCAGT
Found at i:54696321 original size:26 final size:26
Alignment explanation
Indices: 54696292--54696342 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
54696282 CCAACACACC
* * * *
54696292 AATATCGCAGCAAAGCTGTCAGTAAT
1 AATAACGCAACAAAGATGCCAGTAAT
54696318 AATAACGCAACAAAGATGCCAGTAA
1 AATAACGCAACAAAGATGCCAGTAA
54696343 CAGTAATGCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.45, C:0.20, G:0.18, T:0.18
Consensus pattern (26 bp):
AATAACGCAACAAAGATGCCAGTAAT
Found at i:54696357 original size:26 final size:26
Alignment explanation
Indices: 54696298--54696385 Score: 86
Period size: 26 Copynumber: 3.3 Consensus size: 26
54696288 CACCAATATC
* * * * *
54696298 GCAGCAAAGCTGTCAGTAATAATAAC
1 GCAGCAAAGATGCCAGTAACAGTAAT
*
54696324 GCAACAAAGATGCCAGTAACAGTAAT
1 GCAGCAAAGATGCCAGTAACAGTAAT
* *
54696350 GCAGCAAAGTTGCCAATAACAGTATAT
1 GCAGCAAAGATGCCAGTAACAGTA-AT
*
54696377 GTAGCAAAG
1 GCAGCAAAG
54696386 CCACCAGTAC
Statistics
Matches: 51, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
26 41 0.80
27 10 0.20
ACGTcount: A:0.43, C:0.18, G:0.20, T:0.18
Consensus pattern (26 bp):
GCAGCAAAGATGCCAGTAACAGTAAT
Found at i:54696840 original size:27 final size:27
Alignment explanation
Indices: 54696548--54696841 Score: 315
Period size: 27 Copynumber: 10.9 Consensus size: 27
54696538 GAGTATAAAA
*
54696548 GTCATTTTACCCTAT-GGGGGTATTTCG
1 GTCATTTTACCCT-TCGAGGGTATTTCG
54696575 GTCATTTTACCCTTCGAGGGTATTTCG
1 GTCATTTTACCCTTCGAGGGTATTTCG
* * *
54696602 ATCATTTTACCCTTCAGGGGGTATTTTG
1 GTCATTTTACCCTTC-GAGGGTATTTCG
54696630 GTCATTTTACCCTTCG-GGGTATTTCG
1 GTCATTTTACCCTTCGAGGGTATTTCG
*
54696656 GTCATTTTACCCTTTGAGGGTATTTCG
1 GTCATTTTACCCTTCGAGGGTATTTCG
* * * **
54696683 ATCATTTTACCCTTTGGGGGTATTTTA
1 GTCATTTTACCCTTCGAGGGTATTTCG
*
54696710 GTCATTTTACCCTTCTAGGGTATTTCG
1 GTCATTTTACCCTTCGAGGGTATTTCG
* * **
54696737 ATCATTCTACCCTTC-AGGGGTATTTTA
1 GTCATTTTACCCTTCGA-GGGTATTTCG
* * * *
54696764 GTTATTTTACCCTTTGGGGGTATTTCA
1 GTCATTTTACCCTTCGAGGGTATTTCG
* * *
54696791 GTCATTTTAGCTTTTGAGGGTATTTCG
1 GTCATTTTACCCTTCGAGGGTATTTCG
* * *
54696818 GTCATTATACTCTTCGAGTGTATT
1 GTCATTTTACCCTTCGAGGGTATT
54696842 ACTATTATTT
Statistics
Matches: 224, Mismatches: 38, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
26 26 0.12
27 174 0.78
28 24 0.11
ACGTcount: A:0.16, C:0.18, G:0.21, T:0.44
Consensus pattern (27 bp):
GTCATTTTACCCTTCGAGGGTATTTCG
Found at i:54696852 original size:81 final size:81
Alignment explanation
Indices: 54696547--54696841 Score: 382
Period size: 81 Copynumber: 3.6 Consensus size: 81
54696537 GGAGTATAAA
* *
54696547 AGTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTTCGAGGGTATTTCGATCATTTTAC
1 AGTCATTTTACCCTTTGAGGGTATTTCGGTCATTTTACCCTTCGAGGGTATTTCGATCATTTTAC
*
54696612 CCTTCAGGGGGTATTTT
66 CCTT-TGGGGGTATTTT
* * *
54696629 GGTCATTTTACCCTTCG-GGGTATTTCGGTCATTTTACCCTTTGAGGGTATTTCGATCATTTTAC
1 AGTCATTTTACCCTTTGAGGGTATTTCGGTCATTTTACCCTTCGAGGGTATTTCGATCATTTTAC
54696693 CCTTTGGGGGTATTTT
66 CCTTTGGGGGTATTTT
* * * *
54696709 AGTCATTTTACCCTTCT-AGGGTATTTCGATCATTCTACCCTTC-AGGGGTATTT-TAGTTATTT
1 AGTCATTTTACCCTT-TGAGGGTATTTCGGTCATTTTACCCTTCGA-GGGTATTTCGA-TCATTT
*
54696771 TACCCTTTGGGGGTATTTC
63 TACCCTTTGGGGGTATTTT
* * * * *
54696790 AGTCATTTTAGCTTTTGAGGGTATTTCGGTCATTATACTCTTCGAGTGTATT
1 AGTCATTTTACCCTTTGAGGGTATTTCGGTCATTTTACCCTTCGAGGGTATT
54696842 ACTATTATTT
Statistics
Matches: 188, Mismatches: 19, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
80 28 0.15
81 145 0.77
82 15 0.08
ACGTcount: A:0.17, C:0.18, G:0.21, T:0.44
Consensus pattern (81 bp):
AGTCATTTTACCCTTTGAGGGTATTTCGGTCATTTTACCCTTCGAGGGTATTTCGATCATTTTAC
CCTTTGGGGGTATTTT
Found at i:54710725 original size:30 final size:28
Alignment explanation
Indices: 54710685--54710747 Score: 99
Period size: 30 Copynumber: 2.2 Consensus size: 28
54710675 GAAAATCAGA
*
54710685 GAAAACGTGCATATTTCAAGAGGTATTGAT
1 GAAAAAGTGCATATTTCAAGAGG--TTGAT
54710715 GAAAAAGTGCATATTTCAAGAGGTTGAT
1 GAAAAAGTGCATATTTCAAGAGGTTGAT
54710743 GAAAA
1 GAAAA
54710748 GGCTTTGTCT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 10 0.31
30 22 0.69
ACGTcount: A:0.41, C:0.08, G:0.24, T:0.27
Consensus pattern (28 bp):
GAAAAAGTGCATATTTCAAGAGGTTGAT
Found at i:54730378 original size:40 final size:40
Alignment explanation
Indices: 54730318--54730400 Score: 139
Period size: 40 Copynumber: 2.1 Consensus size: 40
54730308 TTATACTCTT
*
54730318 TGTCTGGTGTGTTTCAGTTGGATTAGCTCTTCTGAGCTTC
1 TGTCTGGTGTGTTTCAGTTGGATTAGCTCTTATGAGCTTC
**
54730358 TGTCTGGTGTGTTTTGGTTGGATTAGCTCTTATGAGCTTC
1 TGTCTGGTGTGTTTCAGTTGGATTAGCTCTTATGAGCTTC
54730398 TGT
1 TGT
54730401 TGATTTGATG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.10, C:0.14, G:0.29, T:0.47
Consensus pattern (40 bp):
TGTCTGGTGTGTTTCAGTTGGATTAGCTCTTATGAGCTTC
Found at i:54733749 original size:30 final size:31
Alignment explanation
Indices: 54733713--54733773 Score: 106
Period size: 30 Copynumber: 2.0 Consensus size: 31
54733703 TATCAGTACA
*
54733713 GTGTGGGCCTTAGCCCATTACAGTAA-CAGT
1 GTGTGGGCCTTAGCCCAATACAGTAATCAGT
54733743 GTGTGGGCCTTAGCCCAATACAGTAATCAGT
1 GTGTGGGCCTTAGCCCAATACAGTAATCAGT
54733774 ACAATGCAGC
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 25 0.86
31 4 0.14
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (31 bp):
GTGTGGGCCTTAGCCCAATACAGTAATCAGT
Found at i:54733916 original size:26 final size:27
Alignment explanation
Indices: 54733887--54733944 Score: 82
Period size: 26 Copynumber: 2.2 Consensus size: 27
54733877 AATGACGCAA
*
54733887 CAAAGATGCCAGTAACAGTA-ATGCAG
1 CAAAGATGCCAATAACAGTATATGCAG
* *
54733913 CAAAGTTGCCAATAACAGTATATGTAG
1 CAAAGATGCCAATAACAGTATATGCAG
54733940 CAAAG
1 CAAAG
54733945 CCACTAGTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 18 0.64
27 10 0.36
ACGTcount: A:0.43, C:0.17, G:0.21, T:0.19
Consensus pattern (27 bp):
CAAAGATGCCAATAACAGTATATGCAG
Found at i:54734137 original size:27 final size:27
Alignment explanation
Indices: 54734107--54734354 Score: 304
Period size: 27 Copynumber: 9.2 Consensus size: 27
54734097 GAGTATAAAA
*
54734107 GTCATTTTACCCTATAG-GGGTATTTCG
1 GTCATTTTACCCT-TCGAGGGTATTTCG
* *
54734134 GTCATTTTACCCTTTGAGGGTATTTCA
1 GTCATTTTACCCTTCGAGGGTATTTCG
54734161 GTCA-TTTACCCTTCGAGGGTATTTCG
1 GTCATTTTACCCTTCGAGGGTATTTCG
54734187 GTCATTTTACCCTTCGAGGGTATTTCG
1 GTCATTTTACCCTTCGAGGGTATTTCG
* * * *
54734214 ATCATTTTACCCTTTAGGGGGTATTTTG
1 GTCATTTTACCC-TTCGAGGGTATTTCG
*
54734242 GTTATTTTACCCTTCG-GGGTATTTCG
1 GTCATTTTACCCTTCGAGGGTATTTCG
* * *
54734268 ATCATTTTACCCTTTGAGGGTATTTCA
1 GTCATTTTACCCTTCGAGGGTATTTCG
* * * *
54734295 GTTATTTTACCCTTTGGGGGTATTTCA
1 GTCATTTTACCCTTCGAGGGTATTTCG
* *
54734322 GTCATTTTACCTTTTGAGGGTATTTCG
1 GTCATTTTACCCTTCGAGGGTATTTCG
54734349 GTCATT
1 GTCATT
54734355 GTACTATTCG
Statistics
Matches: 194, Mismatches: 23, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
26 48 0.25
27 124 0.64
28 22 0.11
ACGTcount: A:0.17, C:0.18, G:0.21, T:0.44
Consensus pattern (27 bp):
GTCATTTTACCCTTCGAGGGTATTTCG
Found at i:54734264 original size:54 final size:55
Alignment explanation
Indices: 54734106--54734354 Score: 325
Period size: 53 Copynumber: 4.6 Consensus size: 55
54734096 GGAGTATAAA
* *
54734106 AGTCATTTTACCCTATAG-GGGTATTTCGGTCATTTTACCCTTTGAGGGTATTTC
1 AGTCATTTTACCCTTTAGAGGGTATTTCGGTCATTTTACCCTTCGAGGGTATTTC
*
54734160 AGTCA-TTTACCC-TTCGAGGGTATTTCGGTCATTTTACCCTTCGAGGGTATTTC
1 AGTCATTTTACCCTTTAGAGGGTATTTCGGTCATTTTACCCTTCGAGGGTATTTC
* * *
54734213 -GATCATTTTACCCTTTAGGGGGTATTTTGGTTATTTTACCCTTCG-GGGTATTTC
1 AG-TCATTTTACCCTTTAGAGGGTATTTCGGTCATTTTACCCTTCGAGGGTATTTC
* * * *
54734267 -GATCATTTTACCCTTT-GAGGGTATTTCAGTTATTTTACCCTTTGGGGGTATTTC
1 AG-TCATTTTACCCTTTAGAGGGTATTTCGGTCATTTTACCCTTCGAGGGTATTTC
*
54734321 AGTCATTTTA-CCTTTTGAGGGTATTTCGGTCATT
1 AGTCATTTTACCCTTTAGAGGGTATTTCGGTCATT
54734355 GTACTATTCG
Statistics
Matches: 175, Mismatches: 13, Indels: 14
0.87 0.06 0.07
Matches are distributed among these distances:
52 3 0.02
53 74 0.42
54 70 0.40
55 28 0.16
ACGTcount: A:0.17, C:0.18, G:0.21, T:0.44
Consensus pattern (55 bp):
AGTCATTTTACCCTTTAGAGGGTATTTCGGTCATTTTACCCTTCGAGGGTATTTC
Found at i:54757255 original size:15 final size:15
Alignment explanation
Indices: 54757235--54757267 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
54757225 TATTAAATAC
54757235 TATTATTGTTTA-TAT
1 TATTATT-TTTATTAT
54757250 TATTATTTTTATTAT
1 TATTATTTTTATTAT
54757265 TAT
1 TAT
54757268 ATTATGGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (15 bp):
TATTATTTTTATTAT
Found at i:54758375 original size:37 final size:37
Alignment explanation
Indices: 54758294--54758376 Score: 89
Period size: 38 Copynumber: 2.2 Consensus size: 37
54758284 ATATGTGTGG
* *
54758294 AATTGAATCGAATATTGACTTGAAAATGGAAAAGTGA
1 AATTGAATCGAATATCGACTTGAAAATGGAAAAATGA
* *
54758331 ATTTTGAATCGAAT-TGCGA-TTGAAAGTGGAAAAAATGA
1 A-ATTGAATCGAATAT-CGACTTGAAAATGG-AAAAATGA
54758369 AATTGAAT
1 AATTGAAT
54758377 TAAAATGTGA
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
37 17 0.45
38 21 0.55
ACGTcount: A:0.45, C:0.05, G:0.22, T:0.29
Consensus pattern (37 bp):
AATTGAATCGAATATCGACTTGAAAATGGAAAAATGA
Found at i:54758545 original size:23 final size:23
Alignment explanation
Indices: 54758479--54758588 Score: 133
Period size: 23 Copynumber: 5.0 Consensus size: 23
54758469 GCTTTGCCGG
*
54758479 TCAGGCACTTTATGTGTCATATA
1 TCAGGCACTTTATGTGTCGTATA
*
54758502 TCAGGCACTTTATGTGCCGTATA
1 TCAGGCACTTTATGTGTCGTATA
54758525 TCAGGCACTTTATGTGTCG--TA
1 TCAGGCACTTTATGTGTCGTATA
**
54758546 TCAGGCAAC-TCGTGTGTCGT-T-
1 TCAGGC-ACTTTATGTGTCGTATA
54758567 TCAGGCAC-TTATGTGTCGTATA
1 TCAGGCACTTTATGTGTCGTATA
54758589 CTGATCAGGT
Statistics
Matches: 76, Mismatches: 7, Indels: 9
0.83 0.08 0.10
Matches are distributed among these distances:
20 11 0.14
21 23 0.30
22 3 0.04
23 39 0.51
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.36
Consensus pattern (23 bp):
TCAGGCACTTTATGTGTCGTATA
Found at i:54758964 original size:3 final size:3
Alignment explanation
Indices: 54758956--54759012 Score: 114
Period size: 3 Copynumber: 19.0 Consensus size: 3
54758946 ATTATATTCC
54758956 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
54759004 ATT ATT ATT
1 ATT ATT ATT
54759013 GAGTTATGGT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:54761507 original size:17 final size:16
Alignment explanation
Indices: 54761469--54761503 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
54761459 TAAGTTGGTA
54761469 TTTGGGTCTAGGTAAT
1 TTTGGGTCTAGGTAAT
54761485 TTTGGGTCTAGGTAAT
1 TTTGGGTCTAGGTAAT
54761501 TTT
1 TTT
54761504 TGGGCTGAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.17, C:0.06, G:0.29, T:0.49
Consensus pattern (16 bp):
TTTGGGTCTAGGTAAT
Found at i:54764829 original size:26 final size:26
Alignment explanation
Indices: 54764793--54764844 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
54764783 CAATATCTTT
54764793 GGTCCCTAATCTCCCTCCTAACAATC
1 GGTCCCTAATCTCCCTCCTAACAATC
54764819 GGTCCCTAATCTCCCTCCTAACAATC
1 GGTCCCTAATCTCCCTCCTAACAATC
54764845 CACTCTTCTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.23, C:0.42, G:0.08, T:0.27
Consensus pattern (26 bp):
GGTCCCTAATCTCCCTCCTAACAATC
Found at i:54765201 original size:9 final size:9
Alignment explanation
Indices: 54765187--54765217 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
54765177 GTTAAACGAA
54765187 TCGAGTTAT
1 TCGAGTTAT
*
54765196 TCGAGTTAA
1 TCGAGTTAT
54765205 TCGAGTTAT
1 TCGAGTTAT
54765214 TCGA
1 TCGA
54765218 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:54765288 original size:9 final size:9
Alignment explanation
Indices: 54765271--54765307 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
54765261 TGAGTTTTCG
54765271 AATTCGAAT
1 AATTCGAAT
*
54765280 AACTCGAAT
1 AATTCGAAT
54765289 AATTCGAAT
1 AATTCGAAT
54765298 AATTCGAAT
1 AATTCGAAT
54765307 A
1 A
54765308 TGAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:54766440 original size:21 final size:21
Alignment explanation
Indices: 54766416--54766457 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
54766406 TCCCTTTTTC
*
54766416 TTTAT-TTTTTTATTTATTATT
1 TTTATGTTTGTTA-TTATTATT
54766437 TTTATGTTTGTTATTATTATT
1 TTTATGTTTGTTATTATTATT
54766458 AGGAATGTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.19, C:0.00, G:0.05, T:0.76
Consensus pattern (21 bp):
TTTATGTTTGTTATTATTATT
Found at i:54772738 original size:16 final size:16
Alignment explanation
Indices: 54772717--54772750 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
54772707 TGGTAAAATG
54772717 TTAGAAAATTTATATT
1 TTAGAAAATTTATATT
54772733 TTAGAAAATTTATATT
1 TTAGAAAATTTATATT
54772749 TT
1 TT
54772751 TTTAATATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (16 bp):
TTAGAAAATTTATATT
Found at i:54788287 original size:2 final size:2
Alignment explanation
Indices: 54788280--54788319 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
54788270 CTTCGAATGC
54788280 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
54788320 TATTCAAACA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:54788426 original size:36 final size:36
Alignment explanation
Indices: 54788351--54788426 Score: 91
Period size: 36 Copynumber: 2.1 Consensus size: 36
54788341 AGCAAATAAT
* * * *
54788351 TATACTTATCAACCACATGTGCCGACTGCACATATA
1 TATACTTATCAACCACATATGCCGAATGCACACACA
*
54788387 TATACTTAT-AATTCACATATGCCGAATGCACACACA
1 TATACTTATCAA-CCACATATGCCGAATGCACACACA
54788423 TATA
1 TATA
54788427 TATATATCCA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
35 2 0.06
36 32 0.94
ACGTcount: A:0.37, C:0.25, G:0.09, T:0.29
Consensus pattern (36 bp):
TATACTTATCAACCACATATGCCGAATGCACACACA
Found at i:54788653 original size:41 final size:41
Alignment explanation
Indices: 54788598--54788719 Score: 199
Period size: 41 Copynumber: 3.0 Consensus size: 41
54788588 TTAATTAAAA
*
54788598 CAGATTCACTGGCACTTAGCCTGCTAGGCTTAAAGCCTGATT
1 CAGA-TCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTGATT
*
54788640 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTGATT
* *
54788681 CAGTTCACCGGCACTTAGCCTGCTAGGCTTTAAGCCTGA
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTGA
54788720 ATTGATTCAT
Statistics
Matches: 75, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
41 71 0.95
42 4 0.05
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (41 bp):
CAGATCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTGATT
Found at i:54788758 original size:82 final size:81
Alignment explanation
Indices: 54788602--54788760 Score: 198
Period size: 82 Copynumber: 1.9 Consensus size: 81
54788592 TTAAAACAGA
* *
54788602 TTCACTGGCACTTAGCCTGCTAGGCTTAAAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGG
1 TTCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTGATT-AGATCACCGGCAATTAGCCTGCTAGG
*
54788667 CTTATAGCCTGATTCAG
65 CTTAGAGCCTGATTCAG
* **
54788684 TTCACCGGCACTTAGCCTGCTAGGCTTTAAGCCTGAATT-GATTCATTGGCAATATA-CCTGCTA
1 TTCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTG-ATTAGA-TCACCGGCAAT-TAGCCTGCTA
54788747 GGCGTT-GAGCCTGA
63 GGC-TTAGAGCCTGA
54788761 ATACGCAATT
Statistics
Matches: 67, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
81 2 0.03
82 58 0.87
83 7 0.10
ACGTcount: A:0.22, C:0.26, G:0.23, T:0.29
Consensus pattern (81 bp):
TTCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTGATTAGATCACCGGCAATTAGCCTGCTAGGC
TTAGAGCCTGATTCAG
Found at i:54789646 original size:2 final size:2
Alignment explanation
Indices: 54789639--54789665 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
54789629 AACATTAGAA
54789639 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
54789666 AATCATTCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:54791960 original size:25 final size:25
Alignment explanation
Indices: 54791901--54791960 Score: 81
Period size: 24 Copynumber: 2.5 Consensus size: 25
54791891 TTTCTAGAAG
54791901 ATTTAGTT-TTTATTAGTATAATAT
1 ATTTAGTTATTTATTAGTATAATAT
*
54791925 ATTTAG-CATTTATTAGTATAAATAT
1 ATTTAGTTATTTATTAGTAT-AATAT
54791950 ATTT-GTTATTT
1 ATTTAGTTATTT
54791961 CTTTTCATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
24 18 0.58
25 13 0.42
ACGTcount: A:0.33, C:0.02, G:0.08, T:0.57
Consensus pattern (25 bp):
ATTTAGTTATTTATTAGTATAATAT
Found at i:54792327 original size:24 final size:24
Alignment explanation
Indices: 54792278--54792352 Score: 107
Period size: 24 Copynumber: 3.2 Consensus size: 24
54792268 AAGAAATAAC
* * *
54792278 AAATATTTTATTCTAA-AAATGTT
1 AAATATATTATGCTAATAAATGCT
54792301 AAATATATTATGCTAATAAATGCT
1 AAATATATTATGCTAATAAATGCT
*
54792325 AAATATATTATGCTAATAAATACT
1 AAATATATTATGCTAATAAATGCT
54792349 AAAT
1 AAAT
54792353 CTTCTCGAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
23 14 0.30
24 33 0.70
ACGTcount: A:0.48, C:0.07, G:0.05, T:0.40
Consensus pattern (24 bp):
AAATATATTATGCTAATAAATGCT
Found at i:54792339 original size:14 final size:14
Alignment explanation
Indices: 54792300--54792340 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
54792290 CTAAAAATGT
54792300 TAAATATATTATGC
1 TAAATATATTATGC
54792314 T-AATA-A--ATGC
1 TAAATATATTATGC
54792324 TAAATATATTATGC
1 TAAATATATTATGC
54792338 TAA
1 TAA
54792341 TAAATACTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 8
0.74 0.00 0.26
Matches are distributed among these distances:
10 5 0.22
11 4 0.17
12 2 0.09
13 4 0.17
14 8 0.35
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.39
Consensus pattern (14 bp):
TAAATATATTATGC
Found at i:54800641 original size:18 final size:18
Alignment explanation
Indices: 54800618--54800654 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
54800608 TTGCCAACCT
*
54800618 TTCTAAATTATACCAATA
1 TTCTAAATCATACCAATA
*
54800636 TTCTAACTCATACCAATA
1 TTCTAAATCATACCAATA
54800654 T
1 T
54800655 CAAAGTTCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.41, C:0.22, G:0.00, T:0.38
Consensus pattern (18 bp):
TTCTAAATCATACCAATA
Found at i:54816135 original size:40 final size:40
Alignment explanation
Indices: 54816085--54816165 Score: 135
Period size: 40 Copynumber: 2.0 Consensus size: 40
54816075 ATACTCTTTT
*
54816085 TCTGGTGTGTTTCAGTTGGATTAGCTCTTCTGAGCTTCTG
1 TCTGGTGTGTTTCAGTTGGATTAGCTCTTATGAGCTTCTG
**
54816125 TCTGGTGTGTTTTGGTTGGATTAGCTCTTATGAGCTTCTG
1 TCTGGTGTGTTTCAGTTGGATTAGCTCTTATGAGCTTCTG
54816165 T
1 T
54816166 TGATTTGACG
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.10, C:0.15, G:0.28, T:0.47
Consensus pattern (40 bp):
TCTGGTGTGTTTCAGTTGGATTAGCTCTTATGAGCTTCTG
Found at i:54819883 original size:30 final size:31
Alignment explanation
Indices: 54819847--54819907 Score: 99
Period size: 30 Copynumber: 2.0 Consensus size: 31
54819837 TATCAGTACA
54819847 GTGTGGGCCTTAG-CCAATTACAGTAA-CAGT
1 GTGTGGGCCTTAGCCCAA-TACAGTAATCAGT
54819877 GTGTGGGCCTTAGCCCAATACAGTAATCAGT
1 GTGTGGGCCTTAGCCCAATACAGTAATCAGT
54819908 ACAATGCAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
30 21 0.72
31 8 0.28
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (31 bp):
GTGTGGGCCTTAGCCCAATACAGTAATCAGT
Found at i:54820037 original size:26 final size:26
Alignment explanation
Indices: 54820008--54820058 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
54819998 CCAACACACC
* * * *
54820008 AATATCGCAGCAAAGCTGTCAGTAAT
1 AATAACGCAACAAAGATGCCAGTAAT
54820034 AATAACGCAACAAAGATGCCAGTAA
1 AATAACGCAACAAAGATGCCAGTAA
54820059 CAGTAATGCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.45, C:0.20, G:0.18, T:0.18
Consensus pattern (26 bp):
AATAACGCAACAAAGATGCCAGTAAT
Found at i:54820073 original size:26 final size:26
Alignment explanation
Indices: 54820014--54820101 Score: 86
Period size: 26 Copynumber: 3.3 Consensus size: 26
54820004 CACCAATATC
* * * * *
54820014 GCAGCAAAGCTGTCAGTAATAATAAC
1 GCAGCAAAGATGCCAGTAACAGTAAT
*
54820040 GCAACAAAGATGCCAGTAACAGTAAT
1 GCAGCAAAGATGCCAGTAACAGTAAT
* *
54820066 GCAGCAAAGTTGCCAATAACAGTATAT
1 GCAGCAAAGATGCCAGTAACAGTA-AT
*
54820093 GTAGCAAAG
1 GCAGCAAAG
54820102 CCACTAGTAC
Statistics
Matches: 51, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
26 41 0.80
27 10 0.20
ACGTcount: A:0.43, C:0.18, G:0.20, T:0.18
Consensus pattern (26 bp):
GCAGCAAAGATGCCAGTAACAGTAAT
Found at i:54820297 original size:27 final size:27
Alignment explanation
Indices: 54820264--54820592 Score: 387
Period size: 27 Copynumber: 12.2 Consensus size: 27
54820254 GAGTATAAAA
*
54820264 GTCATTTTACCCTAT-GGGGGTATTTCG
1 GTCATTTTACCCT-TCGAGGGTATTTCG
* *
54820291 GTTATTTTACCCTTCGAGGGTATTTCA
1 GTCATTTTACCCTTCGAGGGTATTTCG
54820318 GTCA-TTTACCCTTCGAGGGTATTTCG
1 GTCATTTTACCCTTCGAGGGTATTTCG
*
54820344 GTTATTTTACCCTTCGAGGGTATTTCG
1 GTCATTTTACCCTTCGAGGGTATTTCG
* * * *
54820371 ATCATTTTACCCTTTAGGGGGTATTTTG
1 GTCATTTTACCC-TTCGAGGGTATTTCG
* *
54820399 GTTATTTTACCCTTC-TGGGTATTTCG
1 GTCATTTTACCCTTCGAGGGTATTTCG
*
54820425 GTCATTTTACCCTTTGAGGGTATTTCG
1 GTCATTTTACCCTTCGAGGGTATTTCG
* * * * *
54820452 ATCATTTTACCGTTTGGGGGTATTTCA
1 GTCATTTTACCCTTCGAGGGTATTTCG
54820479 GTCATTTTACCCTTCGAGGGTATTTCG
1 GTCATTTTACCCTTCGAGGGTATTTCG
* *
54820506 ATCATTTTACCCTTC-AGGGGTATTTCA
1 GTCATTTTACCCTTCGA-GGGTATTTCG
* * * *
54820533 GTTATTTTACCCTTTGGGGGTATTTCA
1 GTCATTTTACCCTTCGAGGGTATTTCG
* *
54820560 GTCATTTTACCTTTTGAGGGTATTTCG
1 GTCATTTTACCCTTCGAGGGTATTTCG
54820587 GTCATT
1 GTCATT
54820593 GTACTATTCG
Statistics
Matches: 258, Mismatches: 38, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
26 48 0.19
27 188 0.73
28 22 0.09
ACGTcount: A:0.16, C:0.18, G:0.21, T:0.44
Consensus pattern (27 bp):
GTCATTTTACCCTTCGAGGGTATTTCG
Found at i:54820436 original size:81 final size:81
Alignment explanation
Indices: 54820264--54820592 Score: 443
Period size: 81 Copynumber: 4.1 Consensus size: 81
54820254 GAGTATAAAA
* * * * *
54820264 GTCATTTTACCCTAT-GGGGGTATTTCGGTTATTTTACCCTTCGAGGGTATTTCAGTCA-TTTAC
1 GTCATTTTACCCT-TCGAGGGTATTTCGATCATTTTACCCTTTGGGGGTATTTCAGTCATTTTAC
54820327 CCTTCGAGGGTATTTCG
65 CCTTCGAGGGTATTTCG
* ** *
54820344 GTTATTTTACCCTTCGAGGGTATTTCGATCATTTTACCCTTTAGGGGGTATTTTGGTTATTTTAC
1 GTCATTTTACCCTTCGAGGGTATTTCGATCATTTTACCCTTT-GGGGGTATTTCAGTCATTTTAC
*
54820409 CCTTC-TGGGTATTTCG
65 CCTTCGAGGGTATTTCG
* *
54820425 GTCATTTTACCCTTTGAGGGTATTTCGATCATTTTACCGTTTGGGGGTATTTCAGTCATTTTACC
1 GTCATTTTACCCTTCGAGGGTATTTCGATCATTTTACCCTTTGGGGGTATTTCAGTCATTTTACC
54820490 CTTCGAGGGTATTTCG
66 CTTCGAGGGTATTTCG
* *
54820506 ATCATTTTACCCTTC-AGGGGTATTTC-AGTTATTTTACCCTTTGGGGGTATTTCAGTCATTTTA
1 GTCATTTTACCCTTCGA-GGGTATTTCGA-TCATTTTACCCTTTGGGGGTATTTCAGTCATTTTA
* *
54820569 CCTTTTGAGGGTATTTCG
64 CCCTTCGAGGGTATTTCG
54820587 GTCATT
1 GTCATT
54820593 GTACTATTCG
Statistics
Matches: 219, Mismatches: 24, Indels: 11
0.86 0.09 0.04
Matches are distributed among these distances:
79 1 0.00
80 61 0.28
81 147 0.67
82 10 0.05
ACGTcount: A:0.16, C:0.18, G:0.21, T:0.44
Consensus pattern (81 bp):
GTCATTTTACCCTTCGAGGGTATTTCGATCATTTTACCCTTTGGGGGTATTTCAGTCATTTTACC
CTTCGAGGGTATTTCG
Found at i:54849034 original size:12 final size:13
Alignment explanation
Indices: 54849017--54849046 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
54849007 CGTTAGTCCC
54849017 TTTTTCTTTATT-
1 TTTTTCTTTATTA
54849029 TTTTTCTTTATTA
1 TTTTTCTTTATTA
54849042 TTTTT
1 TTTTT
54849047 ATGTTTGTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.71
13 5 0.29
ACGTcount: A:0.10, C:0.07, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTTTCTTTATTA
Found at i:54880737 original size:25 final size:25
Alignment explanation
Indices: 54880677--54880737 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 25
54880667 TTTCTAGAAG
* *
54880677 ATTTGGTTTTTTATTAGTATAATAT
1 ATTTAGTTATTTATTAGTATAATAT
*
54880702 ATTTAG-CATTTATTAGTATAAATAT
1 ATTTAGTTATTTATTAGTAT-AATAT
54880727 ATTT-GTTATTT
1 ATTTAGTTATTT
54880738 CTTTCCATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
24 12 0.40
25 18 0.60
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (25 bp):
ATTTAGTTATTTATTAGTATAATAT
Found at i:54886738 original size:29 final size:31
Alignment explanation
Indices: 54886704--54886763 Score: 97
Period size: 29 Copynumber: 2.0 Consensus size: 31
54886694 TATCAGTATA
*
54886704 GTGTGGGCCTTA-CCCATTACAGTAA-CAGT
1 GTGTGGGCCTTAGCCCAATACAGTAATCAGT
54886733 GTGTGGGCCTTAGCCCAATACAGTAATCAGT
1 GTGTGGGCCTTAGCCCAATACAGTAATCAGT
54886764 ACAATGCAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 12 0.43
30 12 0.43
31 4 0.14
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.27
Consensus pattern (31 bp):
GTGTGGGCCTTAGCCCAATACAGTAATCAGT
Found at i:54886898 original size:26 final size:26
Alignment explanation
Indices: 54886863--54886942 Score: 72
Period size: 26 Copynumber: 3.1 Consensus size: 26
54886853 GCCAACACAC
* * *
54886863 CAATATCGCAGCAAAGCTGTCAGTAA
1 CAATAACGCAGCAAAGATGCCAGTAA
* * *
54886889 TAATGACGCAACAAAGATGCCAGTAA
1 CAATAACGCAGCAAAGATGCCAGTAA
* *
54886915 CAGTAACGCAGCAAA-ATTGCCAATAA
1 CAATAACGCAGCAAAGA-TGCCAGTAA
54886941 CA
1 CA
54886943 GTATATGTAG
Statistics
Matches: 42, Mismatches: 11, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
25 1 0.02
26 41 0.98
ACGTcount: A:0.44, C:0.23, G:0.17, T:0.16
Consensus pattern (26 bp):
CAATAACGCAGCAAAGATGCCAGTAA
Found at i:54887150 original size:27 final size:27
Alignment explanation
Indices: 54887120--54887466 Score: 387
Period size: 27 Copynumber: 12.9 Consensus size: 27
54887110 GAGTATAAAA
*
54887120 GTCATTTTACCCTAT-GGGGGTATTTCG
1 GTCATTTTACCCT-TCGAGGGTATTTCG
*
54887147 GTCATTTTACCCTTCGAGGGTATTTCA
1 GTCATTTTACCCTTCGAGGGTATTTCG
54887174 GTCA-TTTACCCTTCGAGGGTATTTCG
1 GTCATTTTACCCTTCGAGGGTATTTCG
*
54887200 ATCATTTTACCCTTCGAGGGTATTTCG
1 GTCATTTTACCCTTCGAGGGTATTTCG
* * *
54887227 ATCATTTTACCCTTCAGGGGGTATTTTG
1 GTCATTTTACCCTTC-GAGGGTATTTCG
54887255 GTCATTTTACCCTTC-AGGGTATTTCG
1 GTCATTTTACCCTTCGAGGGTATTTCG
* *
54887281 GTCATTTTACGCTTTGAGGGTATTTCG
1 GTCATTTTACCCTTCGAGGGTATTTCG
* * * **
54887308 ATCATTTTACCCTTTGGGGGTATTTTA
1 GTCATTTTACCCTTCGAGGGTATTTCG
54887335 GTCATTTTACCCTTCGAGGGTATTTCG
1 GTCATTTTACCCTTCGAGGGTATTTCG
* * * **
54887362 ATTATTCTACCCTTC-AGGGGTATTTTA
1 GTCATTTTACCCTTCGA-GGGTATTTCG
* * * *
54887389 GTTATTTTACCCTTTGGGGGTATTTCA
1 GTCATTTTACCCTTCGAGGGTATTTCG
* * *
54887416 GTCATTTTACCTTTTGAGGGTATTTCT
1 GTCATTTTACCCTTCGAGGGTATTTCG
* * *
54887443 GTCATTGTACTCTTCGAGTGTATT
1 GTCATTTTACCCTTCGAGGGTATT
54887467 CGATTATTTT
Statistics
Matches: 274, Mismatches: 40, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
26 48 0.18
27 202 0.74
28 24 0.09
ACGTcount: A:0.17, C:0.19, G:0.21, T:0.44
Consensus pattern (27 bp):
GTCATTTTACCCTTCGAGGGTATTTCG
Found at i:54967778 original size:41 final size:41
Alignment explanation
Indices: 54967721--54967947 Score: 382
Period size: 41 Copynumber: 5.5 Consensus size: 41
54967711 TTTAACATAT
* * *
54967721 TCACCAGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
54967762 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
* * *
54967803 TCACCGGCATTTAGCCTTCTAGGTTTATAACTTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
54967844 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
*
54967885 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTTAGA
1 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
*
54967926 TCACCGACACTTAGCCTGCTAG
1 TCACCGGCACTTAGCCTGCTAG
54967948 ACTTAAAGTC
Statistics
Matches: 175, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 175 1.00
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (41 bp):
TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
Found at i:54969297 original size:28 final size:28
Alignment explanation
Indices: 54969266--54969322 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 28
54969256 TATGTTTGTT
*
54969266 TTTATTATTATAA-CTTTATAATATATTA
1 TTTATTATTATAACCTTCATAAT-TATTA
54969294 TTTATTATTATAACCTTCATAATTATTA
1 TTTATTATTATAACCTTCATAATTATTA
54969322 T
1 T
54969323 AAAAACTATA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 19 0.70
29 8 0.30
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.56
Consensus pattern (28 bp):
TTTATTATTATAACCTTCATAATTATTA
Found at i:54969533 original size:14 final size:15
Alignment explanation
Indices: 54969514--54969542 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
54969504 TTACGAAACT
54969514 TTCACACAT-ATAAA
1 TTCACACATAATAAA
54969528 TTCACACATAATAAA
1 TTCACACATAATAAA
54969543 CACAGAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:54970861 original size:26 final size:26
Alignment explanation
Indices: 54970825--54970880 Score: 85
Period size: 26 Copynumber: 2.2 Consensus size: 26
54970815 ACAAAGTCAG
54970825 AAATGTCTCGTCACATACCATGCCAA
1 AAATGTCTCGTCACATACCATGCCAA
** *
54970851 AAATGTCTCGTCTTATACCATGCCAC
1 AAATGTCTCGTCACATACCATGCCAA
54970877 AAAT
1 AAAT
54970881 AGTGCTGTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.34, C:0.29, G:0.11, T:0.27
Consensus pattern (26 bp):
AAATGTCTCGTCACATACCATGCCAA
Found at i:54975380 original size:41 final size:41
Alignment explanation
Indices: 54975323--54975465 Score: 232
Period size: 41 Copynumber: 3.5 Consensus size: 41
54975313 TTTAACATAC
* * *
54975323 TCACCAGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
*
54975364 TCACCGGCACTTAGCCTGCTAGGTTTATAACTTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
*
54975405 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTTAGA
1 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
*
54975446 TCACCGACACTTAGCCTGCT
1 TCACCGGCACTTAGCCTGCT
54975466 GGACTTAAAG
Statistics
Matches: 95, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 95 1.00
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (41 bp):
TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
Found at i:54976823 original size:28 final size:28
Alignment explanation
Indices: 54976769--54976825 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
54976759 TATGTTTGTT
**
54976769 TTTATTATTATAACTTTATAATATATTA
1 TTTATTATTATAACTGCATAATATATTA
54976797 TTTATTATTATAACCTGCATAAT-TATTA
1 TTTATTATTATAA-CTGCATAATATATTA
54976825 T
1 T
54976826 AAAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 19 0.73
29 7 0.27
ACGTcount: A:0.37, C:0.07, G:0.02, T:0.54
Consensus pattern (28 bp):
TTTATTATTATAACTGCATAATATATTA
Found at i:54977036 original size:14 final size:15
Alignment explanation
Indices: 54977017--54977045 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
54977007 TTACGAAACT
54977017 TTCACACAT-ATAAA
1 TTCACACATAATAAA
54977031 TTCACACATAATAAA
1 TTCACACATAATAAA
54977046 CACAGAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:54981522 original size:37 final size:37
Alignment explanation
Indices: 54981472--54981552 Score: 155
Period size: 37 Copynumber: 2.2 Consensus size: 37
54981462 TTCTCAAAAA
54981472 ACTTTCATCTAAATGGCCATATGAGTTCATGATTTTT
1 ACTTTCATCTAAATGGCCATATGAGTTCATGATTTTT
54981509 ACTTTCATCTAAATGGCCATATGAGTTCATGATTTTT
1 ACTTTCATCTAAATGGCCATATGAGTTCATGATTTTT
54981546 -CTTTCAT
1 ACTTTCAT
54981553 GGTGGTTTCC
Statistics
Matches: 44, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
36 7 0.16
37 37 0.84
ACGTcount: A:0.26, C:0.17, G:0.12, T:0.44
Consensus pattern (37 bp):
ACTTTCATCTAAATGGCCATATGAGTTCATGATTTTT
Found at i:54997167 original size:6 final size:6
Alignment explanation
Indices: 54997156--54997189 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
54997146 GAAAGATTTA
54997156 TTTGTG TTTGTG TTTGTG TTTGTG TTTGTG TTTG
1 TTTGTG TTTGTG TTTGTG TTTGTG TTTGTG TTTG
54997190 AAGTAGATGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (6 bp):
TTTGTG
Found at i:54998439 original size:16 final size:16
Alignment explanation
Indices: 54998418--54998485 Score: 52
Period size: 16 Copynumber: 4.2 Consensus size: 16
54998408 TAACCACATT
54998418 AATATTAAATTAATAA
1 AATATTAAATTAATAA
54998434 AATATT--ATCTAGAT-A
1 AATATTAAAT-TA-ATAA
* **
54998449 AATATTAAATTTATTT
1 AATATTAAATTAATAA
*
54998465 AATATTAAATTCATTAA
1 AATATTAAATT-AATAA
54998482 AATA
1 AATA
54998486 ATATTATCTT
Statistics
Matches: 40, Mismatches: 6, Indels: 11
0.70 0.11 0.19
Matches are distributed among these distances:
14 2 0.05
15 11 0.28
16 20 0.50
17 7 0.17
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (16 bp):
AATATTAAATTAATAA
Found at i:54999131 original size:40 final size:40
Alignment explanation
Indices: 54999063--54999138 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
54999053 CTTTTTAACT
*
54999063 TTTATACTTATAATTAAATTAATTAATCAAAATTAATTAA
1 TTTAAACTTATAATTAAATTAATTAATCAAAATTAATTAA
* * *
54999103 TTTAAACTT-TAATTAACTTACCTTAATCAAGATTAA
1 TTTAAACTTATAATTAAATTA-ATTAATCAAAATTAA
54999139 CAAAATTGGC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
39 10 0.32
40 21 0.68
ACGTcount: A:0.46, C:0.09, G:0.01, T:0.43
Consensus pattern (40 bp):
TTTAAACTTATAATTAAATTAATTAATCAAAATTAATTAA
Found at i:54999722 original size:26 final size:26
Alignment explanation
Indices: 54999665--54999715 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
54999655 GGCCCATATT
54999665 AAATATATATATTTGATTAAAAATAA
1 AAATATATATATTTGATTAAAAATAA
54999691 AAATATATATATTTGATTAAAAATA
1 AAATATATATATTTGATTAAAAATA
54999716 TATATATTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (26 bp):
AAATATATATATTTGATTAAAAATAA
Found at i:55004023 original size:41 final size:40
Alignment explanation
Indices: 55003925--55004033 Score: 125
Period size: 41 Copynumber: 2.8 Consensus size: 40
55003915 CTTCGAGTCG
* *
55003925 ATGAGGCACTGGGTGCCAA--T-TTACTTCGGTTTAACCG
1 ATGAGACACTGGGTGCCAATTTATTACTTCGGTTTAACCA
**
55003962 ATGAGACACTGGGTGCCAATTTATTACTTCGGATTTATTCA
1 ATGAGACACTGGGTGCCAATTTATTACTTCGG-TTTAACCA
* * *
55004003 ATGAGACACTGGTTGTCAATTTACTACTTCG
1 ATGAGACACTGGGTGCCAATTTATTACTTCG
55004034 AATTATCGAT
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
37 18 0.30
39 1 0.02
40 9 0.15
41 33 0.54
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.34
Consensus pattern (40 bp):
ATGAGACACTGGGTGCCAATTTATTACTTCGGTTTAACCA
Found at i:55006820 original size:15 final size:16
Alignment explanation
Indices: 55006800--55006841 Score: 54
Period size: 14 Copynumber: 2.8 Consensus size: 16
55006790 TTAAATAATT
55006800 AATTTATATCA-AACA
1 AATTTATATCAGAACA
55006815 AATTTA-A-CAGAACA
1 AATTTATATCAGAACA
*
55006829 AATTCATATCAGA
1 AATTTATATCAGA
55006842 GTAGTACAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
13 2 0.09
14 10 0.43
15 7 0.30
16 4 0.17
ACGTcount: A:0.52, C:0.14, G:0.05, T:0.29
Consensus pattern (16 bp):
AATTTATATCAGAACA
Found at i:55012324 original size:19 final size:19
Alignment explanation
Indices: 55012300--55012346 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
55012290 TCCCAGGCAG
*
55012300 TTTTATTTATGATTCTGT-T
1 TTTTATTTATGATTAT-TAT
*
55012319 TTTTATTTATTATTATTAT
1 TTTTATTTATGATTATTAT
55012338 TTTTATTTA
1 TTTTATTTA
55012347 CTTCACCTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 1 0.04
19 24 0.96
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.72
Consensus pattern (19 bp):
TTTTATTTATGATTATTAT
Found at i:55014864 original size:14 final size:15
Alignment explanation
Indices: 55014847--55014875 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
55014837 TTATTTTTAC
55014847 TATTTAAT-TTTAAA
1 TATTTAATATTTAAA
55014861 TATTTAATATTTAAA
1 TATTTAATATTTAAA
55014876 GATGAACAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TATTTAATATTTAAA
Found at i:55017042 original size:52 final size:52
Alignment explanation
Indices: 55016975--55017086 Score: 206
Period size: 52 Copynumber: 2.1 Consensus size: 52
55016965 ATTTTTAAAT
55016975 ATTTATAAGTAAAGAAATTGAAACAATTTTAAGCATGGTTAGTATGCAAATTA
1 ATTTA-AAGTAAAGAAATTGAAACAATTTTAAGCATGGTTAGTATGCAAATTA
*
55017028 ATTTAAAGTAAAGAAATTGAAACAATTTTAATCATGGTTAGTATGCAAATTA
1 ATTTAAAGTAAAGAAATTGAAACAATTTTAAGCATGGTTAGTATGCAAATTA
55017080 ATTTAAA
1 ATTTAAA
55017087 CCTATTTCAA
Statistics
Matches: 58, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
52 53 0.91
53 5 0.09
ACGTcount: A:0.46, C:0.05, G:0.13, T:0.35
Consensus pattern (52 bp):
ATTTAAAGTAAAGAAATTGAAACAATTTTAAGCATGGTTAGTATGCAAATTA
Found at i:55018064 original size:31 final size:31
Alignment explanation
Indices: 55018013--55018082 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
55018003 CTTAACAGTC
* * *
55018013 CAGTGACT-TAATAAAAACTTTCTAATATTT
1 CAGTGACTAAAATAAAAACTTTCAAATAATT
*
55018043 CAGTGACTAAAATGAAAACTTTCAAATAATT
1 CAGTGACTAAAATAAAAACTTTCAAATAATT
*
55018074 CAGTAACTA
1 CAGTGACTA
55018083 TTTTGTAACT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 8 0.24
31 26 0.76
ACGTcount: A:0.44, C:0.14, G:0.09, T:0.33
Consensus pattern (31 bp):
CAGTGACTAAAATAAAAACTTTCAAATAATT
Found at i:55023197 original size:3 final size:3
Alignment explanation
Indices: 55023189--55023229 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
55023179 TGTATGAATA
55023189 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
55023230 CAACAATAGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:55024748 original size:44 final size:44
Alignment explanation
Indices: 55024697--55024854 Score: 219
Period size: 44 Copynumber: 3.6 Consensus size: 44
55024687 ACCAGTACGG
* *
55024697 GAAGACAAGATCTGCTCTCTTTGATCTACTTCATGCCAATACAT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCATGCCAATACAT
* * * * *
55024741 GAAGACAATATATGCTTTCTTCGATATACTCCACGCCAATACAT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCATGCCAATACAT
* *
55024785 GAAGACAAGATCTGTTTTATTCGATCTACTTCACT-CCAATACAT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCA-TGCCAATACAT
55024829 GAAGACAAGATCTGCTTTCTTCGATC
1 GAAGACAAGATCTGCTTTCTTCGATC
55024855 GATTCCACTG
Statistics
Matches: 97, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
44 97 1.00
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.32
Consensus pattern (44 bp):
GAAGACAAGATCTGCTTTCTTCGATCTACTTCATGCCAATACAT
Found at i:55024994 original size:44 final size:44
Alignment explanation
Indices: 55024933--55025538 Score: 228
Period size: 44 Copynumber: 13.8 Consensus size: 44
55024923 AAAATCTACC
* *
55024933 ATCTTCGATCTACTCCACTACTGTCTAGGGAGATAAGATCTGTA
1 ATCTTCAATCTACTCCACTACTGCCTAGGGAGATAAGATCTGTA
* * ** *
55024977 ATATTCAATCTATTCCACTGTTG-CTCAGGGAGAT-AGA-AT-TA
1 ATCTTCAATCTACTCCACTACTGCCT-AGGGAGATAAGATCTGTA
* * * * * * **
55025018 CTGGCTTCAATGTACTCCACT-GTAACCTCAGGGATG-TAAAATCCGCC
1 AT--CTTCAATCTACTCCACTACT-GCCT-AGGGA-GATAAGATCTGTA
*
55025065 ATCTTCGATCTACTCCACTACTGCCTAGGGAGATAAGATCTGTA
1 ATCTTCAATCTACTCCACTACTGCCTAGGGAGATAAGATCTGTA
* * * *
55025109 ATCTTCAATCTATTCCACTCCTGCCCAGGGAGAT-AGA-AT-TA
1 ATCTTCAATCTACTCCACTACTGCCTAGGGAGATAAGATCTGTA
* * * * * * * * ****
55025150 CTGGCCTCAATGTACTCCACT-GTAACCTCAGAGAGGTAAAATCCACC
1 AT--CTTCAATCTACTCCACTACT-GCCT-AGGGAGATAAGATCTGTA
* ** * *
55025197 ATTTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTA
1 ATCTTCAATCTACTCCACTACTGCCTAGGGAGATAAGATCTGTA
* * * ** *
55025241 ATCTTCAATATATTCCATTGTTG-CTCAGGGAGAT-AGA-AT-TA
1 ATCTTCAATCTACTCCACTACTGCCT-AGGGAGATAAGATCTGTA
* * * * * * * * **
55025282 CTGGCTTCAATGTACTCTACT-GTAACCTCAGGGAGGTAAAATCCGCC
1 AT--CTTCAATCTACTCCACTACT-GCCT-AGGGAGATAAGATCTGTA
*
55025329 ATCTTCGATCTACTCCAC-ACTGCCTAGGGAGATAAGATCTGTA
1 ATCTTCAATCTACTCCACTACTGCCTAGGGAGATAAGATCTGTA
* * *
55025372 ATCTTCAATCTATTCCACTGCTGCCTAGGGAGAT-AGA-AT-TA
1 ATCTTCAATCTACTCCACTACTGCCTAGGGAGATAAGATCTGTA
* * * * * * * * **
55025413 CTGGCCTCAATGTACTTCAC--CGTAACCTCAGGGAGGTAAAATCCGCC
1 AT--CTTCAATCTACTCCACTAC-T-GCCT-AGGGAGATAAGATCTGTA
*
55025460 ATCTTCGATCTACTCCACTACTGCCTAGGGAGATAAGATCTGTA
1 ATCTTCAATCTACTCCACTACTGCCTAGGGAGATAAGATCTGTA
* * * * *
55025504 ATCATCAATATATTCCACTGCTGCCCAGGGAGATA
1 ATCTTCAATCTACTCCACTACTGCCTAGGGAGATA
55025539 GAATTATTGG
Statistics
Matches: 393, Mismatches: 130, Indels: 78
0.65 0.22 0.13
Matches are distributed among these distances:
41 13 0.03
42 8 0.02
43 103 0.26
44 192 0.49
45 69 0.18
46 3 0.01
47 5 0.01
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (44 bp):
ATCTTCAATCTACTCCACTACTGCCTAGGGAGATAAGATCTGTA
Found at i:55025041 original size:132 final size:132
Alignment explanation
Indices: 55024846--55025579 Score: 1101
Period size: 132 Copynumber: 5.6 Consensus size: 132
55024836 AGATCTGCTT
* * * * * * * *
55024846 TCTTCGATCGATTCCACTGCCGACCAGAGAGTTAGAATTACTAGCTTCAATATACTCCACTGTAA
1 TCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAA
* ** *
55024911 CATCAGAGAGGTAAAATCTACCATCTTCGATCTACTCCACTACTGTCTAGGGAGATAAGATCTGT
66 CCTCAGAGAGGTAAAATCCGCCATCTTCGATCTACTCCACTACTGCCTAGGGAGATAAGATCTGT
55024976 AA
131 AA
* * *
55024978 TATTCAATCTATTCCACTGTTGCTCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAA
1 TCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAA
* *
55025043 CCTCAGGGATGTAAAATCCGCCATCTTCGATCTACTCCACTACTGCCTAGGGAGATAAGATCTGT
66 CCTCAGAGAGGTAAAATCCGCCATCTTCGATCTACTCCACTACTGCCTAGGGAGATAAGATCTGT
55025108 AA
131 AA
* *
55025110 TCTTCAATCTATTCCACTCCTGCCCAGGGAGATAGAATTACTGGCCTCAATGTACTCCACTGTAA
1 TCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAA
* * * * *
55025175 CCTCAGAGAGGTAAAATCCACCATTTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGT
66 CCTCAGAGAGGTAAAATCCGCCATCTTCGATCTACTCCACTACTGCCTAGGGAGATAAGATCTGT
55025240 AA
131 AA
* * * * *
55025242 TCTTCAATATATTCCATTGTTGCTCAGGGAGATAGAATTACTGGCTTCAATGTACTCTACTGTAA
1 TCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAA
*
55025307 CCTCAGGGAGGTAAAATCCGCCATCTTCGATCTACTCCAC-ACTGCCTAGGGAGATAAGATCTGT
66 CCTCAGAGAGGTAAAATCCGCCATCTTCGATCTACTCCACTACTGCCTAGGGAGATAAGATCTGT
55025371 AA
131 AA
* * * *
55025373 TCTTCAATCTATTCCACTGCTGCCTAGGGAGATAGAATTACTGGCCTCAATGTACTTCACCGTAA
1 TCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAA
*
55025438 CCTCAGGGAGGTAAAATCCGCCATCTTCGATCTACTCCACTACTGCCTAGGGAGATAAGATCTGT
66 CCTCAGAGAGGTAAAATCCGCCATCTTCGATCTACTCCACTACTGCCTAGGGAGATAAGATCTGT
55025503 AA
131 AA
* * *
55025505 TCATCAATATATTCCACTGCTGCCCAGGGAGATAGAATTATTGGCTTCAATGTACTCCACTGTAA
1 TCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAA
* *
55025570 CTTTAGAGAG
66 CCTCAGAGAG
55025580 ATGAGATCTG
Statistics
Matches: 540, Mismatches: 61, Indels: 2
0.90 0.10 0.00
Matches are distributed among these distances:
131 121 0.22
132 419 0.78
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (132 bp):
TCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAA
CCTCAGAGAGGTAAAATCCGCCATCTTCGATCTACTCCACTACTGCCTAGGGAGATAAGATCTGT
AA
Found at i:55025626 original size:395 final size:396
Alignment explanation
Indices: 55024878--55025626 Score: 1117
Period size: 395 Copynumber: 1.9 Consensus size: 396
55024868 ACCAGAGAGT
*
55024878 TAGAATTACTAGCTTCAATATACTCCACTGTAACATCAGAGAGGTAAAATCTACCATCTTCGATC
1 TAGAATTACTAGCTTCAATATACTCCACTGTAACATCAGAGAGGTAAAATCCACCATCTTCGATC
* *
55024943 TACTCCACTACTGTCTAGGGAGATAAGATCTGTAATATTCAATCTATTCCACTGTTGCTCAGGGA
66 TACTCCACTACTGCCTAGGGAGATAAGATCTGTAATATTCAATCTATTCCACTGCTGCTCAGGGA
* * *
55025008 GATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGATGTAAAATCCGCCATCTTCGA
131 GATAGAATTACTGGCCTCAATGTACTCCACCGTAACCTCAGGGAGGTAAAATCCGCCATCTTCGA
* *
55025073 TCTACTCCACTACTGCCTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTCCTGCCCAGG
196 TCTACTCCACTACTGCCTAGGGAGATAAGATCTGTAATCATCAATATATTCCACTCCTGCCCAGG
* * *
55025138 GAGATAGAATTACTGGCCTCAATGTACTCCACTGTAACCTCAGAGAGGTAAAATCCACCATTTTT
261 GAGATAGAATTACTGGCCTCAATGTACTCCACTGTAACCTCAGAGAGATAAAATCCACCAGTCTT
* ** ** *
55025203 GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATATATTCCATTGTTGCTCA
326 AATCCACTCCACTACAACTTAAGGAGATAAGATCTGTAATCTTCAATATATTCCATTGTTGCTCA
55025268 GGGAGA
391 GGGAGA
* * * * * *
55025274 TAGAATTACTGGCTTCAATGTACTCTACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTCGATC
1 TAGAATTACTAGCTTCAATATACTCCACTGTAACATCAGAGAGGTAAAATCCACCATCTTCGATC
*
55025339 TACTCCAC-ACTGCCTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGC-CTAGGG
66 TACTCCACTACTGCCTAGGGAGATAAGATCTGTAATATTCAATCTATTCCACTGCTGCTC-AGGG
*
55025402 AGATAGAATTACTGGCCTCAATGTACTTCACCGTAACCTCAGGGAGGTAAAATCCGCCATCTTCG
130 AGATAGAATTACTGGCCTCAATGTACTCCACCGTAACCTCAGGGAGGTAAAATCCGCCATCTTCG
*
55025467 ATCTACTCCACTACTGCCTAGGGAGATAAGATCTGTAATCATCAATATATTCCACTGCTGCCCAG
195 ATCTACTCCACTACTGCCTAGGGAGATAAGATCTGTAATCATCAATATATTCCACTCCTGCCCAG
* * * * * * ****
55025532 GGAGATAGAATTATTGGCTTCAATGTACTCCACTGTAACTTTAGAGAGATGAGAT-CTGTGGTCT
260 GGAGATAGAATTACTGGCCTCAATGTACTCCACTGTAACCTCAGAGAGATAAAATCCACCAGTCT
* *
55025596 TAATCCACTCCATTGCAACTTCAAGGAGATA
325 TAATCCACTCCACTACAACTT-AAGGAGATA
55025627 GGATTGGTTA
Statistics
Matches: 313, Mismatches: 38, Indels: 5
0.88 0.11 0.01
Matches are distributed among these distances:
394 18 0.06
395 229 0.73
396 66 0.21
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (396 bp):
TAGAATTACTAGCTTCAATATACTCCACTGTAACATCAGAGAGGTAAAATCCACCATCTTCGATC
TACTCCACTACTGCCTAGGGAGATAAGATCTGTAATATTCAATCTATTCCACTGCTGCTCAGGGA
GATAGAATTACTGGCCTCAATGTACTCCACCGTAACCTCAGGGAGGTAAAATCCGCCATCTTCGA
TCTACTCCACTACTGCCTAGGGAGATAAGATCTGTAATCATCAATATATTCCACTCCTGCCCAGG
GAGATAGAATTACTGGCCTCAATGTACTCCACTGTAACCTCAGAGAGATAAAATCCACCAGTCTT
AATCCACTCCACTACAACTTAAGGAGATAAGATCTGTAATCTTCAATATATTCCATTGTTGCTCA
GGGAGA
Found at i:55025656 original size:263 final size:261
Alignment explanation
Indices: 55024846--55025570 Score: 1044
Period size: 263 Copynumber: 2.8 Consensus size: 261
55024836 AGATCTGCTT
* * * * * * * * *
55024846 TCTTCGATCGATTCCACTGCCGACCAGAGAGTTAGAATTACTAGCTTCAATATACTCCACTGTAA
1 TCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCCTCAATGTACTCCACTGTAA
* * *
55024911 CATCAGAGAGGTAAAATCTACCATCTTCGATCTACTCCACTACTGTCTAGGGAGATAAGATCTGT
66 CCTCAGAGAGGTAAAATCCACCATCTTCGATCTACTCCACTACTGCCTAGGGAGATAAGATCTGT
*
55024976 AAT-ATTCAATCTATTCCACTGTTGCTCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTG
131 AATCA-TCAATATATTCCACTGTTGCTCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTG
*
55025040 TAACCTCAGG-GATGTAAAATCCGCCATCTTCGATCTACTCCA-CTACTGCCTAGGGAGATAAGA
195 TAACCTCAGGAGATG--AAATCCGCCATCTTCGATCTACTCCATC-ACT-TC-AGGGAGATAAGA
55025103 TCTGTAA
255 TCTGTAA
*
55025110 TCTTCAATCTATTCCACTCCTGCCCAGGGAGATAGAATTACTGGCCTCAATGTACTCCACTGTAA
1 TCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCCTCAATGTACTCCACTGTAA
* * * *
55025175 CCTCAGAGAGGTAAAATCCACCATTTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGT
66 CCTCAGAGAGGTAAAATCCACCATCTTCGATCTACTCCACTACTGCCTAGGGAGATAAGATCTGT
* * *
55025240 AATCTTCAATATATTCCATTGTTGCTCAGGGAGATAGAATTACTGGCTTCAATGTACTCTACTGT
131 AATCATCAATATATTCCACTGTTGCTCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGT
* * *
55025305 AACCTCAGGGAGGTAAAATCCGCCATCTTCGATCTACTCCA-CACTGCCTAGGGAGATAAGATCT
196 AACCTCA-GGAGATGAAATCCGCCATCTTCGATCTACTCCATCACT-TC-AGGGAGATAAGATCT
55025369 GTAA
258 GTAA
* * *
55025373 TCTTCAATCTATTCCACTGCTGCCTAGGGAGATAGAATTACTGGCCTCAATGTACTTCACCGTAA
1 TCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCCTCAATGTACTCCACTGTAA
* *
55025438 CCTCAGGGAGGTAAAATCCGCCATCTTCGATCTACTCCACTACTGCCTAGGGAGATAAGATCTGT
66 CCTCAGAGAGGTAAAATCCACCATCTTCGATCTACTCCACTACTGCCTAGGGAGATAAGATCTGT
* * *
55025503 AATCATCAATATATTCCACTGCTGCCCAGGGAGATAGAATTATTGGCTTCAATGTACTCCACTGT
131 AATCATCAATATATTCCACTGTTGCTCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGT
55025568 AAC
196 AAC
55025571 TTTAGAGAGA
Statistics
Matches: 419, Mismatches: 39, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
263 208 0.50
264 207 0.49
265 2 0.00
266 2 0.00
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.29
Consensus pattern (261 bp):
TCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCCTCAATGTACTCCACTGTAA
CCTCAGAGAGGTAAAATCCACCATCTTCGATCTACTCCACTACTGCCTAGGGAGATAAGATCTGT
AATCATCAATATATTCCACTGTTGCTCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGT
AACCTCAGGAGATGAAATCCGCCATCTTCGATCTACTCCATCACTTCAGGGAGATAAGATCTGTA
A
Found at i:55025757 original size:44 final size:44
Alignment explanation
Indices: 55025708--55025864 Score: 251
Period size: 44 Copynumber: 3.6 Consensus size: 44
55025698 ACCAGTATGG
* * * *
55025708 GAAGACAAGATCTGCTCTCTTTGATCTATTTCATGCCAATACAT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
*
55025752 GAAGACAAGATCTGCTTTCTTCGATCTACTCCACGCCAATACAT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
* *
55025796 GAATAGAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
55025840 GAAGACAAGATCTGCTTTCTTCGAT
1 GAAGACAAGATCTGCTTTCTTCGAT
55025865 AGATNNNNNN
Statistics
Matches: 103, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 103 1.00
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (44 bp):
GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
Found at i:55027009 original size:44 final size:44
Alignment explanation
Indices: 55026836--55027171 Score: 177
Period size: 44 Copynumber: 7.6 Consensus size: 44
55026826 ACCATTTTCG
* * ** *
55026836 ATCTACTACACTACTGTTTAGGGAGATAAGATCTGTAATATTCA
1 ATCTACTCCACTGCTGCCTAGGGAGATAAGATCTGTAATCTTCA
* * * * *
55026880 ATCTATTCCACTGTTG-CTCAAGGAGAT-AGA-AT-TACTGGCTTCA
1 ATCTACTCCACTGCTGCCT-AGGGAGATAAGATCTGTAAT--CTTCA
* * * * * ** *
55026923 ATGTACTCCACTG-TAACCTCAGGGAGGTAAAATCCGCCATCTTCG
1 ATCTACTCCACTGCT-GCCT-AGGGAGATAAGATCTGTAATCTTCA
**
55026968 ATCTACTCCACTATTGCCTAGGGAGATAAGATCTGTAATCTTCA
1 ATCTACTCCACTGCTGCCTAGGGAGATAAGATCTGTAATCTTCA
* * * *
55027012 ATCTATTCCACTGCTGCCTAGGGAGAT-AGA-AT-TACTGGCCTCA
1 ATCTACTCCACTGCTGCCTAGGGAGATAAGATCTGTAAT--CTTCA
* * * * * * * ** *
55027055 ATGTACTTCACCG-TAACCTCAGGGAGGTAAAATCCGCCATCTTCG
1 ATCTACTCCACTGCT-GCCT-AGGGAGATAAGATCTGTAATCTTCA
* *
55027100 ATCTACTCCACTACTGCCTAGGGAGATAAGATCTGTAATCATCA
1 ATCTACTCCACTGCTGCCTAGGGAGATAAGATCTGTAATCTTCA
* * *
55027144 ATATATTCCACTGCTGCCCAGGGAGATA
1 ATCTACTCCACTGCTGCCTAGGGAGATA
55027172 GAATTATTGG
Statistics
Matches: 209, Mismatches: 66, Indels: 34
0.68 0.21 0.11
Matches are distributed among these distances:
41 6 0.03
42 4 0.02
43 38 0.18
44 120 0.57
45 37 0.18
46 2 0.01
47 2 0.01
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (44 bp):
ATCTACTCCACTGCTGCCTAGGGAGATAAGATCTGTAATCTTCA
Found at i:55027012 original size:132 final size:131
Alignment explanation
Indices: 55026774--55027203 Score: 671
Period size: 132 Copynumber: 3.3 Consensus size: 131
55026764 NNNNNNNAGT
* * ** *
55026774 TAGAATTACTGGCTTCAATATACTCCACTGTAACCTCAGAGAGGTAAAATCTACCATTTTCGATC
1 TAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTCGATC
* ** * * *
55026839 TACTACACTACTGTTTAGGGAGATAAGATCTGTAATATTCAATCTATTCCACTGTTGCTCAAGGA
66 TACTCCACTACTGCCTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGC-CAGGGA
55026904 GA
130 GA
55026906 TAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTCGATC
1 TAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTCGATC
*
55026971 TACTCCACTATTGCCTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCTAGGGA
66 TACTCCACTACTGCCTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCC-AGGGA
55027036 GA
130 GA
* * *
55027038 TAGAATTACTGGCCTCAATGTACTTCACCGTAACCTCAGGGAGGTAAAATCCGCCATCTTCGATC
1 TAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTCGATC
* *
55027103 TACTCCACTACTGCCTAGGGAGATAAGATCTGTAATCATCAATATATTCCACTGCTGCCCAGGGA
66 TACTCCACTACTGCCTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTG-CCAGGGA
55027168 GA
130 GA
*
55027170 TAGAATTATTGGCTTCAATGTACTCCACTGTAAC
1 TAGAATTACTGGCTTCAATGTACTCCACTGTAAC
55027204 TTTAGAGAGA
Statistics
Matches: 274, Mismatches: 22, Indels: 4
0.91 0.07 0.01
Matches are distributed among these distances:
131 1 0.00
132 271 0.99
133 2 0.01
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (131 bp):
TAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTCGATC
TACTCCACTACTGCCTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCAGGGAG
A
Found at i:55027390 original size:44 final size:44
Alignment explanation
Indices: 55027341--55027497 Score: 242
Period size: 44 Copynumber: 3.6 Consensus size: 44
55027331 ACCAGTATGG
* * * *
55027341 GAAGACAAGATCTGCTCTCTTTGATCTATTTCATGCCAATACAT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
*
55027385 GAAGACAAGATCTGCTTTCTTCGATCTACTCCACGCCAATACAT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
* * *
55027429 GAATAGAAGATCTGCTTTCTTCCATCTACTTCACGCCAATACAT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
55027473 GAAGACAAGATCTGCTTTCTTCGAT
1 GAAGACAAGATCTGCTTTCTTCGAT
55027498 AGATTACACT
Statistics
Matches: 101, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 101 1.00
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.31
Consensus pattern (44 bp):
GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
Found at i:55027689 original size:132 final size:132
Alignment explanation
Indices: 55027522--55027909 Score: 609
Period size: 132 Copynumber: 2.9 Consensus size: 132
55027512 ACCAGAGAGT
* * ** *
55027522 TAGAATTACTGGCTTCAATATACTCCACTGTAACCTCAGAGAGGTAAAATCTACCATTTTCGATC
1 TAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTCGATC
** *
55027587 TACTCCACTACTGTTTAGGGAGATAAGATCTGTAATATTCAATCTATTCCACTGTTG-CTCAAGG
66 TACTCCACTACTGCCTAGGGAGATAAGATCTGTAATATTCAATCTATTCCACTGCTGCCT-AAGG
55027651 AGA
130 AGA
55027654 TAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTCGATC
1 TAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTCGATC
* * *
55027719 TACTCCACTATTGCCTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCTAGGGA
66 TACTCCACTACTGCCTAGGGAGATAAGATCTGTAATATTCAATCTATTCCACTGCTGCCTAAGGA
55027784 GA
131 GA
* * *
55027786 TAGAATTACTGGCCTCAATGTACTTCACCGTAACCTCAGGGAGGTAAAATCCGCCATCTTCGATC
1 TAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTCGATC
*
55027851 TACTCCACTACTGCCTAGGGAGATAAGATCTGTAATCA-TCAATATATTCCACTGCTGCC
66 TACTCCACTACTGCCTAGGGAGATAAGATCTGTAAT-ATTCAATCTATTCCACTGCTGCC
55027910 CAGGGNNNNN
Statistics
Matches: 237, Mismatches: 17, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
132 235 0.99
133 2 0.01
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.29
Consensus pattern (132 bp):
TAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTCGATC
TACTCCACTACTGCCTAGGGAGATAAGATCTGTAATATTCAATCTATTCCACTGCTGCCTAAGGA
GA
Found at i:55027757 original size:44 final size:44
Alignment explanation
Indices: 55027584--55027914 Score: 172
Period size: 44 Copynumber: 7.5 Consensus size: 44
55027574 ACCATTTTCG
** ** *
55027584 ATCTACTCCACTACTGTTTAGGGAGATAAGATCTGTAATATTCA
1 ATCTACTCCACTGTTGCCTAGGGAGATAAGATCTGTAATCTTCA
* * * *
55027628 ATCTATTCCACTGTTG-CTCAAGGAGAT-AGA-AT-TACTGGCTTCA
1 ATCTACTCCACTGTTGCCT-AGGGAGATAAGATCTGTAAT--CTTCA
* ** * * * ** *
55027671 ATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTCG
1 ATCTACTCCACTGTTGCCT-AGGGAGATAAGATCTGTAATCTTCA
*
55027716 ATCTACTCCACTATTGCCTAGGGAGATAAGATCTGTAATCTTCA
1 ATCTACTCCACTGTTGCCTAGGGAGATAAGATCTGTAATCTTCA
* * * * *
55027760 ATCTATTCCACTGCTGCCTAGGGAGAT-AGA-AT-TACTGGCCTCA
1 ATCTACTCCACTGTTGCCTAGGGAGATAAGATCTGTAAT--CTTCA
* * * ** * * * ** *
55027803 ATGTACTTCACCGTAACCTCAGGGAGGTAAAATCCGCCATCTTCG
1 ATCTACTCCACTGTTGCCT-AGGGAGATAAGATCTGTAATCTTCA
** *
55027848 ATCTACTCCACTACTGCCTAGGGAGATAAGATCTGTAATCATCA
1 ATCTACTCCACTGTTGCCTAGGGAGATAAGATCTGTAATCTTCA
* * * *
55027892 ATATATTCCACTGCTGCCCAGGG
1 ATCTACTCCACTGTTGCCTAGGG
55027915 NNNNNNNNNN
Statistics
Matches: 203, Mismatches: 71, Indels: 26
0.68 0.24 0.09
Matches are distributed among these distances:
41 6 0.03
42 2 0.01
43 39 0.19
44 116 0.57
45 38 0.19
47 2 0.01
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (44 bp):
ATCTACTCCACTGTTGCCTAGGGAGATAAGATCTGTAATCTTCA
Found at i:55028187 original size:44 final size:44
Alignment explanation
Indices: 55028134--55028290 Score: 260
Period size: 44 Copynumber: 3.6 Consensus size: 44
55028124 ACCAGTATGG
* * *
55028134 GAAGACAAGATCTGCTCTCTTTGATCTACTTCATGCCAATACAT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
*
55028178 GAAGACAAGATCTGCTTTCTTCGATCTACTCCACGCCAATACAT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
* *
55028222 GAATAGAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
55028266 GAAGACAAGATCTGCTTTCTTCGAT
1 GAAGACAAGATCTGCTTTCTTCGAT
55028291 AGATTCCACT
Statistics
Matches: 104, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
44 104 1.00
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (44 bp):
GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
Found at i:55028383 original size:132 final size:131
Alignment explanation
Indices: 55028239--55028744 Score: 540
Period size: 132 Copynumber: 3.8 Consensus size: 131
55028229 AGATCTGCTT
* * * * * * **
55028239 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCT-TTCTTCGATAGATTCCACTGC
1 TCTTCGATCTACTTCACACCAATACAGGGAGATAAGATCTG-TAATCTTCAATCTATTCCACTGC
* * * * **
55028303 CGACCAGAGAGTTAGAATTACTGGCTTCAATATACTCCACTGTAACCTCAGAGAGGTAAAATCTA
65 TG-CCAGAGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCG
55028368 CCA
129 CCA
* * ** ** * *
55028371 TTTTCGATCTACTCCACTA-CTGTTTAGGGAGATAAGATCTGTAATATTCAATCTATTCCACTGT
1 TCTTCGATCTACTTCAC-ACCAATACAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGC
55028435 TGCTCA-AGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCC
65 TGC-CAGA-GAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCC
55028499 GCCA
128 GCCA
* * *
55028503 TCTTCGATCTAC-TC-CACTACTGCCTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTG
1 TCTTCGATCTACTTCACACCAAT-AC-AGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTG
* * * *
55028566 CTGCCTAGGGAGATAGAATTACTGGCCTCAATGTACTTCACCGTAACCTCAGGGAGGTAAAATCC
64 CTGCC-AGAGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCC
55028631 GCCA
128 GCCA
* * * * *
55028635 TCTTCGATCTAC-TC-CACTACTGCCTAGGGAGATAAGATCTGTAATCATCAATATATTCCACTG
1 TCTTCGATCTACTTCACACCAAT-AC-AGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTG
* *
55028698 CTGCCCAGGGAGATAGAATTATTGGCTTCAATGTACTCCACTGTAAC
64 CTG-CCAGAGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAAC
55028745 TTTAGAGAGA
Statistics
Matches: 323, Mismatches: 41, Indels: 20
0.84 0.11 0.05
Matches are distributed among these distances:
129 1 0.00
130 2 0.01
131 5 0.02
132 313 0.97
133 2 0.01
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.29
Consensus pattern (131 bp):
TCTTCGATCTACTTCACACCAATACAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCT
GCCAGAGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCC
A
Found at i:55028550 original size:44 final size:44
Alignment explanation
Indices: 55028377--55028712 Score: 179
Period size: 44 Copynumber: 7.6 Consensus size: 44
55028367 ACCATTTTCG
** *
55028377 ATCTACTCCACTACTGTTTAGGGAGATAAGATCTGTAATATTCA
1 ATCTACTCCACTACTGCCTAGGGAGATAAGATCTGTAATCTTCA
* ** * * *
55028421 ATCTATTCCACTGTTG-CTCAAGGAGAT-AGA-AT-TACTGGCTTCA
1 ATCTACTCCACTACTGCCT-AGGGAGATAAGATCTGTAAT--CTTCA
* * * * * * ** *
55028464 ATGTACTCCACT-GTAACCTCAGGGAGGTAAAATCCGCCATCTTCG
1 ATCTACTCCACTACT-GCCT-AGGGAGATAAGATCTGTAATCTTCA
55028509 ATCTACTCCACTACTGCCTAGGGAGATAAGATCTGTAATCTTCA
1 ATCTACTCCACTACTGCCTAGGGAGATAAGATCTGTAATCTTCA
* * * * *
55028553 ATCTATTCCACTGCTGCCTAGGGAGAT-AGA-AT-TACTGGCCTCA
1 ATCTACTCCACTACTGCCTAGGGAGATAAGATCTGTAAT--CTTCA
* * * * * * ** *
55028596 ATGTACTTCAC--CGTAACCTCAGGGAGGTAAAATCCGCCATCTTCG
1 ATCTACTCCACTAC-T-GCCT-AGGGAGATAAGATCTGTAATCTTCA
*
55028641 ATCTACTCCACTACTGCCTAGGGAGATAAGATCTGTAATCATCA
1 ATCTACTCCACTACTGCCTAGGGAGATAAGATCTGTAATCTTCA
* * * *
55028685 ATATATTCCACTGCTGCCCAGGGAGATA
1 ATCTACTCCACTACTGCCTAGGGAGATA
55028713 GAATTATTGG
Statistics
Matches: 211, Mismatches: 62, Indels: 38
0.68 0.20 0.12
Matches are distributed among these distances:
41 7 0.03
42 4 0.02
43 36 0.17
44 122 0.58
45 37 0.18
46 2 0.01
47 3 0.01
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (44 bp):
ATCTACTCCACTACTGCCTAGGGAGATAAGATCTGTAATCTTCA
Done.