Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 80 of 325
Found at i:22612663 original size:2 final size:2
Alignment explanation
Indices: 22612656--22612702 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
22612646 CTGGAACGCG
22612656 AT 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 AT
22612698 AT AT A
1 AT AT A
22612703 AACTAAACGC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:22617631 original size:2 final size:2
Alignment explanation
Indices: 22617624--22617666 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
22617614 TATTATCCTT
22617624 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
22617666 T
1 T
22617667 TAAAATTTAG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:22623126 original size:24 final size:25
Alignment explanation
Indices: 22623090--22623146 Score: 77
Period size: 24 Copynumber: 2.4 Consensus size: 25
22623080 TAAAACATAT
22623090 ATAAAT-A-AATAATGATAGATAA-A
1 ATAAATAATAATAATGATAG-TAATA
22623113 AT-AATAATAATAATGATAGTAATA
1 ATAAATAATAATAATGATAGTAATA
22623137 ATAAATAATA
1 ATAAATAATA
22623147 TATATAAGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
22 3 0.10
23 6 0.20
24 14 0.47
25 7 0.23
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (25 bp):
ATAAATAATAATAATGATAGTAATA
Found at i:22624902 original size:44 final size:44
Alignment explanation
Indices: 22624759--22624962 Score: 198
Period size: 45 Copynumber: 4.6 Consensus size: 44
22624749 TTAAATCTGT
*
22624759 TCCACTGCAACTTCAGGG-GAATAAGATCTGCTATCTTTAACCTGC
1 TCCACTGCAACTTCAGGGAG-ATAAGAT-TGCTATCTTCAACCTGC
* ** *
22624804 TCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTTC
1 TCCACTGCAACTTCAGGGAGATAAGATT-GCTATCTTCAACCTGC
* *
22624849 TCCATTGCAACTTCAGGGAGATGAGACTTG-TGA-CTTCAACCTGC
1 TCCACTGCAACTTCAGGGAGATAAGA-TTGCT-ATCTTCAACCTGC
* ** * ** *
22624893 TCCACTGCAACTTCAGGGAGATAAGGTTTATAGCTTTTGACCTAC
1 TCCACTGCAACTTCAGGGAGATAAGATTGCTATC-TTCAACCTGC
*
22624938 TCCATTGCAACTTCAGGGAGATAAG
1 TCCACTGCAACTTCAGGGAGATAAG
22624963 GCCTGCCATA
Statistics
Matches: 133, Mismatches: 19, Indels: 14
0.80 0.11 0.08
Matches are distributed among these distances:
43 3 0.02
44 35 0.26
45 93 0.70
46 2 0.02
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.29
Consensus pattern (44 bp):
TCCACTGCAACTTCAGGGAGATAAGATTGCTATCTTCAACCTGC
Found at i:22624941 original size:89 final size:89
Alignment explanation
Indices: 22624797--22624959 Score: 229
Period size: 89 Copynumber: 1.8 Consensus size: 89
22624787 TGCTATCTTT
* * * *
22624797 AACCTGCTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTTCTCCATTGCAACTT
1 AACCTGCTCCACTGCAACTTCAGGGAAATAAGATTCGATAGCTTCAGCCTACTCCATTGCAACTT
22624862 CAGGGAGATGAGACTTGTGACTTC
66 CAGGGAGATGAGACTTGTGACTTC
* * * **
22624886 AACCTGCTCCACTGCAACTTCAGGGAGATAAGGTT-TATAGCTTTTGACCTACTCCATTGCAACT
1 AACCTGCTCCACTGCAACTTCAGGGAAATAAGATTCGATAGCTTCAG-CCTACTCCATTGCAACT
22624950 TCAGGGAGAT
65 TCAGGGAGAT
22624960 AAGGCCTGCC
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
88 6 0.09
89 58 0.91
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (89 bp):
AACCTGCTCCACTGCAACTTCAGGGAAATAAGATTCGATAGCTTCAGCCTACTCCATTGCAACTT
CAGGGAGATGAGACTTGTGACTTC
Found at i:22627444 original size:2 final size:2
Alignment explanation
Indices: 22627437--22627461 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
22627427 TTTGTTGAAG
22627437 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
22627462 TAAGAACAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:22628630 original size:41 final size:40
Alignment explanation
Indices: 22628550--22628649 Score: 109
Period size: 39 Copynumber: 2.5 Consensus size: 40
22628540 AATAAAAATT
*
22628550 ATAAAAACTAA-AATTAAAATAATAATAAAGAAAAATG-AA
1 ATAAAAA-TAATAAATAAAATAATAATAAAGAAAAATGAAA
*
22628589 ATAAAAAGTACTTAAATAAAAT-A-AATAAAGATAAAAGTGAAA
1 ATAAAAA-TA-ATAAATAAAATAATAATAAAGA-AAAA-TGAAA
22628631 ATAAAAATAATAAATAAAA
1 ATAAAAATAATAAATAAAA
22628650 AGATTTTAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
39 17 0.33
40 14 0.27
41 12 0.23
42 9 0.17
ACGTcount: A:0.71, C:0.02, G:0.06, T:0.21
Consensus pattern (40 bp):
ATAAAAATAATAAATAAAATAATAATAAAGAAAAATGAAA
Found at i:22632380 original size:18 final size:18
Alignment explanation
Indices: 22632357--22632393 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
22632347 TTTCTAACAC
*
22632357 CGAGATGAGTTTTGTTAA
1 CGAGATGAATTTTGTTAA
22632375 CGAGATGAATTTTGTTAA
1 CGAGATGAATTTTGTTAA
22632393 C
1 C
22632394 ATCTCCTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.30, C:0.08, G:0.24, T:0.38
Consensus pattern (18 bp):
CGAGATGAATTTTGTTAA
Found at i:22635987 original size:15 final size:14
Alignment explanation
Indices: 22635962--22636005 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 14
22635952 GGACTCAGAC
22635962 TTTTAATTTATTTTGG
1 TTTT-ATTTATTTT-G
22635978 TTTTATTTATTTTG
1 TTTTATTTATTTTG
*
22635992 TTTTGTTTGATTTT
1 TTTTATTT-ATTTT
22636006 ATCTTTGCCC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 8 0.31
15 14 0.54
16 4 0.15
ACGTcount: A:0.14, C:0.00, G:0.11, T:0.75
Consensus pattern (14 bp):
TTTTATTTATTTTG
Found at i:22638151 original size:20 final size:21
Alignment explanation
Indices: 22638126--22638167 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
22638116 AGTTAACATA
22638126 AAAATAT-TTTTA-AGATTTTT
1 AAAATATATTTTAGA-ATTTTT
22638146 AAAATATATTTTAGAATTTTT
1 AAAATATATTTTAGAATTTTT
22638167 A
1 A
22638168 GAATTAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 7 0.35
21 12 0.60
22 1 0.05
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (21 bp):
AAAATATATTTTAGAATTTTT
Found at i:22646938 original size:41 final size:41
Alignment explanation
Indices: 22646873--22646950 Score: 113
Period size: 41 Copynumber: 1.9 Consensus size: 41
22646863 AGGGGTTTTT
* *
22646873 ACACGGCCAAGCACACGCCTATGTCACTGGCCCGTGTCTCTC
1 ACACGGCCAAGCACACGCCCATGTCA-TCGCCCGTGTCTCTC
*
22646915 ACACGGCCTAG-ACACGCCCATGTCATCGCCCGTGTC
1 ACACGGCCAAGCACACGCCCATGTCATCGCCCGTGTC
22646951 CAAAAACTCA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
40 10 0.30
41 13 0.39
42 10 0.30
ACGTcount: A:0.19, C:0.41, G:0.22, T:0.18
Consensus pattern (41 bp):
ACACGGCCAAGCACACGCCCATGTCATCGCCCGTGTCTCTC
Found at i:22670702 original size:33 final size:34
Alignment explanation
Indices: 22670658--22670758 Score: 95
Period size: 33 Copynumber: 3.0 Consensus size: 34
22670648 TTTCTGATTG
*
22670658 CACACTG-TACTGTTACTGTAAT-GGACTTAGGCC
1 CACACTGATACTGTTACTGAAATAGG-CTTAGGCC
*
22670691 C-CACTGATACTGTCACTGAAATAGGCTTAGGCC
1 CACACTGATACTGTTACTGAAATAGGCTTAGGCC
* * *
22670724 CAAACT-ACTACTGTTACT-AATATGGGCTAAGGCC
1 CACACTGA-TACTGTTACTGAA-ATAGGCTTAGGCC
22670758 C
1 C
22670759 GAACTGAAAC
Statistics
Matches: 57, Mismatches: 6, Indels: 9
0.79 0.08 0.12
Matches are distributed among these distances:
32 5 0.09
33 26 0.46
34 26 0.46
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.27
Consensus pattern (34 bp):
CACACTGATACTGTTACTGAAATAGGCTTAGGCC
Found at i:22677774 original size:18 final size:18
Alignment explanation
Indices: 22677751--22677803 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
22677741 CACACGACTT
*
22677751 ACAGTTCCCATAAAATAA
1 ACAGTTCACATAAAATAA
* *
22677769 ACAGTTCACATAGAGTAA
1 ACAGTTCACATAAAATAA
* * *
22677787 GCAATTCGCATAAAATA
1 ACAGTTCACATAAAATA
22677804 TTAGTTCGCA
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.47, C:0.19, G:0.11, T:0.23
Consensus pattern (18 bp):
ACAGTTCACATAAAATAA
Found at i:22678159 original size:33 final size:33
Alignment explanation
Indices: 22678122--22678188 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
22678112 TTACATTCCC
22678122 TTATCTCTCCAACACATCTCTAGACCACAATGT
1 TTATCTCTCCAACACATCTCTAGACCACAATGT
*
22678155 TTATCTCTCCAACACATCTCTGGACCACAATGT
1 TTATCTCTCCAACACATCTCTAGACCACAATGT
22678188 T
1 T
22678189 CATCGCAATA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.28, C:0.33, G:0.07, T:0.31
Consensus pattern (33 bp):
TTATCTCTCCAACACATCTCTAGACCACAATGT
Found at i:22678520 original size:23 final size:23
Alignment explanation
Indices: 22678493--22678567 Score: 91
Period size: 23 Copynumber: 3.3 Consensus size: 23
22678483 CCTAGGTTTG
22678493 CATATCACTTTAGTATAAGTTCA
1 CATATCACTTTAGTATAAGTTCA
* *
22678516 CATATCA-TATAGCT-TAGGTTCA
1 CATATCACTTTAG-TATAAGTTCA
* *
22678538 CATGTCACTTTAGCATAAGTTCA
1 CATATCACTTTAGTATAAGTTCA
22678561 CATATCA
1 CATATCA
22678568 TATAGCTTAG
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
22 17 0.40
23 25 0.60
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.36
Consensus pattern (23 bp):
CATATCACTTTAGTATAAGTTCA
Found at i:22678534 original size:45 final size:45
Alignment explanation
Indices: 22678485--22678587 Score: 170
Period size: 45 Copynumber: 2.3 Consensus size: 45
22678475 TCACAAAGCC
*
22678485 TAGGTTTGCATATCACTTTAGTATAAGTTCACATATCATATAGCT
1 TAGGTTTGCATATCACTTTAGCATAAGTTCACATATCATATAGCT
** *
22678530 TAGGTTCACATGTCACTTTAGCATAAGTTCACATATCATATAGCT
1 TAGGTTTGCATATCACTTTAGCATAAGTTCACATATCATATAGCT
22678575 TAGGTTTGCATAT
1 TAGGTTTGCATAT
22678588 AACATAGCAT
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 51 1.00
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.39
Consensus pattern (45 bp):
TAGGTTTGCATATCACTTTAGCATAAGTTCACATATCATATAGCT
Found at i:22678587 original size:22 final size:22
Alignment explanation
Indices: 22678511--22678580 Score: 95
Period size: 22 Copynumber: 3.1 Consensus size: 22
22678501 TTTAGTATAA
22678511 GTTCACATATCATATAGCTTAG
1 GTTCACATATCATATAGCTTAG
* * * *
22678533 GTTCACATGTCACTTTAGCATAA
1 GTTCACATATCA-TATAGCTTAG
22678556 GTTCACATATCATATAGCTTAG
1 GTTCACATATCATATAGCTTAG
22678578 GTT
1 GTT
22678581 TGCATATAAC
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
22 21 0.54
23 18 0.46
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (22 bp):
GTTCACATATCATATAGCTTAG
Found at i:22678872 original size:17 final size:16
Alignment explanation
Indices: 22678850--22678881 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
22678840 AGGATTAGGT
22678850 TCACACATGATAGGGGC
1 TCACACATGAT-GGGGC
22678867 TCACACATGATGGGG
1 TCACACATGATGGGG
22678882 TTTGCACTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.28, C:0.22, G:0.31, T:0.19
Consensus pattern (16 bp):
TCACACATGATGGGGC
Found at i:22683181 original size:50 final size:50
Alignment explanation
Indices: 22683094--22683219 Score: 166
Period size: 50 Copynumber: 2.5 Consensus size: 50
22683084 ATATCTAAGG
*
22683094 GTTCGTATATCACTCAATCATAGCATGTTCATATATCATTCAACATAACAT
1 GTTCGCATATCACTCAA-CATAGCATGTTCATATATCATTCAACATAACAT
* * *
22683145 GTTCAG-ATATCATTCAACATAGTATGTTCGCT-TATCATTCAACATAACAT
1 GTTC-GCATATCACTCAACATAGCATGTTC-ATATATCATTCAACATAACAT
*
22683195 GTTCGCACATCACTCAACATAGCAT
1 GTTCGCATATCACTCAACATAGCAT
22683220 ATTTGCATAT
Statistics
Matches: 66, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
49 1 0.02
50 49 0.74
51 15 0.23
52 1 0.02
ACGTcount: A:0.34, C:0.23, G:0.10, T:0.33
Consensus pattern (50 bp):
GTTCGCATATCACTCAACATAGCATGTTCATATATCATTCAACATAACAT
Found at i:22683199 original size:25 final size:25
Alignment explanation
Indices: 22683094--22683229 Score: 130
Period size: 25 Copynumber: 5.4 Consensus size: 25
22683084 ATATCTAAGG
* * *
22683094 GTTCGTATATCACTCAATCATAGCAT
1 GTTCGCATATCATTCAA-CATAACAT
**
22683120 GTTCATATATCATTCAACATAACAT
1 GTTCGCATATCATTCAACATAACAT
**
22683145 GTTCAG-ATATCATTCAACATAGTAT
1 GTTC-GCATATCATTCAACATAACAT
*
22683170 GTTCGCTTATCATTCAACATAACAT
1 GTTCGCATATCATTCAACATAACAT
* * *
22683195 GTTCGCACATCACTCAACATAGCAT
1 GTTCGCATATCATTCAACATAACAT
* *
22683220 ATTTGCATAT
1 GTTCGCATAT
22683230 TAATAAGGCA
Statistics
Matches: 92, Mismatches: 16, Indels: 5
0.81 0.14 0.04
Matches are distributed among these distances:
24 1 0.01
25 76 0.83
26 15 0.16
ACGTcount: A:0.34, C:0.22, G:0.10, T:0.35
Consensus pattern (25 bp):
GTTCGCATATCATTCAACATAACAT
Found at i:22687161 original size:21 final size:20
Alignment explanation
Indices: 22687109--22687228 Score: 104
Period size: 20 Copynumber: 5.8 Consensus size: 20
22687099 TAAAATATAG
*
22687109 AAAAAATTA-TAAAAAT-TT
1 AAAAAATTATTAAAATTATT
* * *
22687127 AGAAAAGTTTTTAAAATTTTT
1 A-AAAAATTATTAAAATTATT
*
22687148 AAAATATATATTAAAATTATT
1 AAAAAAT-TATTAAAATTATT
22687169 AAAAAATTATTAAAAAAATTATT
1 AAAAAATTATT---AAAATTATT
22687192 AAAAAAATTATTAAAA-TATAT
1 -AAAAAATTATTAAAATTAT-T
22687213 AAAAAATTA-TAAAATT
1 AAAAAATTATTAAAATT
22687229 TAGAGTTACT
Statistics
Matches: 84, Mismatches: 8, Indels: 18
0.76 0.07 0.16
Matches are distributed among these distances:
18 1 0.01
19 11 0.13
20 27 0.32
21 25 0.30
23 9 0.11
24 11 0.13
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (20 bp):
AAAAAATTATTAAAATTATT
Found at i:22687163 original size:12 final size:11
Alignment explanation
Indices: 22687146--22687219 Score: 57
Period size: 11 Copynumber: 6.7 Consensus size: 11
22687136 TTTAAAATTT
22687146 TTAAAATATATA
1 TTAAAA-ATATA
22687158 TT-AAAAT-TA
1 TTAAAAATATA
22687167 TTAAAAA-ATTA
1 TTAAAAATA-TA
*
22687178 TTAAAAAAATTA
1 TTAAAAATA-TA
*
22687190 TTAAAAAAATTA
1 TTAAAAATA-TA
22687202 TT-AAAATATA
1 TTAAAAATATA
*
22687212 TAAAAAAT
1 TTAAAAAT
22687220 TATAAAATTT
Statistics
Matches: 55, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
9 4 0.07
10 9 0.16
11 22 0.40
12 20 0.36
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
TTAAAAATATA
Found at i:22687192 original size:32 final size:31
Alignment explanation
Indices: 22687139--22687228 Score: 87
Period size: 32 Copynumber: 2.8 Consensus size: 31
22687129 AAAAGTTTTT
* *
22687139 AAAATTTTTAAAATATATATTAAAATTATTAA
1 AAAATTATTAAAAAAT-TATTAAAATTATTAA
22687171 AAAATTATTAAAAAAATTATTAAAAAAATTATTAA
1 AAAATTATT-AAAAAATTATT---AAAATTATTAA
*
22687206 AATA-TA-TAAAAAATTA-TAAAATT
1 AAAATTATTAAAAAATTATTAAAATT
22687229 TAGAGTTACT
Statistics
Matches: 51, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
28 6 0.12
31 1 0.02
32 21 0.41
33 7 0.14
34 2 0.04
35 14 0.27
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (31 bp):
AAAATTATTAAAAAATTATTAAAATTATTAA
Found at i:22687194 original size:44 final size:43
Alignment explanation
Indices: 22687139--22687226 Score: 117
Period size: 44 Copynumber: 2.0 Consensus size: 43
22687129 AAAAGTTTTT
* *
22687139 AAAATT-TTTAAAATATATATTAAAAT-TATTAAAAAATTATTAAA
1 AAAATTATTAAAAAAAT-TATTAAAATATA-TAAAAAATTA-TAAA
22687183 AAAATTATTAAAAAAATTATTAAAATATATAAAAAATTATAAA
1 AAAATTATTAAAAAAATTATTAAAATATATAAAAAATTATAAA
22687226 A
1 A
22687227 TTTAGAGTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
43 5 0.12
44 25 0.62
45 10 0.25
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (43 bp):
AAAATTATTAAAAAAATTATTAAAATATATAAAAAATTATAAA
Found at i:22687204 original size:15 final size:12
Alignment explanation
Indices: 22687160--22687207 Score: 89
Period size: 12 Copynumber: 4.1 Consensus size: 12
22687150 AATATATATT
22687160 AAAATTATT-AA
1 AAAATTATTAAA
22687171 AAAATTATTAAA
1 AAAATTATTAAA
22687183 AAAATTATTAAA
1 AAAATTATTAAA
22687195 AAAATTATTAAA
1 AAAATTATTAAA
22687207 A
1 A
22687208 TATATAAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
11 9 0.25
12 27 0.75
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTATTAAA
Found at i:22687223 original size:12 final size:11
Alignment explanation
Indices: 22687139--22687226 Score: 87
Period size: 12 Copynumber: 8.2 Consensus size: 11
22687129 AAAAGTTTTT
*
22687139 AAAATTTTTAA
1 AAAATTATTAA
*
22687150 AATATATATT--
1 AAAAT-TATTAA
22687160 AAAATTATTAA
1 AAAATTATTAA
22687171 AAAATTATTAAA
1 AAAATTATT-AA
22687183 AAAATTATTAAA
1 AAAATTATT-AA
22687195 AAAATTATTAA
1 AAAATTATTAA
*
22687206 AATA-TA-TAA
1 AAAATTATTAA
22687215 AAAATTA-TAA
1 AAAATTATTAA
22687225 AA
1 AA
22687227 TTTAGAGTTA
Statistics
Matches: 67, Mismatches: 5, Indels: 11
0.81 0.06 0.13
Matches are distributed among these distances:
9 10 0.15
10 13 0.19
11 18 0.27
12 26 0.39
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
AAAATTATTAA
Found at i:22687515 original size:29 final size:28
Alignment explanation
Indices: 22687465--22687525 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 28
22687455 TTTTCTCTAC
*
22687465 TTTTAGATTTTTTTATAAATTTGTAATAA
1 TTTTAGATATTTTTATAAATTT-TAATAA
* ** *
22687494 TTTTATATATTTTTATTGATTTTAATCA
1 TTTTAGATATTTTTATAAATTTTAATAA
22687522 TTTT
1 TTTT
22687526 TTATCTTTAT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 9 0.33
29 18 0.67
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.64
Consensus pattern (28 bp):
TTTTAGATATTTTTATAAATTTTAATAA
Found at i:22687649 original size:26 final size:28
Alignment explanation
Indices: 22687594--22687661 Score: 81
Period size: 26 Copynumber: 2.5 Consensus size: 28
22687584 TAAATTTTAG
*
22687594 AATTTT-T-TTTTTCTATATTTATAATA
1 AATTTTCTATTTTTATATATTTATAATA
*
22687620 AATTTTCTATTTTTATAT-TTTCTAAT-
1 AATTTTCTATTTTTATATATTTATAATA
22687646 AATTTTCTATATTTTA
1 AATTTTCTAT-TTTTA
22687662 AATAAATTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
26 16 0.43
27 13 0.35
28 8 0.22
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (28 bp):
AATTTTCTATTTTTATATATTTATAATA
Found at i:22687665 original size:19 final size:20
Alignment explanation
Indices: 22687628--22687671 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
22687618 TAAATTTTCT
*
22687628 ATTTTTATATTTTCTAAT-A
1 ATTTTTATATTTTCAAATAA
22687647 ATTTTCTATATTTT-AAATAA
1 ATTTT-TATATTTTCAAATAA
22687667 ATTTT
1 ATTTT
22687672 AATACTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (20 bp):
ATTTTTATATTTTCAAATAA
Found at i:22687669 original size:20 final size:19
Alignment explanation
Indices: 22687628--22687672 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
22687618 TAAATTTTCT
*
22687628 ATTTTTATATTTTCTAATA
1 ATTTTTATATTTTCAAATA
22687647 ATTTTCTATATTTT-AAATA
1 ATTTT-TATATTTTCAAATA
*
22687666 AATTTTA
1 ATTTTTA
22687673 ATACTTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 2 0.09
19 13 0.57
20 8 0.35
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (19 bp):
ATTTTTATATTTTCAAATA
Found at i:22687742 original size:18 final size:17
Alignment explanation
Indices: 22687719--22687763 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
22687709 ATTTTTCTAT
22687719 AATTTTTATAAATTTTTA
1 AATTTTTATAAA-TTTTA
**
22687737 AATTTTTATTGATTTTA
1 AATTTTTATAAATTTTA
22687754 ATATTTTTAT
1 A-ATTTTTAT
22687764 CATTTTTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 6 0.25
18 18 0.75
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (17 bp):
AATTTTTATAAATTTTA
Found at i:22687768 original size:17 final size:17
Alignment explanation
Indices: 22687732--22687769 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
22687722 TTTTATAAAT
*
22687732 TTTTAAATTTTTATTGA
1 TTTTAAATTTTTATTCA
22687749 TTTTAATATTTTTA-TCA
1 TTTTAA-ATTTTTATTCA
22687766 TTTT
1 TTTT
22687770 TTATCATGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.68
Consensus pattern (17 bp):
TTTTAAATTTTTATTCA
Found at i:22687770 original size:18 final size:17
Alignment explanation
Indices: 22687719--22687770 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 17
22687709 ATTTTTCTAT
22687719 AATTTTTATAAATTTTTA
1 AATTTTTAT-AATTTTTA
*
22687737 AATTTTTATTGA-TTTTA
1 AATTTTTA-TAATTTTTA
*
22687754 ATATTTTTATCATTTTT
1 A-ATTTTTATAATTTTT
22687771 TATCATGTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
17 8 0.28
18 20 0.69
19 1 0.03
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (17 bp):
AATTTTTATAATTTTTA
Found at i:22688133 original size:3 final size:3
Alignment explanation
Indices: 22688125--22688186 Score: 124
Period size: 3 Copynumber: 20.7 Consensus size: 3
22688115 CATTACTGTT
22688125 ATA ATA 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
22688173 ATA ATA ATA ATA AT
1 ATA ATA ATA ATA AT
22688187 TTATCTTTAA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:22691133 original size:59 final size:60
Alignment explanation
Indices: 22691037--22691169 Score: 205
Period size: 59 Copynumber: 2.2 Consensus size: 60
22691027 GACAAGATTG
* * *
22691037 GCACTAAGTGTGCGGGTTTAAAAATTGTACAGCACTAAGTGTGCGAACTGAAAATATATA
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATA
* * *
22691097 GCACTAAGTGTGCGAG-CTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATA
22691156 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
22691170 GATTCACTAT
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
59 52 0.78
60 15 0.22
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.26
Consensus pattern (60 bp):
GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATA
Found at i:22691182 original size:29 final size:29
Alignment explanation
Indices: 22691067--22691169 Score: 188
Period size: 29 Copynumber: 3.5 Consensus size: 29
22691057 AAAATTGTAC
*
22691067 AGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
22691096 AGCACTAAGTGTGCGAGCTGAAAATTATAT
1 AGCACTAAGTGTGCGAGCTGAAAA-TATAT
22691126 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
22691155 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
22691170 GATTCACTAT
Statistics
Matches: 72, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
29 43 0.60
30 29 0.40
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.24
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAGCTGAAAATATAT
Found at i:22698663 original size:59 final size:60
Alignment explanation
Indices: 22698567--22698699 Score: 205
Period size: 59 Copynumber: 2.2 Consensus size: 60
22698557 GACAAGATTG
* * *
22698567 GCACTAAGTGTGCGGGTTTAAAAATTGTACAGCACTAAGTGTGCGAACTGAAAATATATA
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATA
* * *
22698627 GCACTAAGTGTGCGAG-CTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATA
22698686 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
22698700 GATTCACTAT
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
59 52 0.78
60 15 0.22
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.26
Consensus pattern (60 bp):
GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATA
Found at i:22698712 original size:29 final size:29
Alignment explanation
Indices: 22698597--22698699 Score: 188
Period size: 29 Copynumber: 3.5 Consensus size: 29
22698587 AAAATTGTAC
*
22698597 AGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
22698626 AGCACTAAGTGTGCGAGCTGAAAATTATAT
1 AGCACTAAGTGTGCGAGCTGAAAA-TATAT
22698656 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
22698685 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
22698700 GATTCACTAT
Statistics
Matches: 72, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
29 43 0.60
30 29 0.40
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.24
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAGCTGAAAATATAT
Found at i:22704294 original size:80 final size:80
Alignment explanation
Indices: 22704210--22704358 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
22704200 TATGGTAACC
* * * *
22704210 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
22704274 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
22704290 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
22704355 CCGG
66 CCGG
22704359 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:22704300 original size:40 final size:38
Alignment explanation
Indices: 22704251--22704358 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
22704241 ATCACGATTT
*
22704251 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
22704291 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
22704331 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
22704359 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:22709326 original size:21 final size:20
Alignment explanation
Indices: 22709287--22709328 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
22709277 AATAGGCTGT
* *
22709287 AAAATGAAATTTTTTGATAG
1 AAAATGAAAATTATTGATAG
22709307 AAAATGAAAGATTATTGATAG
1 AAAATGAAA-ATTATTGATAG
22709328 A
1 A
22709329 TAAACCACTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.50, C:0.00, G:0.17, T:0.33
Consensus pattern (20 bp):
AAAATGAAAATTATTGATAG
Found at i:22710050 original size:33 final size:33
Alignment explanation
Indices: 22710012--22710118 Score: 128
Period size: 33 Copynumber: 3.3 Consensus size: 33
22710002 ATGGTACAAT
** *
22710012 TTGAAAAGGTTAGGTATACTTTGTGTATTCCA-
1 TTGAAAAGGAAAGGTATACTTTGTGTATACCAC
22710044 TATGAAAAGGAAAGGTATACTTTGTGTATACCAC
1 T-TGAAAAGGAAAGGTATACTTTGTGTATACCAC
* * * *
22710078 TTGAAAAGGAAAGGTACACTATATGTGTA-CAC
1 TTGAAAAGGAAAGGTATACTTTGTGTATACCAC
22710110 TTGAAAAGG
1 TTGAAAAGG
22710119 CTATGTGCAC
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
32 13 0.20
33 52 0.79
34 1 0.02
ACGTcount: A:0.36, C:0.10, G:0.22, T:0.31
Consensus pattern (33 bp):
TTGAAAAGGAAAGGTATACTTTGTGTATACCAC
Found at i:22710132 original size:65 final size:66
Alignment explanation
Indices: 22710062--22710223 Score: 175
Period size: 66 Copynumber: 2.5 Consensus size: 66
22710052 GGAAAGGTAT
* * * * *
22710062 ACTTTGTGTATACCACTTGAAAAGGAAAGGTACACTAT-ATGTGT-ACACTTGAAAAGGCTATGT
1 ACTTTGTGTGTACAACTTGAAAAGGAAAGGTACACT-TCATGTGTAACACCTAAAAAGGCAATGT
22710125 GC
65 GC
* ** * *
22710127 ACTTTGTGTGTACAAATTGAAAAGGGTATGTACACTTCATGTGTAACACCTAAAAAGGGAATGTG
1 ACTTTGTGTGTACAACTTGAAAAGGAAAGGTACACTTCATGTGTAACACCTAAAAAGGCAATGTG
22710192 C
66 C
* * * *
22710193 ACCTCGGGTGTACAACTAGAAAAGGAAAGGT
1 ACTTTGTGTGTACAACTTGAAAAGGAAAGGT
22710224 CCATCAGAAA
Statistics
Matches: 77, Mismatches: 18, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
64 1 0.01
65 36 0.47
66 40 0.52
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (66 bp):
ACTTTGTGTGTACAACTTGAAAAGGAAAGGTACACTTCATGTGTAACACCTAAAAAGGCAATGTG
C
Found at i:22710137 original size:32 final size:32
Alignment explanation
Indices: 22710046--22710217 Score: 110
Period size: 33 Copynumber: 5.2 Consensus size: 32
22710036 GTATTCCATA
* * * *
22710046 TGAAAAGGAAAGGTATACTTTGTGTATACCACT
1 TGAAAAGGGAATGTACACTTTGTGTGTA-CACT
* * * *
22710079 TGAAAAGGAAAGGTACACTATATGTGTACACT
1 TGAAAAGGGAATGTACACTTTGTGTGTACACT
** * *
22710111 TGAAAAGGCTATGTGCACTTTGTGTGTACAAAT
1 TGAAAAGGGAATGTACACTTTGTGTGTAC-ACT
* ** *
22710144 TGAAAAGGGTATGTACACTTCATGTGTAACACC
1 TGAAAAGGGAATGTACACTTTGTGTGT-ACACT
* * * * *
22710177 TAAAAAGGGAATGTGCACCTCGGGTGTACAACT
1 TGAAAAGGGAATGTACACTTTGTGTGTAC-ACT
*
22710210 AGAAAAGG
1 TGAAAAGG
22710218 AAAGGTCCAT
Statistics
Matches: 110, Mismatches: 26, Indels: 6
0.77 0.18 0.04
Matches are distributed among these distances:
32 29 0.26
33 79 0.72
34 2 0.02
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.26
Consensus pattern (32 bp):
TGAAAAGGGAATGTACACTTTGTGTGTACACT
Found at i:22710150 original size:33 final size:32
Alignment explanation
Indices: 22710005--22710163 Score: 102
Period size: 33 Copynumber: 4.8 Consensus size: 32
22709995 TACCCAAATG
* * *
22710005 GTACAATTTGAAAAGGTTAGGTATACTTTGTGT
1 GTACAA-TTGAAAAGGCTATGTACACTTTGTGT
* * * ** * *
22710038 ATTCCATATGAAAAGGAAAGGTATACTTTGTGT
1 GTACAAT-TGAAAAGGCTATGTACACTTTGTGT
* * ** * * *
22710071 ATACCACTTGAAAAGGAAAGGTACACTATATGT
1 GTA-CAATTGAAAAGGCTATGTACACTTTGTGT
* *
22710104 GTACACTTGAAAAGGCTATGTGCACTTTGTGT
1 GTACAATTGAAAAGGCTATGTACACTTTGTGT
*
22710136 GTACAAATTGAAAAGGGTATGTACACTT
1 GTAC-AATTGAAAAGGCTATGTACACTT
22710164 CATGTGTAAC
Statistics
Matches: 102, Mismatches: 21, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
32 28 0.27
33 72 0.71
34 2 0.02
ACGTcount: A:0.35, C:0.11, G:0.22, T:0.32
Consensus pattern (32 bp):
GTACAATTGAAAAGGCTATGTACACTTTGTGT
Found at i:22711596 original size:25 final size:24
Alignment explanation
Indices: 22711568--22711653 Score: 75
Period size: 25 Copynumber: 3.5 Consensus size: 24
22711558 CTGAATAAAA
22711568 GGAAGCTCATGAGAGCTAAGTATCG
1 GGAAGCTCATGAGAGCTAA-TATCG
* *
22711593 GGAAGCT-GTTACGAGCTGAATATCG
1 GGAAGCTCATGA-GAGCT-AATATCG
* * * *
22711618 AGAAGCTCTTGTGAGCTAAATATTG
1 GGAAGCTCATGAGAGCT-AATATCG
22711643 GGAAGCTCATG
1 GGAAGCTCATG
22711654 CAAGCTGTGG
Statistics
Matches: 48, Mismatches: 10, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
24 2 0.04
25 43 0.90
26 3 0.06
ACGTcount: A:0.30, C:0.15, G:0.30, T:0.24
Consensus pattern (24 bp):
GGAAGCTCATGAGAGCTAATATCG
Found at i:22711599 original size:50 final size:50
Alignment explanation
Indices: 22711541--22711650 Score: 125
Period size: 50 Copynumber: 2.2 Consensus size: 50
22711531 GAGCAGTAAA
*
22711541 CGGGAAGCTCTT-CTGAGCTGAATAAA-AGGAAGCTCATGAGAGCTAAGTAT
1 CGGGAAGCTCTTAC-GAGCTGAATAAAGA-GAAGCTCATGAGAGCTAAATAT
* ** * *
22711591 CGGGAAGCTGTTACGAGCTGAATATCGAGAAGCTCTTGTGAGCTAAATAT
1 CGGGAAGCTCTTACGAGCTGAATAAAGAGAAGCTCATGAGAGCTAAATAT
*
22711641 TGGGAAGCTC
1 CGGGAAGCTC
22711651 ATGCAAGCTG
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
50 48 0.96
51 2 0.04
ACGTcount: A:0.31, C:0.16, G:0.29, T:0.24
Consensus pattern (50 bp):
CGGGAAGCTCTTACGAGCTGAATAAAGAGAAGCTCATGAGAGCTAAATAT
Found at i:22713451 original size:3 final size:3
Alignment explanation
Indices: 22713443--22713467 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
22713433 CATTATACCT
22713443 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
22713468 ATGAGGTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:22715299 original size:16 final size:17
Alignment explanation
Indices: 22715276--22715318 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
22715266 TTGATTTTTT
22715276 GTTT-AGGTTTTG-TAG
1 GTTTAAGGTTTTGTTAG
22715291 GTTTAAGGTTTTGTTAG
1 GTTTAAGGTTTTGTTAG
*
22715308 TTTTAAGGTTT
1 GTTTAAGGTTT
22715319 AGGTATTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 4 0.16
16 8 0.32
17 13 0.52
ACGTcount: A:0.16, C:0.00, G:0.28, T:0.56
Consensus pattern (17 bp):
GTTTAAGGTTTTGTTAG
Found at i:22715314 original size:17 final size:16
Alignment explanation
Indices: 22715280--22715336 Score: 62
Period size: 16 Copynumber: 3.5 Consensus size: 16
22715270 TTTTTTGTTT
*
22715280 AGGTTTTGTAGGTTTA
1 AGGTTTTGTAGTTTTA
22715296 AGGTTTTGTTAGTTTTA
1 AGGTTTTG-TAGTTTTA
*
22715313 AGGTTTAGGTA-TTTTA
1 AGGTTT-TGTAGTTTTA
*
22715329 AAGTTTTG
1 AGGTTTTG
22715337 AGAATTTTAC
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
15 1 0.03
16 18 0.51
17 15 0.43
18 1 0.03
ACGTcount: A:0.21, C:0.00, G:0.26, T:0.53
Consensus pattern (16 bp):
AGGTTTTGTAGTTTTA
Found at i:22715327 original size:16 final size:17
Alignment explanation
Indices: 22715287--22715334 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 17
22715277 TTTAGGTTTT
* *
22715287 GTAGGTTTAAGGTTTTG
1 GTAGTTTTAAGGTTTAG
*
22715304 TTAGTTTTAAGGTTTAG
1 GTAGTTTTAAGGTTTAG
*
22715321 GTA-TTTTAAAGTTT
1 GTAGTTTTAAGGTTT
22715335 TGAGAATTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
16 10 0.38
17 16 0.62
ACGTcount: A:0.23, C:0.00, G:0.25, T:0.52
Consensus pattern (17 bp):
GTAGTTTTAAGGTTTAG
Found at i:22715377 original size:16 final size:17
Alignment explanation
Indices: 22715357--22715429 Score: 60
Period size: 16 Copynumber: 4.2 Consensus size: 17
22715347 TATTTTTGAT
* *
22715357 ATTTTATGATTTTAGGG
1 ATTTTATAAGTTTAGGG
22715374 -TTTTATAAGTTTAGGG
1 ATTTTATAAGTTTAGGG
*
22715390 ATTTT-TATTGTTTAGGG
1 ATTTTATA-AGTTTAGGG
* *
22715407 ATCTTTATAGGGTTTAAGG
1 AT-TTTATA-AGTTTAGGG
22715426 ATTT
1 ATTT
22715430 GAGATAGACA
Statistics
Matches: 46, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
16 16 0.35
17 14 0.30
18 5 0.11
19 11 0.24
ACGTcount: A:0.23, C:0.01, G:0.23, T:0.52
Consensus pattern (17 bp):
ATTTTATAAGTTTAGGG
Found at i:22715402 original size:17 final size:17
Alignment explanation
Indices: 22715382--22715414 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
22715372 GGTTTTATAA
*
22715382 GTTTAGGGATTTTTATT
1 GTTTAGGGATCTTTATT
22715399 GTTTAGGGATCTTTAT
1 GTTTAGGGATCTTTAT
22715415 AGGGTTTAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.03, G:0.24, T:0.55
Consensus pattern (17 bp):
GTTTAGGGATCTTTATT
Found at i:22716684 original size:21 final size:21
Alignment explanation
Indices: 22716667--22716714 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
22716657 GAGTGGGTTC
22716667 CATGGCTATGTAGATGGGTCA
1 CATGGCTATGTAGATGGGTCA
* * *
22716688 CATGGCTGTGTGGATGAGTCA
1 CATGGCTATGTAGATGGGTCA
22716709 CATGGC
1 CATGGC
22716715 CGTGTAAGCA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.21, C:0.17, G:0.35, T:0.27
Consensus pattern (21 bp):
CATGGCTATGTAGATGGGTCA
Found at i:22716719 original size:21 final size:21
Alignment explanation
Indices: 22716679--22716719 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
22716669 TGGCTATGTA
* *
22716679 GATGGGTCACATGGCTGTGTG
1 GATGAGTCACATGGCCGTGTG
22716700 GATGAGTCACATGGCCGTGT
1 GATGAGTCACATGGCCGTGT
22716720 AAGCAAACTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.17, C:0.17, G:0.39, T:0.27
Consensus pattern (21 bp):
GATGAGTCACATGGCCGTGTG
Found at i:22726078 original size:30 final size:30
Alignment explanation
Indices: 22726044--22726101 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
22726034 TATGCTTAGT
* * *
22726044 AAGTTCGTATAATAGAAAATAACCTTACTG
1 AAGTTCGTATAACAAAAAATAAACTTACTG
*
22726074 AAGTTTGTATAACAAAAAATAAACTTAC
1 AAGTTCGTATAACAAAAAATAAACTTAC
22726102 CGGTCATATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.48, C:0.12, G:0.10, T:0.29
Consensus pattern (30 bp):
AAGTTCGTATAACAAAAAATAAACTTACTG
Found at i:22741091 original size:27 final size:28
Alignment explanation
Indices: 22741061--22741130 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
22741051 ATAATAAGTC
*
22741061 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
22741088 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
22741116 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
22741131 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:22749017 original size:27 final size:28
Alignment explanation
Indices: 22748987--22749056 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
22748977 ATAATAAGTC
*
22748987 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
22749014 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
22749042 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
22749057 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:22769500 original size:40 final size:39
Alignment explanation
Indices: 22769335--22769518 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
22769325 AAATTGAATG
* * *
22769335 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
22769375 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
22769415 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
22769455 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
22769494 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
22769519 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:22769543 original size:80 final size:81
Alignment explanation
Indices: 22769375--22769563 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
22769365 GCTGGAAATT
* * * *
22769375 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
22769440 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
22769456 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
22769519 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
22769535 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
22769564 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:22777552 original size:40 final size:39
Alignment explanation
Indices: 22777431--22777570 Score: 136
Period size: 40 Copynumber: 3.5 Consensus size: 39
22777421 TGAAATTTAA
* * * * *
22777431 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCG-TATAT
* * * *
22777471 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATTCTAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTC-GTATAT
*
22777511 CCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTGATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCGT-ATAT
* * *
22777551 CCGGGTTAAGTCCCGTAGGC
1 CCGGGCTAAGACCCGAAGGC
22777571 CTTGGTGCGG
Statistics
Matches: 82, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
39 1 0.01
40 81 0.99
ACGTcount: A:0.24, C:0.25, G:0.29, T:0.22
Consensus pattern (39 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCGTATAT
Found at i:22777553 original size:80 final size:80
Alignment explanation
Indices: 22777431--22777579 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
22777421 TGAAATTTAA
* * * *
22777431 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCATTCG
22777496 TGCGAGTCATTCTAT
66 TGCGAGTCATTCTAT
* * * * * * *
22777511 CCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGCCTTG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGCATTC
22777575 GTGCG
65 GTGCG
22777580 GGTTACCATA
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.22, C:0.25, G:0.30, T:0.23
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCATTCG
TGCGAGTCATTCTAT
Found at i:22783299 original size:40 final size:39
Alignment explanation
Indices: 22783262--22783447 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 39
22783252 GCTACTCGTT
*
22783262 CAAATGCCTTCGAGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCG-GACTTAGCCCGGATT-TAGTAACTCGCA
* *
22783302 CAGATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAGCCCGGATTTAGTAACTCGCA
*
22783342 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * * *
22783382 CGAATGCCTTCGGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
*
22783423 CAAA-GCCTATGGGACTTAGCCCGGA
1 CAAATGCCT-TCGGACTTAGCCCGGA
22783448 CATCATTCGA
Statistics
Matches: 128, Mismatches: 13, Indels: 10
0.85 0.09 0.07
Matches are distributed among these distances:
39 3 0.02
40 111 0.87
41 14 0.11
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:22787466 original size:28 final size:28
Alignment explanation
Indices: 22787434--22787491 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 28
22787424 ATCTGTCAGA
*
22787434 GTATGTATCTGTGGGGACCACCAGTTTT
1 GTATGTATCTGTAGGGACCACCAGTTTT
* *
22787462 GTATGTCTCTGTATGGACCACCAGTTTT
1 GTATGTATCTGTAGGGACCACCAGTTTT
22787490 GT
1 GT
22787492 TAGTTAAGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.17, C:0.19, G:0.26, T:0.38
Consensus pattern (28 bp):
GTATGTATCTGTAGGGACCACCAGTTTT
Found at i:22795998 original size:13 final size:13
Alignment explanation
Indices: 22795980--22796004 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22795970 TAAAAGAGCA
22795980 TAAAATTTAAAGT
1 TAAAATTTAAAGT
22795993 TAAAATTTAAAG
1 TAAAATTTAAAG
22796005 ATGATAATCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (13 bp):
TAAAATTTAAAGT
Found at i:22796108 original size:9 final size:9
Alignment explanation
Indices: 22796096--22796148 Score: 54
Period size: 9 Copynumber: 5.9 Consensus size: 9
22796086 ATATCATTAG
22796096 TTACATAAC
1 TTACATAAC
22796105 TTACATAAC
1 TTACATAAC
22796114 TTACATAA-
1 TTACATAAC
* * *
22796122 ATATATATC
1 TTACATAAC
*
22796131 ATATCATAAC
1 TTA-CATAAC
22796141 TTACATAA
1 TTACATAA
22796149 AACTTTGGAT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
8 5 0.14
9 25 0.69
10 6 0.17
ACGTcount: A:0.47, C:0.17, G:0.00, T:0.36
Consensus pattern (9 bp):
TTACATAAC
Found at i:22796131 original size:45 final size:43
Alignment explanation
Indices: 22796056--22796148 Score: 141
Period size: 45 Copynumber: 2.1 Consensus size: 43
22796046 AACTTTGGAT
* * *
22796056 CATAACTTACATAATACATAAATATTTATCATATCATTAGTTA
1 CATAACTTACATAATACATAAATATATATCATATCATAACTTA
22796099 CATAACTTACATAACTTACATAAATATATATCATATCATAACTTA
1 CATAACTTACATAA--TACATAAATATATATCATATCATAACTTA
22796144 CATAA
1 CATAA
22796149 AACTTTGGAT
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
43 14 0.31
45 31 0.69
ACGTcount: A:0.46, C:0.16, G:0.01, T:0.37
Consensus pattern (43 bp):
CATAACTTACATAATACATAAATATATATCATATCATAACTTA
Found at i:22798262 original size:46 final size:46
Alignment explanation
Indices: 22798194--22798288 Score: 138
Period size: 46 Copynumber: 2.1 Consensus size: 46
22798184 TATTGAAAAG
* * *
22798194 AATGTTTGTGAGAACATCATTGGGATAAT-TCTGAATGTCGATAGAA
1 AATGTTTGCGAGAACATCATTGGGACAATCT-TGAATGTCAATAGAA
*
22798240 AATGTTTGCGAGAACATTATTGGGACAATCTTGAATGTCAATAGAA
1 AATGTTTGCGAGAACATCATTGGGACAATCTTGAATGTCAATAGAA
22798286 AAT
1 AAT
22798289 CAAAAGACAA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
46 43 0.98
47 1 0.02
ACGTcount: A:0.37, C:0.09, G:0.22, T:0.32
Consensus pattern (46 bp):
AATGTTTGCGAGAACATCATTGGGACAATCTTGAATGTCAATAGAA
Found at i:22803694 original size:48 final size:48
Alignment explanation
Indices: 22803629--22803849 Score: 221
Period size: 48 Copynumber: 4.6 Consensus size: 48
22803619 TGATATGTGT
* *
22803629 GCCAATGTAAGATCATGTCTGGGACATGGCATCGGCCATGATATCAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCATGATATCAGA
* * * * * * *
22803677 GCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCGATGTTGTGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCATGATATCAGA
*** *
22803725 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACCTTATGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCATGATATCAGA
* * * * * *
22803773 GCCAGTGTAATACCATGCCTGGGACATGGTATTGGCAATGAGA-CGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCATGATATC-AGA
* *
22803821 GCTAGTGTAAGATCATG-CTTGGGACATGG
1 GCCAGTGTAAGACCATGTC-TGGGACATGG
22803850 TATTGACCAT
Statistics
Matches: 142, Mismatches: 29, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
47 1 0.01
48 141 0.99
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.24
Consensus pattern (48 bp):
GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCATGATATCAGA
Found at i:22803800 original size:96 final size:96
Alignment explanation
Indices: 22803629--22803849 Score: 257
Period size: 96 Copynumber: 2.3 Consensus size: 96
22803619 TGATATGTGT
* ** *
22803629 GCCAATGTAAGATCATGTCTGGGACATGGCATCGGCCATGATATCAGAGCTAGTGTAAGACCATG
1 GCCAGTGTAAGATCATGTCTGGGACATGGCATCGGCCACCATATCAGAGCCAGTGTAAGACCATG
** * * *
22803694 TTTGGAACATGGCATCGGCGATGTTG-TGAGA
66 CCTGGAACATGGCATCGGCAATG-AGACGAGA
* * * *
22803725 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACCTTATGAGAGCCAGTGTAATACCATG
1 GCCAGTGTAAGATCATGTCTGGGACATGGCATCGGCCACCATATCAGAGCCAGTGTAAGACCATG
* * *
22803790 CCTGGGACATGGTATTGGCAATGAGACGAGA
66 CCTGGAACATGGCATCGGCAATGAGACGAGA
*
22803821 GCTAGTGTAAGATCATG-CTTGGGACATGG
1 GCCAGTGTAAGATCATGTC-TGGGACATGG
22803850 TATTGACCAT
Statistics
Matches: 105, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
95 2 0.02
96 103 0.98
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.24
Consensus pattern (96 bp):
GCCAGTGTAAGATCATGTCTGGGACATGGCATCGGCCACCATATCAGAGCCAGTGTAAGACCATG
CCTGGAACATGGCATCGGCAATGAGACGAGA
Found at i:22809117 original size:48 final size:45
Alignment explanation
Indices: 22809010--22809138 Score: 141
Period size: 48 Copynumber: 2.7 Consensus size: 45
22809000 TGATATGTGT
22809010 GCCAGTATAAGACCATGTCTGGGACATGGCATTGGCAACAAGACAAGA
1 GCCAGTATAAGACCATGTCTGGGACATGGCA-T--CAACAAGACAAGA
* * **
22809058 GCTAGTATAAGACCATATCTGGGACATGGCATCAACCTCGACATATGA
1 GCCAGTATAAGACCATGTCTGGGACATGGCATCAA-CAAGACA-A-GA
* * *
22809106 GCCAGTGTAAGACCATGTTTGGAACATGGCATC
1 GCCAGTATAAGACCATGTCTGGGACATGGCATC
22809139 GGCAATTCAC
Statistics
Matches: 69, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
45 3 0.04
46 5 0.07
47 2 0.03
48 59 0.86
ACGTcount: A:0.33, C:0.22, G:0.25, T:0.21
Consensus pattern (45 bp):
GCCAGTATAAGACCATGTCTGGGACATGGCATCAACAAGACAAGA
Found at i:22825482 original size:22 final size:22
Alignment explanation
Indices: 22825454--22825496 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
22825444 TTCACACTCA
22825454 AATTATATTAAAATACATAGCT
1 AATTATATTAAAATACATAGCT
*
22825476 AATTATATTAAAATAGATAGC
1 AATTATATTAAAATACATAGC
22825497 CAACATATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.51, C:0.07, G:0.07, T:0.35
Consensus pattern (22 bp):
AATTATATTAAAATACATAGCT
Found at i:22830943 original size:20 final size:20
Alignment explanation
Indices: 22830915--22830952 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
22830905 ATGATAATTA
22830915 AAGTAAATTAATTAAGGATT
1 AAGTAAATTAATTAAGGATT
*
22830935 AAGTTAATTAATTAAGGA
1 AAGTAAATTAATTAAGGA
22830953 ATAATTAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.16, T:0.34
Consensus pattern (20 bp):
AAGTAAATTAATTAAGGATT
Found at i:22830959 original size:24 final size:23
Alignment explanation
Indices: 22830907--22830960 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 23
22830897 TATGATTCAT
22830907 GATAATTAAAGTAAATTAATTAAG
1 GATAATT-AAGTAAATTAATTAAG
*
22830931 G---ATTAAGTTAATTAATTAAG
1 GATAATTAAGTAAATTAATTAAG
22830951 GAATAATTAA
1 G-ATAATTAA
22830961 AGTATAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 8
0.74 0.03 0.24
Matches are distributed among these distances:
20 16 0.64
21 3 0.12
24 6 0.24
ACGTcount: A:0.52, C:0.00, G:0.13, T:0.35
Consensus pattern (23 bp):
GATAATTAAGTAAATTAATTAAG
Found at i:22837025 original size:24 final size:24
Alignment explanation
Indices: 22836993--22837040 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
22836983 AGTGTAGAAG
22836993 TCCACTTTTTTTAGAATATCTGCA
1 TCCACTTTTTTTAGAATATCTGCA
22837017 TCCACTTTTTTTAGAATATCTGCA
1 TCCACTTTTTTTAGAATATCTGCA
22837041 ACTACTTCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.25, C:0.21, G:0.08, T:0.46
Consensus pattern (24 bp):
TCCACTTTTTTTAGAATATCTGCA
Found at i:22837047 original size:24 final size:24
Alignment explanation
Indices: 22836994--22837047 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
22836984 GTGTAGAAGT
*
22836994 CCACTTTTTTTAGAATATCTGCAT
1 CCACTTTTTTTAGAATATCTGCAA
22837018 CCACTTTTTTTAGAATATCTGCAA
1 CCACTTTTTTTAGAATATCTGCAA
*
22837042 CTACTT
1 CCACTT
22837048 CATGAATCTC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.26, C:0.22, G:0.07, T:0.44
Consensus pattern (24 bp):
CCACTTTTTTTAGAATATCTGCAA
Found at i:22840996 original size:35 final size:34
Alignment explanation
Indices: 22840955--22841034 Score: 99
Period size: 35 Copynumber: 2.3 Consensus size: 34
22840945 AGGGAAAATC
* * *
22840955 TAAGGGATTTGGGG-ATTTTGATTTGGGGAAAAAAA
1 TAAGGGATTTGGGGAAATTT--TTAGAGGAAAAAAA
22840990 TAAGGGATTTGGGGAAAATTTTTAGAGGAAAAAAA
1 TAAGGGATTTGGGG-AAATTTTTAGAGGAAAAAAA
22841025 TAAGGGATTT
1 TAAGGGATTT
22841035 CGGAAAACTG
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
35 36 0.90
37 4 0.10
ACGTcount: A:0.39, C:0.00, G:0.31, T:0.30
Consensus pattern (34 bp):
TAAGGGATTTGGGGAAATTTTTAGAGGAAAAAAA
Found at i:22856305 original size:11 final size:11
Alignment explanation
Indices: 22856289--22856327 Score: 57
Period size: 10 Copynumber: 3.8 Consensus size: 11
22856279 GCTTAAGTTT
22856289 AGTTAATTATA
1 AGTTAATTATA
22856300 AGTTAA-T-TA
1 AGTTAATTATA
22856309 AGTTAATTATA
1 AGTTAATTATA
22856320 A-TTAATTA
1 AGTTAATTA
22856328 ATATGCCAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
9 8 0.31
10 9 0.35
11 9 0.35
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (11 bp):
AGTTAATTATA
Found at i:22856312 original size:20 final size:19
Alignment explanation
Indices: 22856289--22856328 Score: 71
Period size: 20 Copynumber: 2.1 Consensus size: 19
22856279 GCTTAAGTTT
22856289 AGTTAATTATAAGTTAATTA
1 AGTTAATTATAA-TTAATTA
22856309 AGTTAATTATAATTAATTA
1 AGTTAATTATAATTAATTA
22856328 A
1 A
22856329 TATGCCAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.45
Consensus pattern (19 bp):
AGTTAATTATAATTAATTA
Found at i:22857312 original size:22 final size:22
Alignment explanation
Indices: 22857280--22857383 Score: 93
Period size: 22 Copynumber: 4.7 Consensus size: 22
22857270 ATGGATTCAA
*
22857280 CACTTCAGTGCTCTCTGTCTAG
1 CACTTTAGTGCTCTCTGTCTAG
*
22857302 CACTTTGGTGCTCTCTG-CTTAG
1 CACTTTAGTGCTCTCTGTC-TAG
* * * *
22857324 CATTTTAGTGCTCTTTATTTAG
1 CACTTTAGTGCTCTCTGTCTAG
* * *
22857346 AACTTCAGTGCTCTCTGTTTAG
1 CACTTTAGTGCTCTCTGTCTAG
* *
22857368 CACTATGGTGCTCTCT
1 CACTTTAGTGCTCTCT
22857384 AGTGTGGTGT
Statistics
Matches: 64, Mismatches: 16, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
21 1 0.02
22 63 0.98
ACGTcount: A:0.14, C:0.25, G:0.18, T:0.42
Consensus pattern (22 bp):
CACTTTAGTGCTCTCTGTCTAG
Found at i:22859800 original size:22 final size:24
Alignment explanation
Indices: 22859755--22859801 Score: 62
Period size: 22 Copynumber: 2.0 Consensus size: 24
22859745 TATATCTAAT
* *
22859755 TTATAATTGTTTATAATATTTATA
1 TTATAATTGTTGATAATATATATA
22859779 TTATAATT-TTGAT-ATATATATA
1 TTATAATTGTTGATAATATATATA
22859801 T
1 T
22859802 GTATGAGATG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 9 0.43
23 4 0.19
24 8 0.38
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.57
Consensus pattern (24 bp):
TTATAATTGTTGATAATATATATA
Found at i:22866710 original size:12 final size:12
Alignment explanation
Indices: 22866693--22866718 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
22866683 AATAAATAAG
22866693 TATAAATACTTA
1 TATAAATACTTA
22866705 TATAAATACTTA
1 TATAAATACTTA
22866717 TA
1 TA
22866719 GGTGATAGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (12 bp):
TATAAATACTTA
Found at i:22867261 original size:4 final size:4
Alignment explanation
Indices: 22867245--22867276 Score: 57
Period size: 4 Copynumber: 8.2 Consensus size: 4
22867235 GGAGGAATAA
22867245 GTAT GTA- GTAT GTAT GTAT GTAT GTAT GTAT G
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT G
22867277 GGGCATAGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.11
4 24 0.89
ACGTcount: A:0.25, C:0.00, G:0.28, T:0.47
Consensus pattern (4 bp):
GTAT
Found at i:22868321 original size:35 final size:35
Alignment explanation
Indices: 22868282--22868352 Score: 108
Period size: 35 Copynumber: 2.0 Consensus size: 35
22868272 TCTAGGATCA
* *
22868282 CATATTTTTGAAGATCCAC-TTCCATATTTGCCAAG
1 CATATCTTTGAAGAT-CACTTTCCATATTTACCAAG
22868317 CATATCTTTGAAGATCACTTTCCATATTTACCAAG
1 CATATCTTTGAAGATCACTTTCCATATTTACCAAG
22868352 C
1 C
22868353 GCCAGAGATA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
34 3 0.09
35 30 0.91
ACGTcount: A:0.30, C:0.24, G:0.10, T:0.37
Consensus pattern (35 bp):
CATATCTTTGAAGATCACTTTCCATATTTACCAAG
Found at i:22868396 original size:60 final size:60
Alignment explanation
Indices: 22868325--22868446 Score: 208
Period size: 60 Copynumber: 2.0 Consensus size: 60
22868315 AGCATATCTT
22868325 TGAAGATCACTTTCCATATTTACCAAGCGCCAGAGATAGGCTTTCAATCTCTCCAAGCAA
1 TGAAGATCACTTTCCATATTTACCAAGCGCCAGAGATAGGCTTTCAATCTCTCCAAGCAA
** * *
22868385 TGAAGATCACTTTCCATATTTACCAAGCTTCAGAGATGGGCTTTCAATTTCTCCAAGCAA
1 TGAAGATCACTTTCCATATTTACCAAGCGCCAGAGATAGGCTTTCAATCTCTCCAAGCAA
22868445 TG
1 TG
22868447 GACCAGTCCG
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
60 58 1.00
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.30
Consensus pattern (60 bp):
TGAAGATCACTTTCCATATTTACCAAGCGCCAGAGATAGGCTTTCAATCTCTCCAAGCAA
Found at i:22870382 original size:144 final size:144
Alignment explanation
Indices: 22870166--22870447 Score: 374
Period size: 144 Copynumber: 2.0 Consensus size: 144
22870156 GTCGAGGCTA
* * *
22870166 ATGCCATGTCCCAGGCATGGTCTTACACTAGCTCTCATCTCAATACCGATACCATGTCCTAGACA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCACAATACCGATACCATGTCCTAAACA
* *
22870231 TGATCTTACATTGGCTCTCATAAT-GTGGCCAATGCCATGTCCCAGACACGGTCTTACACTAGCA
66 TGATCTTACACTGGATCTCAT-ATCGTGGCCAATGCCATGTCCCAGACACGGTCTTACACTAGCA
22870295 CACATATCATTGTCG
130 CACATATCATTGTCG
* * *
22870310 ATGCCATGTCCCAGACATGGTTTTACACTGGCTCTCA-CA-ACATCACCGATGCCATGTTCC-AA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCACA-AT-ACCGATACCATG-TCCTAA
* * * * * *
22870372 ACATGGTCTTACACTGGATCTCATATCGTGGTCGATGCCATGTCCCAGATATGGTCTTACACTGG
63 ACATGATCTTACACTGGATCTCATATCGTGGCCAATGCCATGTCCCAGACACGGTCTTACACTAG
22870437 CACACATATCA
128 CACACATATCA
22870448 CCCAAACGTC
Statistics
Matches: 120, Mismatches: 14, Indels: 8
0.85 0.10 0.06
Matches are distributed among these distances:
142 1 0.01
143 5 0.04
144 111 0.93
145 3 0.03
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.28
Consensus pattern (144 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCACAATACCGATACCATGTCCTAAACA
TGATCTTACACTGGATCTCATATCGTGGCCAATGCCATGTCCCAGACACGGTCTTACACTAGCAC
ACATATCATTGTCG
Found at i:22870445 original size:48 final size:48
Alignment explanation
Indices: 22870115--22870447 Score: 296
Period size: 48 Copynumber: 6.9 Consensus size: 48
22870105 GGGTGAATTA
* * *
22870115 CCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACA-AGTCGA-GG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-TC-ATGG
** * * * *
22870163 CTAATGCCATGTCCCAGGCATGGTCTTACACTAGCTCTCATCTCAAT-A
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATC-ATGG
* * * * *
22870211 CCGATACCATGTCCTAGACATGATCTTACATTGGCTCTCATAAT-GTGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-ATCATGG
* * * * * *
22870259 CCAATGCCATGTCCCAGACACGGTCTTACACTAGCACACATATCATTG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCATGG
* * * * **
22870307 TCGATGCCATGTCCCAGACATGGTTTTACACTGGCTCTCACAACATCA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCATGG
* * * *
22870355 CCGATGCCATGTTCCAAACATGGTCTTACACTGGATCTCATATCGTGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCATGG
* * * *
22870403 TCGATGCCATGTCCCAGATATGGTCTTACACTGGCACACATATCA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCA
22870448 CCCAAACGTC
Statistics
Matches: 219, Mismatches: 61, Indels: 10
0.76 0.21 0.03
Matches are distributed among these distances:
47 3 0.01
48 215 0.98
49 1 0.00
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (48 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCATGG
Found at i:22875690 original size:46 final size:46
Alignment explanation
Indices: 22875623--22875751 Score: 195
Period size: 46 Copynumber: 2.8 Consensus size: 46
22875613 TGTAACCCGC
* * * * *
22875623 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
22875669 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
22875715 CTATAAGTGAACTCGGACTCAACTCAATGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
22875752 TGCTCAACCA
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 76 1.00
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:22878836 original size:21 final size:21
Alignment explanation
Indices: 22878812--22878865 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
22878802 CTATAGAGGC
* *
22878812 ACACACCCGTGTGGAATGGCA
1 ACACGCCCGTGTGGAAGGGCA
22878833 ACACGCCCGTGTGGAAGGGCA
1 ACACGCCCGTGTGGAAGGGCA
22878854 ACACGCCCGTGT
1 ACACGCCCGTGT
22878866 ACCTATTTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.24, C:0.31, G:0.31, T:0.13
Consensus pattern (21 bp):
ACACGCCCGTGTGGAAGGGCA
Found at i:22881512 original size:48 final size:48
Alignment explanation
Indices: 22881395--22881666 Score: 289
Period size: 48 Copynumber: 5.7 Consensus size: 48
22881385 AGGGTGAATT
* * * * * * *
22881395 GCCGATGCCATGTTCCAAACATGGTTTTACACTAGCTCACATGTCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGTG
22881443 GCC-ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-ATCGTG
* * * * *
22881490 GCCAATGCCATGTCCCAGACATGGTCTTACACTAGCGCACATATCAAT-
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATC-GTG
* * * * * *
22881538 GCCGATGCCATGTCCCAGACATGGTCTGACACTGGCTTTCACAGCATC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGTG
* * * *
22881586 ACCGATGCCATATTCCAAACATGGTCTTACACTGGCTCTCATATCGTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGTG
* *
22881634 GCTGATGCCATGTCCTAGACATGGTCTTACACT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACT
22881667 AGCACACATA
Statistics
Matches: 184, Mismatches: 35, Indels: 10
0.80 0.15 0.04
Matches are distributed among these distances:
47 42 0.23
48 141 0.77
49 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGTG
Found at i:22883475 original size:2 final size:2
Alignment explanation
Indices: 22883468--22883509 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
22883458 ATAGCCGAAC
22883468 AT 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 AT
22883510 CAATTATGCA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22884566 original size:28 final size:28
Alignment explanation
Indices: 22884526--22884595 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
22884516 TATAGTAAGT
*
22884526 TCGCACACTTAGTGCT-TAATAATCAAAC
1 TCGCACACTTAGTGCTAT-ACAATCAAAC
*
22884554 TCGCACACTTAGTGCTATACAATTAAAC
1 TCGCACACTTAGTGCTATACAATCAAAC
22884582 TCGCACACTTAGTG
1 TCGCACACTTAGTG
22884596 TCAATCTCAT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
28 38 0.97
29 1 0.03
ACGTcount: A:0.33, C:0.26, G:0.13, T:0.29
Consensus pattern (28 bp):
TCGCACACTTAGTGCTATACAATCAAAC
Found at i:22890184 original size:35 final size:35
Alignment explanation
Indices: 22890144--22890214 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 35
22890134 TTTAAGATCT
** *
22890144 CATATCTTTGAAAATCTCCTTCCATATTTGCCAAG
1 CATATCTTTGAAAATAACCTTCCATATTTACCAAG
* *
22890179 CATATCTTTGAAGATAACTTTCCATATTTACCAAG
1 CATATCTTTGAAAATAACCTTCCATATTTACCAAG
22890214 C
1 C
22890215 TCCGGAGATG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.31, C:0.24, G:0.08, T:0.37
Consensus pattern (35 bp):
CATATCTTTGAAAATAACCTTCCATATTTACCAAG
Found at i:22890760 original size:27 final size:27
Alignment explanation
Indices: 22890722--22890775 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
22890712 AAAAAGGAAA
*
22890722 AGAAGTGACGCTTATGGGAGTTGGCAT
1 AGAAGTGACGCTTATGGGACTTGGCAT
*
22890749 AGAAGTGACGCTTTTGGGACTTGGCAT
1 AGAAGTGACGCTTATGGGACTTGGCAT
22890776 TCCCTCAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.24, C:0.13, G:0.35, T:0.28
Consensus pattern (27 bp):
AGAAGTGACGCTTATGGGACTTGGCAT
Found at i:22891701 original size:30 final size:30
Alignment explanation
Indices: 22891660--22891727 Score: 127
Period size: 30 Copynumber: 2.3 Consensus size: 30
22891650 ATATATTAAT
*
22891660 TTCGGTTCGGTTAATGTATTTGAAAAAAAC
1 TTCGATTCGGTTAATGTATTTGAAAAAAAC
22891690 TTCGATTCGGTTAATGTATTTGAAAAAAAC
1 TTCGATTCGGTTAATGTATTTGAAAAAAAC
22891720 TTCGATTC
1 TTCGATTC
22891728 AATTAACGAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.38
Consensus pattern (30 bp):
TTCGATTCGGTTAATGTATTTGAAAAAAAC
Found at i:22891744 original size:29 final size:30
Alignment explanation
Indices: 22891682--22891745 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 30
22891672 AATGTATTTG
** * **
22891682 AAAAAAACTTCGATTCGGTTAATGTATTTG
1 AAAAAAACTTCGATTCAATTAACGTATTAA
22891712 AAAAAAACTTCGATTCAATTAACG-ATTAA
1 AAAAAAACTTCGATTCAATTAACGTATTAA
22891741 AAAAA
1 AAAAA
22891746 TTTAAATTTC
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 8 0.28
30 21 0.72
ACGTcount: A:0.48, C:0.11, G:0.11, T:0.30
Consensus pattern (30 bp):
AAAAAAACTTCGATTCAATTAACGTATTAA
Found at i:22892911 original size:1 final size:1
Alignment explanation
Indices: 22892905--22892968 Score: 56
Period size: 1 Copynumber: 64.0 Consensus size: 1
22892895 TGTTTCATGG
* * * * * * * *
22892905 TTTTTTTTTGTTTTGTTTTGTTTTTGTTTTGTTTTTGTTTTGTTTTTGTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
22892969 GTTAATGGCG
Statistics
Matches: 47, Mismatches: 16, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 47 1.00
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (1 bp):
T
Found at i:22892929 original size:6 final size:6
Alignment explanation
Indices: 22892905--22892971 Score: 83
Period size: 5 Copynumber: 12.2 Consensus size: 6
22892895 TGTTTCATGG
22892905 TTTT-T TTTTG- TTTTG- TTTTGT TTTTG- TTTTGT TTTTG- TTTTGT
1 TTTTGT TTTTGT TTTTGT TTTTGT TTTTGT TTTTGT TTTTGT TTTTGT
*
22892948 TTTTGT TTTT-T TTTTTT TTTTGT T
1 TTTTGT TTTTGT TTTTGT TTTTGT T
22892972 AATGGCGTGT
Statistics
Matches: 56, Mismatches: 1, Indels: 9
0.85 0.02 0.14
Matches are distributed among these distances:
5 29 0.52
6 27 0.48
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (6 bp):
TTTTGT
Found at i:22892968 original size:11 final size:11
Alignment explanation
Indices: 22892904--22892965 Score: 96
Period size: 11 Copynumber: 6.0 Consensus size: 11
22892894 TTGTTTCATG
22892904 GTTTTT-TTTT
1 GTTTTTGTTTT
22892914 G-TTTTGTTTT
1 GTTTTTGTTTT
22892924 GTTTTTGTTTT
1 GTTTTTGTTTT
22892935 GTTTTTGTTTT
1 GTTTTTGTTTT
22892946 GTTTTTGTTTT
1 GTTTTTGTTTT
22892957 -TTTTT-TTTT
1 GTTTTTGTTTT
22892966 TTTGTTAATG
Statistics
Matches: 50, Mismatches: 0, Indels: 5
0.91 0.00 0.09
Matches are distributed among these distances:
9 8 0.16
10 11 0.22
11 31 0.62
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (11 bp):
GTTTTTGTTTT
Found at i:22896100 original size:18 final size:19
Alignment explanation
Indices: 22896069--22896117 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
22896059 TGATAATCTG
*
22896069 TGTA-TTTGTATTTG-TAT
1 TGTATTTTGTTTTTGTTAT
*
22896086 TGTATTTTGTTTTTGTTTT
1 TGTATTTTGTTTTTGTTAT
22896105 TGT-TTTTGTTTTT
1 TGTATTTTGTTTTT
22896118 TAATTTATCA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 4 0.14
18 19 0.68
19 5 0.18
ACGTcount: A:0.08, C:0.00, G:0.16, T:0.76
Consensus pattern (19 bp):
TGTATTTTGTTTTTGTTAT
Found at i:22896118 original size:7 final size:6
Alignment explanation
Indices: 22896085--22896117 Score: 57
Period size: 6 Copynumber: 5.3 Consensus size: 6
22896075 TGTATTTGTA
22896085 TTGTATT TTGTTT TTGTTT TTGTTT TTGTTT TT
1 TTGT-TT TTGTTT TTGTTT TTGTTT TTGTTT TT
22896118 TAATTTATCA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 22 0.85
7 4 0.15
ACGTcount: A:0.03, C:0.00, G:0.15, T:0.82
Consensus pattern (6 bp):
TTGTTT
Found at i:22917682 original size:43 final size:43
Alignment explanation
Indices: 22917625--22917784 Score: 179
Period size: 43 Copynumber: 3.8 Consensus size: 43
22917615 AATGCCAACA
*
22917625 TCCCAGACGTGGTCTTACATGTAATCAAATATCGATGCCACTG
1 TCCCAGACGTGGTCTTACATGAAATCAAATATCGATGCCACTG
*
22917668 TCCCAGACAG-GGTCTTACATGAAATCAAATA--GATGTCGA-TG
1 TCCCAGAC-GTGGTCTTACATGAAATCAAATATCGATG-CCACTG
* * * *
22917709 TCCCAGACATGGTCTTACACGTAATCTCAA-ATCGATGCCAAC-G
1 TCCCAGACGTGGTCTTACATGAAATC-AAATATCGATGCC-ACTG
*
22917752 TCCCAGACGTGGTCTTACATGAAATCACATATC
1 TCCCAGACGTGGTCTTACATGAAATCAAATATC
22917785 AAAAATCCTA
Statistics
Matches: 96, Mismatches: 12, Indels: 18
0.76 0.10 0.14
Matches are distributed among these distances:
41 29 0.30
42 6 0.06
43 60 0.62
44 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.26
Consensus pattern (43 bp):
TCCCAGACGTGGTCTTACATGAAATCAAATATCGATGCCACTG
Found at i:22917766 original size:84 final size:84
Alignment explanation
Indices: 22917625--22917778 Score: 233
Period size: 84 Copynumber: 1.8 Consensus size: 84
22917615 AATGCCAACA
* *
22917625 TCCCAGACGTGGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAGACAGGGTCTTACATGA
1 TCCCAGACATGGTCTTACACGTAATCAAATATCGATGCCACTGTCCCAGACAGGGTCTTACATGA
22917690 AATCAAATAGATGTCGATG
66 AATCAAATAGATGTCGATG
*
22917709 TCCCAGACATGGTCTTACACGTAATCTCAA-ATCGATGCCAAC-GTCCCAGAC-GTGGTCTTACA
1 TCCCAGACATGGTCTTACACGTAATC-AAATATCGATGCC-ACTGTCCCAGACAG-GGTCTTACA
22917771 TGAAATCA
63 TGAAATCA
22917779 CATATCAAAA
Statistics
Matches: 64, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
83 1 0.02
84 59 0.92
85 4 0.06
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (84 bp):
TCCCAGACATGGTCTTACACGTAATCAAATATCGATGCCACTGTCCCAGACAGGGTCTTACATGA
AATCAAATAGATGTCGATG
Found at i:22919944 original size:96 final size:97
Alignment explanation
Indices: 22919775--22919970 Score: 322
Period size: 96 Copynumber: 2.0 Consensus size: 97
22919765 CGTCAGCTCC
* *
22919775 ATATGTATTGAGTAACTCATCAGTTTTTCTATACCCCAAGTTACAGTTTAAAATCTTTATTGGAT
1 ATATGTATTGAGTAAATCATCAGTTTTTCTATACCCCAAGTTACAGTTTAAAATCTTCATTGGAT
* *
22919840 TGCCAATCAGTTTAGGTTGATGGCATACTAGT
66 TGCCAATCAGATTAAGTTGATGGCATACTAGT
* *
22919872 ATATGTATTGAGTAAATCATTAGTTTTT-TATACCCCACGTTACAGTTTAAAATCTTCATTGGAT
1 ATATGTATTGAGTAAATCATCAGTTTTTCTATACCCCAAGTTACAGTTTAAAATCTTCATTGGAT
*
22919936 TGCTAATCAGATTAAGTTGATGGCATACTAGT
66 TGCCAATCAGATTAAGTTGATGGCATACTAGT
22919968 ATA
1 ATA
22919971 AGTGTTTCCA
Statistics
Matches: 92, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
96 66 0.72
97 26 0.28
ACGTcount: A:0.31, C:0.14, G:0.16, T:0.39
Consensus pattern (97 bp):
ATATGTATTGAGTAAATCATCAGTTTTTCTATACCCCAAGTTACAGTTTAAAATCTTCATTGGAT
TGCCAATCAGATTAAGTTGATGGCATACTAGT
Found at i:22922443 original size:80 final size:80
Alignment explanation
Indices: 22922359--22922507 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
22922349 TATGGTAACC
* * * *
22922359 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
22922423 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
22922439 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
22922504 CCGG
66 CCGG
22922508 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:22922449 original size:40 final size:38
Alignment explanation
Indices: 22922400--22922507 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
22922390 ATCACGATTT
*
22922400 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
22922440 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
22922480 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
22922508 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:22930531 original size:30 final size:30
Alignment explanation
Indices: 22930497--22930557 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
22930487 TCCTTAACTC
22930497 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
22930527 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
22930557 A
1 A
22930558 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:22938587 original size:29 final size:29
Alignment explanation
Indices: 22938554--22938611 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
22938544 TCATTGTGTC
22938554 TATTTTCATATGGAATAAGCAAAACAGGT
1 TATTTTCATATGGAATAAGCAAAACAGGT
22938583 TATTTTCATATGGAATAAGCAAAACAGGT
1 TATTTTCATATGGAATAAGCAAAACAGGT
22938612 AAAGGTTTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.41, C:0.10, G:0.17, T:0.31
Consensus pattern (29 bp):
TATTTTCATATGGAATAAGCAAAACAGGT
Found at i:22953088 original size:40 final size:40
Alignment explanation
Indices: 22953014--22953155 Score: 167
Period size: 40 Copynumber: 3.5 Consensus size: 40
22953004 CCGCACCAAG
* * * * * *
22953014 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
22953054 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * *
22953094 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
*
22953134 GCCTTCGGGTCTTAACCCGGAT
1 GCCTTCGGGTCTTAGCCCGGAT
22953156 GTAATTTTCA
Statistics
Matches: 87, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 87 1.00
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:22953174 original size:40 final size:40
Alignment explanation
Indices: 22953046--22953197 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
22953036 ATCACGATTT
* * * * *
22953046 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
22953086 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
* * * **
22953126 GCACAATTGCCTTCGGGTCTTAACCCGGATGTA-ATTTTCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACT-A
* * *
22953166 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
22953198 CATTCAATTT
Statistics
Matches: 95, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
39 4 0.04
40 89 0.94
41 2 0.02
ACGTcount: A:0.22, C:0.26, G:0.23, T:0.29
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
Found at i:22955472 original size:16 final size:16
Alignment explanation
Indices: 22955451--22955482 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
22955441 GCTCGTGCAA
22955451 TATTAAGTCTAGATGC
1 TATTAAGTCTAGATGC
22955467 TATTAAGTCTAGATGC
1 TATTAAGTCTAGATGC
22955483 AAACATCCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.38
Consensus pattern (16 bp):
TATTAAGTCTAGATGC
Found at i:22957784 original size:292 final size:292
Alignment explanation
Indices: 22957260--22957843 Score: 1080
Period size: 292 Copynumber: 2.0 Consensus size: 292
22957250 TGAGATCAAC
*
22957260 GGATTACCCGTCTGGGCTAAATCCTTTTCTGCAACACATGCAGGATCTCATGTCATGTAAAAAAT
1 GGATTACCCGTCCGGGCTAAATCCTTTTCTGCAACACATGCAGGATCTCATGTCATGTAAAAAAT
*
22957325 GCTTTATCCATCGGATATCCCTTTTTATTCAATCAAGATTTCCTCTTTTCATCAAGTATATCAAT
66 GCTTTATCCATCAGATATCCCTTTTTATTCAATCAAGATTTCCTCTTTTCATCAAGTATATCAAT
22957390 ATGCATAGATGACCATGCAATGTACATTCAATTCAACACATTTTCATGTTTATTTGGGCATTAGT
131 ATGCATAGATGACCATGCAATGTACATTCAATTCAACACATTTTCATGTTTATTTGGGCATTAGT
22957455 CCAAACAAAAAAAAATAACATATCATCTAGTTTTCATACAAACTTATTTATTTCATTTAAAATGT
196 CCAAACAAAAAAAAATAACATATCATCTAGTTTTCATACAAACTTATTTATTTCATTTAAAATGT
22957520 CAATTCCCGTCAAATGTCCATTAACATCAAAT
261 CAATTCCCGTCAAATGTCCATTAACATCAAAT
22957552 GGATTACCCGTCCGGGCTAAATCCTTTTCTGCAACACATGCAGGATCTCATGTCATGTAAAAAAT
1 GGATTACCCGTCCGGGCTAAATCCTTTTCTGCAACACATGCAGGATCTCATGTCATGTAAAAAAT
**
22957617 GCTTTATCCATCAGATATCCCTTTTTATTCAA-CTGGGATTTCCTCTTTTCATCAAGTATATCAA
66 GCTTTATCCATCAGATATCCCTTTTTATTCAATC-AAGATTTCCTCTTTTCATCAAGTATATCAA
22957681 TATGCATAGATGACCATGCAATGTACATTCAATTCAACACATTTTCATGTTTATTTGGGCATTAG
130 TATGCATAGATGACCATGCAATGTACATTCAATTCAACACATTTTCATGTTTATTTGGGCATTAG
* **
22957746 TCCATACAACCAAAAATAACATATCATCTAGTTTTCATACAAACTTATTTATTTCATTTAAAATG
195 TCCAAACAAAAAAAAATAACATATCATCTAGTTTTCATACAAACTTATTTATTTCATTTAAAATG
*
22957811 TCAATTCCCGTCAAATGTCCATTCACATCAAAT
260 TCAATTCCCGTCAAATGTCCATTAACATCAAAT
22957844 TCAATGCAAT
Statistics
Matches: 283, Mismatches: 8, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
291 1 0.00
292 282 1.00
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.35
Consensus pattern (292 bp):
GGATTACCCGTCCGGGCTAAATCCTTTTCTGCAACACATGCAGGATCTCATGTCATGTAAAAAAT
GCTTTATCCATCAGATATCCCTTTTTATTCAATCAAGATTTCCTCTTTTCATCAAGTATATCAAT
ATGCATAGATGACCATGCAATGTACATTCAATTCAACACATTTTCATGTTTATTTGGGCATTAGT
CCAAACAAAAAAAAATAACATATCATCTAGTTTTCATACAAACTTATTTATTTCATTTAAAATGT
CAATTCCCGTCAAATGTCCATTAACATCAAAT
Found at i:22957828 original size:17 final size:17
Alignment explanation
Indices: 22957806--22957848 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
22957796 ATTTCATTTA
* *
22957806 AAATGTCAATTCCCGTC
1 AAATGTCAATTCACATC
*
22957823 AAATGTCCATTCACATC
1 AAATGTCAATTCACATC
22957840 AAAT-TCAAT
1 AAATGTCAAT
22957849 GCAATCATAG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 4 0.18
17 18 0.82
ACGTcount: A:0.37, C:0.26, G:0.07, T:0.30
Consensus pattern (17 bp):
AAATGTCAATTCACATC
Found at i:22962246 original size:27 final size:27
Alignment explanation
Indices: 22962216--22962353 Score: 176
Period size: 27 Copynumber: 5.1 Consensus size: 27
22962206 ACGAAGTCAT
22962216 CAGATACAGATATTGTGGCAGAGCCAC
1 CAGATACAGATATTGTGGCAGAGCCAC
22962243 CAGA-ACAGATATATGTGGCAGAGCCAC
1 CAGATACAGATAT-TGTGGCAGAGCCAC
** *
22962270 CAGAT-CAGATAATCCTGGCATAGCCAC
1 CAGATACAGAT-ATTGTGGCAGAGCCAC
22962297 CAGA-ACAGATATATGTGGCAGAGCCAC
1 CAGATACAGATAT-TGTGGCAGAGCCAC
*
22962324 CAGAT-CAGATAATTGTGGCATAGCCAC
1 CAGATACAGAT-ATTGTGGCAGAGCCAC
22962351 CAG
1 CAG
22962354 GACGCTTCCT
Statistics
Matches: 97, Mismatches: 7, Indels: 14
0.82 0.06 0.12
Matches are distributed among these distances:
26 10 0.10
27 83 0.86
28 4 0.04
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.17
Consensus pattern (27 bp):
CAGATACAGATATTGTGGCAGAGCCAC
Found at i:22962295 original size:54 final size:54
Alignment explanation
Indices: 22962231--22962353 Score: 219
Period size: 54 Copynumber: 2.3 Consensus size: 54
22962221 ACAGATATTG
*
22962231 TGGCAGAGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCC
1 TGGCATAGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCC
**
22962285 TGGCATAGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTG
1 TGGCATAGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCC
22962339 TGGCATAGCCACCAG
1 TGGCATAGCCACCAG
22962354 GACGCTTCCT
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 66 1.00
ACGTcount: A:0.34, C:0.25, G:0.24, T:0.16
Consensus pattern (54 bp):
TGGCATAGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCC
Found at i:22962485 original size:27 final size:26
Alignment explanation
Indices: 22962459--22962532 Score: 85
Period size: 26 Copynumber: 2.8 Consensus size: 26
22962449 AAATTAACCT
*
22962459 TAGGGGTATAACGGTAATTTTGCACC
1 TAGGGGTATAACAGTAATTTTGCACC
* *
22962485 TAGGGGTATAACAGTAATTTTCCATACA
1 TAGGGGTATAACAGTAATTTTGC--ACC
* *
22962513 TAGGGGTATTATAGTAATTT
1 TAGGGGTATAACAGTAATTT
22962533 AACTACTTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
26 21 0.51
28 20 0.49
ACGTcount: A:0.31, C:0.11, G:0.23, T:0.35
Consensus pattern (26 bp):
TAGGGGTATAACAGTAATTTTGCACC
Found at i:22964069 original size:25 final size:26
Alignment explanation
Indices: 22963970--22964077 Score: 191
Period size: 26 Copynumber: 4.2 Consensus size: 26
22963960 ATGAAATTCC
*
22963970 TATCATGGAGCATTTACCTAACCCAT
1 TATCATGGAACATTTACCTAACCCAT
22963996 TATCATGGAACATTTACCTAACCCAT
1 TATCATGGAACATTTACCTAACCCAT
*
22964022 TATCATGAAACATTTACCTAACCCAT
1 TATCATGGAACATTTACCTAACCCAT
22964048 TATCATGGAACA-TTACCTAACCCAT
1 TATCATGGAACATTTACCTAACCCAT
22964073 TATCA
1 TATCA
22964078 ATTTGTATCA
Statistics
Matches: 79, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
25 18 0.23
26 61 0.77
ACGTcount: A:0.35, C:0.27, G:0.07, T:0.31
Consensus pattern (26 bp):
TATCATGGAACATTTACCTAACCCAT
Found at i:22968961 original size:13 final size:13
Alignment explanation
Indices: 22968945--22968977 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
22968935 TTTAATTAAA
*
22968945 TTAGTTAATTAGT
1 TTAGATAATTAGT
22968958 TTAGATAATTAGT
1 TTAGATAATTAGT
22968971 TTA-ATAA
1 TTAGATAA
22968978 ACAAATCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:22976634 original size:49 final size:49
Alignment explanation
Indices: 22976579--22976702 Score: 124
Period size: 49 Copynumber: 2.5 Consensus size: 49
22976569 TGTTGTGTGT
* *
22976579 CAGTGTAAGACTTGTCTGGGACATGACATCGACAC-CGATAGATGAGAGC
1 CAGTGTAAGACATGTCTGGGACATGACATCGAC-CTCGATAGATGAAAGC
* * * * * * * * *
22976628 CCGTGTAAGACCTGTCTAGGATATGGCATCGGCCTTGCTATATGAAAGC
1 CAGTGTAAGACATGTCTGGGACATGACATCGACCTCGATAGATGAAAGC
22976677 CAGTGTAAGACCATGTCTGGGACATG
1 CAGTGTAAGA-CATGTCTGGGACATG
22976703 GCGTCTGTAT
Statistics
Matches: 59, Mismatches: 14, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
48 1 0.02
49 46 0.78
50 12 0.20
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.23
Consensus pattern (49 bp):
CAGTGTAAGACATGTCTGGGACATGACATCGACCTCGATAGATGAAAGC
Found at i:23005396 original size:46 final size:45
Alignment explanation
Indices: 23005329--23005493 Score: 183
Period size: 46 Copynumber: 3.6 Consensus size: 45
23005319 CGCCCCTAAG
*
23005329 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCTCATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGGCGTT-TCATCCATAAA
* *
23005375 TGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-T-CA
1 TGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTTCATCCATAAA
* * * *
23005422 CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGGCGTTT-CATCCATAAA
23005468 TGAACTCGGACTCAACTCAACGAGTT
1 TGAACTCGGACTCAACTCAACGAGTT
23005494 TGGATGCTCA
Statistics
Matches: 100, Mismatches: 10, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 1 0.01
46 53 0.53
47 29 0.29
48 2 0.02
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.23
Consensus pattern (45 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGGCGTTTCATCCATAAA
Done.