Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 327 of 378
Found at i:99399591 original size:21 final size:21
Alignment explanation
Indices: 99399567--99399612 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
99399557 TGATGATTGT
99399567 GACACCACCGGCGGATGTCGC
1 GACACCACCGGCGGATGTCGC
* * *
99399588 GACACCTCTGGTGGATGTCGC
1 GACACCACCGGCGGATGTCGC
99399609 GACA
1 GACA
99399613 TTGAAGTTGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.20, C:0.33, G:0.33, T:0.15
Consensus pattern (21 bp):
GACACCACCGGCGGATGTCGC
Found at i:99419312 original size:17 final size:17
Alignment explanation
Indices: 99419282--99419314 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
99419272 ATTGTTACCC
99419282 TTGTTGATGATGATGAT
1 TTGTTGATGATGATGAT
99419299 TTGTGTGATG-TGATGA
1 TTGT-TGATGATGATGA
99419315 GGCAACGCCT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.21, C:0.00, G:0.33, T:0.45
Consensus pattern (17 bp):
TTGTTGATGATGATGAT
Found at i:99425256 original size:25 final size:25
Alignment explanation
Indices: 99425227--99425275 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
99425217 ATTTTACATC
*
99425227 AATAAAATTAACACAACTTTTTTAA
1 AATAAAATTAACACAAATTTTTTAA
* *
99425252 AATAAAATTAGCATAAATTTTTTA
1 AATAAAATTAACACAAATTTTTTA
99425276 CCTTAATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.51, C:0.08, G:0.02, T:0.39
Consensus pattern (25 bp):
AATAAAATTAACACAAATTTTTTAA
Found at i:99425801 original size:5 final size:5
Alignment explanation
Indices: 99425791--99425819 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
99425781 TCAAAATACA
99425791 ATTTT ATTTT ATTTT ATTTT ATTTT ATTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTT
99425820 AATTAATGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
ATTTT
Found at i:99426150 original size:17 final size:17
Alignment explanation
Indices: 99426096--99426153 Score: 64
Period size: 17 Copynumber: 3.4 Consensus size: 17
99426086 ATTATAATTT
*
99426096 TAATTAGTTTTAAATGTG
1 TAATTA-TTTTAAATGTA
* * *
99426114 TACTTCTATTAAAT-TA
1 TAATTATTTTAAATGTA
99426130 TAATTATTTTAAATGTA
1 TAATTATTTTAAATGTA
99426147 TAATTAT
1 TAATTAT
99426154 CATAAATTTT
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
16 12 0.38
17 16 0.50
18 4 0.12
ACGTcount: A:0.38, C:0.03, G:0.07, T:0.52
Consensus pattern (17 bp):
TAATTATTTTAAATGTA
Found at i:99426159 original size:17 final size:16
Alignment explanation
Indices: 99426123--99426161 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
99426113 GTACTTCTAT
**
99426123 TAAATTATAATTATTT
1 TAAATTATAATTATCA
99426139 TAAATGTATAATTATCA
1 TAAAT-TATAATTATCA
99426156 TAAATT
1 TAAATT
99426162 TTATTTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (16 bp):
TAAATTATAATTATCA
Found at i:99426160 original size:33 final size:34
Alignment explanation
Indices: 99426086--99426161 Score: 84
Period size: 33 Copynumber: 2.2 Consensus size: 34
99426076 CATACTAAAA
* * * *
99426086 ATTATAATTTTAATTAGTTTTAAATGTGTACTTCT
1 ATTA-AATTATAATTAGTTTTAAATGTATAATTAT
99426121 ATTAAATTATAATTA-TTTTAAATGTATAATTAT
1 ATTAAATTATAATTAGTTTTAAATGTATAATTAT
99426154 CA-TAAATT
1 -ATTAAATT
99426162 TTATTTTATT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
33 21 0.58
34 11 0.31
35 4 0.11
ACGTcount: A:0.39, C:0.04, G:0.05, T:0.51
Consensus pattern (34 bp):
ATTAAATTATAATTAGTTTTAAATGTATAATTAT
Found at i:99427083 original size:8 final size:8
Alignment explanation
Indices: 99427070--99427098 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
99427060 TTATGTTTAG
99427070 TATATTAT
1 TATATTAT
99427078 TATATTAT
1 TATATTAT
99427086 TATATTAT
1 TATATTAT
99427094 TATAT
1 TATAT
99427099 AATAAAGATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TATATTAT
Found at i:99427131 original size:5 final size:5
Alignment explanation
Indices: 99427121--99427152 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
99427111 TTATGTTTTA
99427121 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT
99427153 AAACTAAAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATTAT
Found at i:99428418 original size:15 final size:15
Alignment explanation
Indices: 99428398--99428454 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
99428388 CGATGAATTT
99428398 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
99428413 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
99428428 ATTGAATTTATATTG
1 ATTGAATTTATATTG
99428443 ATTGAA-TTATAT
1 ATTGAATTTATAT
99428455 AATATATATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
14 6 0.16
15 32 0.84
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:99428874 original size:21 final size:21
Alignment explanation
Indices: 99428839--99428909 Score: 115
Period size: 21 Copynumber: 3.3 Consensus size: 21
99428829 AGGCACTTTA
99428839 TGTGTCATATTTCAGGCACCTCG
1 TGTGTCATA--TCAGGCACCTCG
99428862 TGTGTCATATCAGGCACCTCG
1 TGTGTCATATCAGGCACCTCG
*
99428883 TGTGTCGTATCAGGCACCTCG
1 TGTGTCATATCAGGCACCTCG
99428904 TGTGTC
1 TGTGTC
99428910 GTTTTAGGCA
Statistics
Matches: 47, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
21 38 0.81
23 9 0.19
ACGTcount: A:0.15, C:0.27, G:0.25, T:0.32
Consensus pattern (21 bp):
TGTGTCATATCAGGCACCTCG
Found at i:99428910 original size:21 final size:21
Alignment explanation
Indices: 99428850--99428934 Score: 116
Period size: 21 Copynumber: 4.0 Consensus size: 21
99428840 GTGTCATATT
*
99428850 TCAGGCACCTCGTGTGTCATA
1 TCAGGCACCTCGTGTGTCGTA
99428871 TCAGGCACCTCGTGTGTCGTA
1 TCAGGCACCTCGTGTGTCGTA
*
99428892 TCAGGCACCTCGTGTGTCGTT
1 TCAGGCACCTCGTGTGTCGTA
* * **
99428913 TTAGGCACTTTATGTGTCGTA
1 TCAGGCACCTCGTGTGTCGTA
99428934 T
1 T
99428935 ACTGATCAGG
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 57 1.00
ACGTcount: A:0.15, C:0.25, G:0.26, T:0.34
Consensus pattern (21 bp):
TCAGGCACCTCGTGTGTCGTA
Found at i:99428919 original size:42 final size:42
Alignment explanation
Indices: 99428826--99428934 Score: 119
Period size: 42 Copynumber: 2.5 Consensus size: 42
99428816 CGCTTTATCG
* * *
99428826 ATCAGGCACTTTATGTGTCATATTTCAGGCACCTCGTGTGTCAT
1 ATCAGGCACCTCATGTGTCGTA--TCAGGCACCTCGTGTGTCAT
* *
99428870 ATCAGGCACCTCGTGTGTCGTATCAGGCACCTCGTGTGTCGT
1 ATCAGGCACCTCATGTGTCGTATCAGGCACCTCGTGTGTCAT
* * * *
99428912 TTTAGGCACTTTATGTGTCGTAT
1 ATCAGGCACCTCATGTGTCGTAT
99428935 ACTGATCAGG
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
42 37 0.67
44 18 0.33
ACGTcount: A:0.17, C:0.23, G:0.24, T:0.36
Consensus pattern (42 bp):
ATCAGGCACCTCATGTGTCGTATCAGGCACCTCGTGTGTCAT
Found at i:99436427 original size:5 final size:5
Alignment explanation
Indices: 99436417--99436448 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
99436407 TTGTGTGTTC
99436417 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
99436449 TCAGAAATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:99436431 original size:9 final size:9
Alignment explanation
Indices: 99436417--99436447 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
99436407 TTGTGTGTTC
99436417 TTTATTTTA
1 TTTATTTTA
99436426 TTTATTTTA
1 TTTATTTTA
99436435 TTTTATTTTA
1 -TTTATTTTA
99436445 TTT
1 TTT
99436448 TTCAGAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:99440783 original size:5 final size:5
Alignment explanation
Indices: 99440773--99440804 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
99440763 TTGTGTGTTC
99440773 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
99440805 TCACATATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:99440787 original size:9 final size:9
Alignment explanation
Indices: 99440773--99440803 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
99440763 TTGTGTGTTC
99440773 TTTATTTTA
1 TTTATTTTA
99440782 TTTATTTTA
1 TTTATTTTA
99440791 TTTTATTTTA
1 -TTTATTTTA
99440801 TTT
1 TTT
99440804 TTCACATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:99441116 original size:19 final size:19
Alignment explanation
Indices: 99441080--99441116 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
99441070 TAATTAGGCT
* *
99441080 TTAATTAAGTGAATTTAGC
1 TTAATTAAGAGAAATTAGC
99441099 TTAATTAAGAGAAATTAG
1 TTAATTAAGAGAAATTAG
99441117 GAAAAATGAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.43, C:0.03, G:0.16, T:0.38
Consensus pattern (19 bp):
TTAATTAAGAGAAATTAGC
Found at i:99441620 original size:19 final size:19
Alignment explanation
Indices: 99441590--99441639 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
99441580 AATAGATATT
** *
99441590 TATTATAATTATTAGTTTTA
1 TATTA-AATTATTAAATTAA
99441610 TATTAAATTATTAAATTAA
1 TATTAAATTATTAAATTAA
99441629 TATTAAATTAT
1 TATTAAATTAT
99441640 ATTGTTATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 22 0.81
20 5 0.19
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (19 bp):
TATTAAATTATTAAATTAA
Found at i:99442205 original size:11 final size:12
Alignment explanation
Indices: 99442189--99442218 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
99442179 AAATTAAAGC
99442189 AGAAATTGAAT-
1 AGAAATTGAATA
99442200 AGAAATTGAATA
1 AGAAATTGAATA
99442212 AGAAATT
1 AGAAATT
99442219 TAAATATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 11 0.61
12 7 0.39
ACGTcount: A:0.57, C:0.00, G:0.17, T:0.27
Consensus pattern (12 bp):
AGAAATTGAATA
Found at i:99443157 original size:18 final size:18
Alignment explanation
Indices: 99443134--99443213 Score: 97
Period size: 18 Copynumber: 4.4 Consensus size: 18
99443124 TGGATAAAGG
* * *
99443134 TACTGAATGACTAACTGT
1 TACTGAATAACTGATTGT
* *
99443152 TACTGAATTATTGATTGT
1 TACTGAATAACTGATTGT
*
99443170 TACTGAATAACTGATTGC
1 TACTGAATAACTGATTGT
*
99443188 TACTGAATAATTGATTGT
1 TACTGAATAACTGATTGT
99443206 TACTGAAT
1 TACTGAAT
99443214 GATACTGATA
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 53 1.00
ACGTcount: A:0.33, C:0.11, G:0.16, T:0.40
Consensus pattern (18 bp):
TACTGAATAACTGATTGT
Found at i:99443174 original size:36 final size:36
Alignment explanation
Indices: 99443134--99443215 Score: 119
Period size: 36 Copynumber: 2.3 Consensus size: 36
99443124 TGGATAAAGG
* *
99443134 TACTGAATGACTAACTGTTACTGAATTATTGATTGT
1 TACTGAATGACTAACTGCTACTGAATAATTGATTGT
* * *
99443170 TACTGAATAACTGATTGCTACTGAATAATTGATTGT
1 TACTGAATGACTAACTGCTACTGAATAATTGATTGT
99443206 TACTGAATGA
1 TACTGAATGA
99443216 TACTGATAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.33, C:0.11, G:0.17, T:0.39
Consensus pattern (36 bp):
TACTGAATGACTAACTGCTACTGAATAATTGATTGT
Found at i:99443219 original size:28 final size:28
Alignment explanation
Indices: 99443179--99443232 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
99443169 TTACTGAATA
* *
99443179 ACTGATTGCTACTGA-ATAATTGATTGTT
1 ACTGAATGATACTGATA-AATTGATTGTT
99443207 ACTGAATGATACTGATAAATTGATTG
1 ACTGAATGATACTGATAAATTGATTG
99443233 ATATTGAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 22 0.96
29 1 0.04
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.39
Consensus pattern (28 bp):
ACTGAATGATACTGATAAATTGATTGTT
Found at i:99446123 original size:21 final size:20
Alignment explanation
Indices: 99446082--99446124 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
99446072 TATGTTCATA
* *
99446082 TACAATTTCAAACTTGCAAT
1 TACAATTTCAAACATACAAT
*
99446102 TACAATTATCAAACATATAAT
1 TACAATT-TCAAACATACAAT
99446123 TA
1 TA
99446125 TGCCACAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.47, C:0.16, G:0.02, T:0.35
Consensus pattern (20 bp):
TACAATTTCAAACATACAAT
Found at i:99446383 original size:97 final size:97
Alignment explanation
Indices: 99446217--99446411 Score: 327
Period size: 97 Copynumber: 2.0 Consensus size: 97
99446207 CACTTTATCA
* * * *
99446217 TATACAATTTGTATCACATACCAAACAGCCAACTTACCTTACTTTTAAATAGGAAATTAACTATT
1 TATACAATTTGTATCACATACCAAACAACCAACTTACCTTAATTTCAAATAGGAAATTAACTATC
* *
99446282 ACATACTTGATCGCTTTAGCTCGATTACACAT
66 ACATACCTGATCACTTTAGCTCGATTACACAT
*
99446314 TATACATTTTGTATCACATACCAAACAACCAACTTACCTTAATTTCAAATAGGAAATTAACTATC
1 TATACAATTTGTATCACATACCAAACAACCAACTTACCTTAATTTCAAATAGGAAATTAACTATC
99446379 ACATACCTGATCACTTTAGCTCGATTACACAT
66 ACATACCTGATCACTTTAGCTCGATTACACAT
99446411 T
1 T
99446412 CGATCACAAC
Statistics
Matches: 91, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
97 91 1.00
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.33
Consensus pattern (97 bp):
TATACAATTTGTATCACATACCAAACAACCAACTTACCTTAATTTCAAATAGGAAATTAACTATC
ACATACCTGATCACTTTAGCTCGATTACACAT
Found at i:99446553 original size:58 final size:56
Alignment explanation
Indices: 99446487--99446641 Score: 181
Period size: 56 Copynumber: 2.8 Consensus size: 56
99446477 ATATCGTACA
* *
99446487 ATGCCAACGTCCCAGACGTGGTCTTACAT-GTAATCACATATATCGGAATCACATATCG
1 ATGCCAACGTACCAAACGTGGTCTTAC-TCG-AA-CACATATATCGGAATCACATATCG
** * *
99446545 ATGCCAACGTATTAAACGTGGTCTTACTCGCACACATATATCGGAATCATATATCG
1 ATGCCAACGTACCAAACGTGGTCTTACTCGAACACATATATCGGAATCACATATCG
** *
99446601 ATGCCAACGTATTAAACGTGGTCTTACTC--CCACATATATCG
1 ATGCCAACGTACCAAACGTGGTCTTACTCGAACACATATATCG
99446642 ATTCCACGTT
Statistics
Matches: 89, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
54 11 0.12
56 52 0.58
57 2 0.02
58 24 0.27
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (56 bp):
ATGCCAACGTACCAAACGTGGTCTTACTCGAACACATATATCGGAATCACATATCG
Found at i:99446641 original size:54 final size:56
Alignment explanation
Indices: 99446521--99446641 Score: 219
Period size: 56 Copynumber: 2.2 Consensus size: 56
99446511 TACATGTAAT
99446521 CACATATATCGGAATCACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGCA
1 CACATATATCGGAATCACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGCA
*
99446577 CACATATATCGGAATCATATATCGATGCCAACGTATTAAACGTGGTCTTACTC-C-
1 CACATATATCGGAATCACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGCA
99446631 CACATATATCG
1 CACATATATCG
99446642 ATTCCACGTT
Statistics
Matches: 64, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
54 11 0.17
55 1 0.02
56 52 0.81
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (56 bp):
CACATATATCGGAATCACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGCA
Found at i:99447615 original size:14 final size:14
Alignment explanation
Indices: 99447596--99447624 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
99447586 CATAATAACC
99447596 TTAATGATTTAATA
1 TTAATGATTTAATA
99447610 TTAATGATTTAATA
1 TTAATGATTTAATA
99447624 T
1 T
99447625 AACAACTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (14 bp):
TTAATGATTTAATA
Found at i:99449016 original size:22 final size:22
Alignment explanation
Indices: 99448991--99449033 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
99448981 TTATATTTTA
99448991 ATTTGTGTA-TTGTTTTAATATC
1 ATTT-TGTATTTGTTTTAATATC
*
99449013 ATTTTTTATTTGTTTTAATAT
1 ATTTTGTATTTGTTTTAATAT
99449034 TTTTTTATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.23, C:0.02, G:0.09, T:0.65
Consensus pattern (22 bp):
ATTTTGTATTTGTTTTAATATC
Found at i:99449047 original size:19 final size:21
Alignment explanation
Indices: 99449001--99449049 Score: 66
Period size: 22 Copynumber: 2.4 Consensus size: 21
99448991 ATTTGTGTAT
*
99449001 TGTTTTAATATCATTTTTTATT
1 TGTTTTAATAT-ATTTTTTATG
99449023 TGTTTTAATAT-TTTTTTATG
1 TGTTTTAATATATTTTTTATG
99449043 T-TTTTAA
1 TGTTTTAA
99449050 ATGTATTTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 6 0.23
20 9 0.35
22 11 0.42
ACGTcount: A:0.22, C:0.02, G:0.06, T:0.69
Consensus pattern (21 bp):
TGTTTTAATATATTTTTTATG
Found at i:99451604 original size:5 final size:5
Alignment explanation
Indices: 99451594--99451622 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
99451584 TTAAAGACTT
99451594 TATAA TATAA TATAA TATAA TATAA TATA
1 TATAA TATAA TATAA TATAA TATAA TATA
99451623 TATGATGTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TATAA
Found at i:99460773 original size:39 final size:37
Alignment explanation
Indices: 99460720--99460807 Score: 86
Period size: 39 Copynumber: 2.3 Consensus size: 37
99460710 ATGCATTTTT
* *
99460720 TTATATATATAATAATAGAACATAAATATTAATAATTACA
1 TTATAAATA-AATAAAAGAACATAAATATTAAT-ATTA-A
** * *
99460760 TTATAAATAAATAAAAGATTATTAATTTTAATATTAA
1 TTATAAATAAATAAAAGAACATAAATATTAATATTAA
99460797 TTATATAATAA
1 TTATA-AATAA
99460808 TTGAAAAAGA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
37 6 0.15
38 9 0.22
39 18 0.44
40 8 0.20
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (37 bp):
TTATAAATAAATAAAAGAACATAAATATTAATATTAA
Found at i:99469613 original size:24 final size:24
Alignment explanation
Indices: 99469586--99469661 Score: 86
Period size: 24 Copynumber: 3.2 Consensus size: 24
99469576 TAAAAAATTG
99469586 TTAATTAGATAAATTAAAATATAT
1 TTAATTAGATAAATTAAAATATAT
* *
99469610 TTAACATTA-TTAAA-TAAAAAAT-T
1 TT-A-ATTAGATAAATTAAAATATAT
99469633 GTTAATTAGATAAATTAAAATATAT
1 -TTAATTAGATAAATTAAAATATAT
99469658 TTAA
1 TTAA
99469662 CATTATTAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
22 4 0.10
23 6 0.14
24 22 0.52
25 6 0.14
26 4 0.10
ACGTcount: A:0.54, C:0.01, G:0.04, T:0.41
Consensus pattern (24 bp):
TTAATTAGATAAATTAAAATATAT
Found at i:99469636 original size:48 final size:48
Alignment explanation
Indices: 99469576--99469672 Score: 194
Period size: 48 Copynumber: 2.0 Consensus size: 48
99469566 AAACAATATT
99469576 TAAAAAATTGTTAATTAGATAAATTAAAATATATTTAACATTATTAAA
1 TAAAAAATTGTTAATTAGATAAATTAAAATATATTTAACATTATTAAA
99469624 TAAAAAATTGTTAATTAGATAAATTAAAATATATTTAACATTATTAAA
1 TAAAAAATTGTTAATTAGATAAATTAAAATATATTTAACATTATTAAA
99469672 T
1 T
99469673 TAAATTAGAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.40
Consensus pattern (48 bp):
TAAAAAATTGTTAATTAGATAAATTAAAATATATTTAACATTATTAAA
Found at i:99469652 original size:22 final size:22
Alignment explanation
Indices: 99469579--99469653 Score: 71
Period size: 22 Copynumber: 3.2 Consensus size: 22
99469569 CAATATTTAA
99469579 AAAATTGTTAATTAGATAAATT
1 AAAATTGTTAATTAGATAAATT
* * *
99469601 AAAATATATTTAACATTA-TTAAATAA
1 AAAAT-T-GTT-A-ATTAGATAAAT-T
99469627 AAAATTGTTAATTAGATAAATT
1 AAAATTGTTAATTAGATAAATT
99469649 AAAAT
1 AAAAT
99469654 ATATTTAACA
Statistics
Matches: 41, Mismatches: 6, Indels: 12
0.69 0.10 0.20
Matches are distributed among these distances:
22 14 0.34
23 7 0.17
24 4 0.10
25 7 0.17
26 9 0.22
ACGTcount: A:0.55, C:0.01, G:0.05, T:0.39
Consensus pattern (22 bp):
AAAATTGTTAATTAGATAAATT
Found at i:99469677 original size:24 final size:25
Alignment explanation
Indices: 99469595--99469676 Score: 100
Period size: 25 Copynumber: 3.4 Consensus size: 25
99469585 GTTAATTAGA
99469595 TAAATTAAAATATATTTAACATTAT
1 TAAATTAAAATATATTTAACATTAT
* *
99469620 TAAA-TAAAA-A-ATTGTTA-ATTAGA
1 TAAATTAAAATATATT-TAACATTA-T
99469643 TAAATTAAAATATATTTAACATTAT
1 TAAATTAAAATATATTTAACATTAT
99469668 TAAATTAAA
1 TAAATTAAA
99469677 TTAGATAGAT
Statistics
Matches: 47, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
22 7 0.15
23 7 0.15
24 10 0.21
25 16 0.34
26 7 0.15
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (25 bp):
TAAATTAAAATATATTTAACATTAT
Found at i:99474433 original size:23 final size:21
Alignment explanation
Indices: 99474383--99474437 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
99474373 ACATGTCACC
*
99474383 AAAA-AAAATATTTCTTACAA
1 AAAATAAAATATTTCTTAAAA
*
99474403 AAAATAAAATATTTTTTAAAA
1 AAAATAAAATATTTCTTAAAA
99474424 AATAATTAAAATAT
1 AA-AA-TAAAATAT
99474438 GCATATAGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
20 4 0.13
21 16 0.53
22 2 0.07
23 8 0.27
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.35
Consensus pattern (21 bp):
AAAATAAAATATTTCTTAAAA
Found at i:99492926 original size:11 final size:11
Alignment explanation
Indices: 99492910--99492934 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
99492900 GAAAACGGTA
99492910 AGTAAAATGTG
1 AGTAAAATGTG
99492921 AGTAAAATGTG
1 AGTAAAATGTG
99492932 AGT
1 AGT
99492935 TTAATTGTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.28, T:0.28
Consensus pattern (11 bp):
AGTAAAATGTG
Found at i:99499279 original size:1 final size:1
Alignment explanation
Indices: 99499273--99499298 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
99499263 GTATGATTTG
99499273 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
99499299 GTAAATGGAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:99504616 original size:48 final size:48
Alignment explanation
Indices: 99504543--99504861 Score: 374
Period size: 48 Copynumber: 6.7 Consensus size: 48
99504533 CAAGATGAAA
* * * *
99504543 GCCAGTGTAATACCATGTCTAGGACATGGCGTCGGTGTTGATATGTGT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGT
* ** *
99504591 GCCAGTGTAAGACCATGTTTGGGACATGGCATTAGCATTGATATGTGT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGT
* * *
99504639 GCCAATGTAAGACCATGTCTAGGACAT-GCATCGGTGTTGATATGTGT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGT
* ** **
99504686 G-CAGTGTAAGAACATGTCTAAGACATGGCATTTGCGTTGATATGTGT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGT
* * * * *
99504733 GCTAGTGTAAGACCATATCTGGGACATGGCATCAGCATTAATATGTGT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGT
* * * * *
99504781 G-CAGTGTAAGACCATGTTTGGGACATGGAATTGGTGATGATATGTGT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGT
*
99504828 GCTAGTGTAAGACCATGTCTGGGACATGGCATCG
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCG
99504862 AAACTGATAT
Statistics
Matches: 224, Mismatches: 44, Indels: 6
0.82 0.16 0.02
Matches are distributed among these distances:
46 22 0.10
47 72 0.32
48 130 0.58
ACGTcount: A:0.25, C:0.15, G:0.29, T:0.30
Consensus pattern (48 bp):
GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGT
Found at i:99504758 original size:142 final size:142
Alignment explanation
Indices: 99504545--99504861 Score: 438
Period size: 142 Copynumber: 2.2 Consensus size: 142
99504535 AGATGAAAGC
* * * * *
99504545 CAGTGTAATACCATGTCTAGGACATGGCGTCGGTGTTGATATGTGTGCCAGTGTAAGACCATGTT
1 CAGTGTAAGACCATGTCTAGGACATGGCATCGGCGTTGATATGTGTGCCAGTGTAAGACCATATC
* * *
99504610 TGGGACATGGCATTAGCATTGATATGTGTGCCAATGTAAGACCATGTCTAGGACAT-GCATCGGT
66 TGGGACATGGCATCAGCATTAATATGTGTG-CAATGTAAGACCATGTCTAGGACATGGAATCGGT
*
99504674 GTTGATATGTGTG
130 GATGATATGTGTG
* * ** *
99504687 CAGTGTAAGAACATGTCTAAGACATGGCATTTGCGTTGATATGTGTGCTAGTGTAAGACCATATC
1 CAGTGTAAGACCATGTCTAGGACATGGCATCGGCGTTGATATGTGTGCCAGTGTAAGACCATATC
* * * *
99504752 TGGGACATGGCATCAGCATTAATATGTGTGCAGTGTAAGACCATGTTTGGGACATGGAATTGGTG
66 TGGGACATGGCATCAGCATTAATATGTGTGCAATGTAAGACCATGTCTAGGACATGGAATCGGTG
99504817 ATGATATGTGTG
131 ATGATATGTGTG
*
99504829 CTAGTGTAAGACCATGTCTGGGACATGGCATCG
1 C-AGTGTAAGACCATGTCTAGGACATGGCATCG
99504862 AAACTGATAT
Statistics
Matches: 150, Mismatches: 23, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
141 22 0.15
142 102 0.68
143 26 0.17
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (142 bp):
CAGTGTAAGACCATGTCTAGGACATGGCATCGGCGTTGATATGTGTGCCAGTGTAAGACCATATC
TGGGACATGGCATCAGCATTAATATGTGTGCAATGTAAGACCATGTCTAGGACATGGAATCGGTG
ATGATATGTGTG
Found at i:99504822 original size:95 final size:94
Alignment explanation
Indices: 99504546--99504861 Score: 409
Period size: 95 Copynumber: 3.3 Consensus size: 94
99504536 GATGAAAGCC
* *
99504546 AGTGTAATACCATGTCTAGGACATGGCGTCGGTGTTGATATGTGTGCCAGTGTAAGACCATGTTT
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGTGTTGATATGTGTG-CAGTGTAAGACCATGTTT
* *
99504611 GGGACATGGCATTAGCATTGATATGTGTGCC
65 GGGACATGGCATTAGGA-TGATATGTGTGCT
* * * *
99504642 AATGTAAGACCATGTCTAGGACAT-GCATCGGTGTTGATATGTGTGCAGTGTAAGAACATGTCTA
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGTGTTGATATGTGTGCAGTGTAAGACCATGTTTG
* * *
99504706 AGACATGGCATTTGCGTTGATATGTGTGCT
66 GGACATGGCATTAG-GATGATATGTGTGCT
* * * ** *
99504736 AGTGTAAGACCATATCTGGGACATGGCATCAGCATTAATATGTGTGCAGTGTAAGACCATGTTTG
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGTGTTGATATGTGTGCAGTGTAAGACCATGTTTG
* *
99504801 GGACATGGAATTGGTGATGATATGTGTGCT
66 GGACATGGCATTAG-GATGATATGTGTGCT
*
99504831 AGTGTAAGACCATGTCTGGGACATGGCATCG
1 AGTGTAAGACCATGTCTAGGACATGGCATCG
99504862 AAACTGATAT
Statistics
Matches: 190, Mismatches: 28, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
94 61 0.32
95 107 0.56
96 22 0.12
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (94 bp):
AGTGTAAGACCATGTCTAGGACATGGCATCGGTGTTGATATGTGTGCAGTGTAAGACCATGTTTG
GGACATGGCATTAGGATGATATGTGTGCT
Found at i:99510763 original size:48 final size:48
Alignment explanation
Indices: 99510644--99511019 Score: 432
Period size: 48 Copynumber: 7.9 Consensus size: 48
99510634 ATGAGATCCT
* * * * * ***
99510644 GTGTAAGACCATGTCTAGGACATGACATTGGCGTCCGAGATGAAAGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGT-TGATATGTGTGCCA
* *
99510693 GTGTAAGACCATGTTTGGGACATGGCATCAGCGTTGATATGTGTGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGTGCCA
** *
99510741 GTGTAAGACCATGTCTAAGACATGGCATCGGTGTTGATATGTGTGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGTGCCA
* * * * *
99510789 ATGTAAGACCATGTCTGGGACATGGCATCAGTGTTGACATGTGTG-TA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGTGCCA
* * * *
99510836 GTGTAAGACCATGTGTGGGACATTGCATCGGCATTGATTTGTGTGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGTGCCA
* *
99510884 GTGTAAGACCATGTTTGGGACATGGCATCAGCGTTGATATGTGTG-CA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGTGCCA
* * * * * **
99510931 GTGTAAGACCATGTTTGGGACATGGCATCGGTGATGATAAGTGCGGTA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGTGCCA
**
99510979 GTGTAAGACCATGTCTGGGACATGGCATCGGCACTGATATG
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATG
99511020 AGACTTCGTA
Statistics
Matches: 279, Mismatches: 46, Indels: 5
0.85 0.14 0.02
Matches are distributed among these distances:
47 80 0.29
48 170 0.61
49 29 0.10
ACGTcount: A:0.25, C:0.16, G:0.31, T:0.28
Consensus pattern (48 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGTGCCA
Found at i:99510883 original size:95 final size:95
Alignment explanation
Indices: 99510644--99511007 Score: 442
Period size: 95 Copynumber: 3.8 Consensus size: 95
99510634 ATGAGATCCT
* * * * * * *** *
99510644 GTGTAAGACCATGTCTAGGACATGACATTGGCGTCCGAGATGAAAGCCAGTGTAAGACCATGTTT
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCAT-TGATATGTGTGCCAGTGTAAGACCATGTCT
99510709 GGGACATGGCATCAGCGTTGATATGTGTGCCA
65 GGGACATGGCATCAGCGTTGATATGTGTG-CA
** ** *
99510741 GTGTAAGACCATGTCTAAGACATGGCATCGGTGTTGATATGTGTGCCAATGTAAGACCATGTCTG
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGTGTGCCAGTGTAAGACCATGTCTG
* * *
99510806 GGACATGGCATCAGTGTTGACATGTGTGTA
66 GGACATGGCATCAGCGTTGATATGTGTGCA
* * * *
99510836 GTGTAAGACCATGTGTGGGACATTGCATCGGCATTGATTTGTGTGCCAGTGTAAGACCATGTTTG
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGTGTGCCAGTGTAAGACCATGTCTG
99510901 GGACATGGCATCAGCGTTGATATGTGTGCA
66 GGACATGGCATCAGCGTTGATATGTGTGCA
* * * * **
99510931 GTGTAAGACCATGTTTGGGACATGGCATCGGTGA-TGATAAGTGCGGTAGTGTAAGACCATGTCT
1 GTGTAAGACCATGTCTGGGACATGGCATCGG-CATTGATATGTGTGCCAGTGTAAGACCATGTCT
99510995 GGGACATGGCATC
65 GGGACATGGCATC
99511008 GGCACTGATA
Statistics
Matches: 231, Mismatches: 35, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
95 150 0.65
96 51 0.22
97 30 0.13
ACGTcount: A:0.25, C:0.16, G:0.31, T:0.28
Consensus pattern (95 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGTGTGCCAGTGTAAGACCATGTCTG
GGACATGGCATCAGCGTTGATATGTGTGCA
Found at i:99511019 original size:95 final size:95
Alignment explanation
Indices: 99510689--99511007 Score: 451
Period size: 95 Copynumber: 3.3 Consensus size: 95
99510679 CGAGATGAAA
*
99510689 GCCAGTGTAAGACCATGTTTGGGACATGGCATCAGCGTTGATATGTGTGCCAGTGTAAGACCATG
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCGTTGATATGTGTG-CAGTGTAAGACCATG
** *
99510754 TCTAAGACATGGCATCGGTGTTGATATGTGT
65 TCTGGGACATGGCATCGGTGATGATATGTGT
* * * *
99510785 GCCAATGTAAGACCATGTCTGGGACATGGCATCAGTGTTGACATGTGTGTAGTGTAAGACCATGT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCGTTGATATGTGTGCAGTGTAAGACCATGT
* * * *
99510850 GTGGGACATTGCATCGG-CATTGATTTGTGT
66 CTGGGACATGGCATCGGTGA-TGATATGTGT
*
99510880 GCCAGTGTAAGACCATGTTTGGGACATGGCATCAGCGTTGATATGTGTGCAGTGTAAGACCATGT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCGTTGATATGTGTGCAGTGTAAGACCATGT
* * *
99510945 TTGGGACATGGCATCGGTGATGATAAGTGC
66 CTGGGACATGGCATCGGTGATGATATGTGT
**
99510975 GGTAGTGTAAGACCATGTCTGGGACATGGCATC
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATC
99511008 GGCACTGATA
Statistics
Matches: 195, Mismatches: 26, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
95 149 0.76
96 46 0.24
ACGTcount: A:0.24, C:0.16, G:0.31, T:0.29
Consensus pattern (95 bp):
GCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCGTTGATATGTGTGCAGTGTAAGACCATGT
CTGGGACATGGCATCGGTGATGATATGTGT
Found at i:99511046 original size:143 final size:143
Alignment explanation
Indices: 99510692--99511019 Score: 469
Period size: 143 Copynumber: 2.3 Consensus size: 143
99510682 GATGAAAGCC
* * *
99510692 AGTGTAAGACCATGTTTGGGACATGGCATCAGCGTTGATATGTGTGCCAGTGTAAGACCATGTCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGTGTGCCAGTGTAAGACCATGTCT
** * *
99510757 AAGACATGGCATCGGTGTTGATATGTGTGCCAATGTAAGACCATGTCTGGGACATGGCATCAGTG
66 GGGACATGGCATCAGCGTTGATATGTGTGCCAATGTAAGACCATGTCTGGGACATGGCATCAGTG
* * *
99510822 TTGACATGTGTGT
131 ATGACAAGTGGGT
* * * *
99510835 AGTGTAAGACCATGTGTGGGACATTGCATCGGCATTGATTTGTGTGCCAGTGTAAGACCATGTTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGTGTGCCAGTGTAAGACCATGTCT
* * *
99510900 GGGACATGGCATCAGCGTTGATATGTGTG-CAGTGTAAGACCATGTTTGGGACATGGCATCGGTG
66 GGGACATGGCATCAGCGTTGATATGTGTGCCAATGTAAGACCATGTCTGGGACATGGCATCAGTG
*
99510964 ATGATAAGTGCGGT
131 ATGACAAGTG-GGT
*
99510978 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACTGATATG
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATG
99511020 AGACTTCGTA
Statistics
Matches: 163, Mismatches: 21, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
142 39 0.24
143 124 0.76
ACGTcount: A:0.24, C:0.16, G:0.31, T:0.29
Consensus pattern (143 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGTGTGCCAGTGTAAGACCATGTCT
GGGACATGGCATCAGCGTTGATATGTGTGCCAATGTAAGACCATGTCTGGGACATGGCATCAGTG
ATGACAAGTGGGT
Found at i:99512099 original size:13 final size:13
Alignment explanation
Indices: 99512077--99512108 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
99512067 GGAATATCAA
99512077 AACAAGAATTAAG
1 AACAAGAATTAAG
*
99512090 AACAATAATTAAG
1 AACAAGAATTAAG
99512103 AACAAG
1 AACAAG
99512109 TCAAATGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.62, C:0.09, G:0.12, T:0.16
Consensus pattern (13 bp):
AACAAGAATTAAG
Found at i:99519681 original size:20 final size:22
Alignment explanation
Indices: 99519656--99519696 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
99519646 ATTTCGTATG
99519656 TTGGCCCATTT-TC-TCCTTTT
1 TTGGCCCATTTCTCGTCCTTTT
*
99519676 TTGGCCCGTTTCTCGTCCTTT
1 TTGGCCCATTTCTCGTCCTTT
99519697 CGCTATCCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 10 0.56
21 2 0.11
22 6 0.33
ACGTcount: A:0.02, C:0.32, G:0.15, T:0.51
Consensus pattern (22 bp):
TTGGCCCATTTCTCGTCCTTTT
Found at i:99531224 original size:42 final size:42
Alignment explanation
Indices: 99531175--99531260 Score: 145
Period size: 42 Copynumber: 2.0 Consensus size: 42
99531165 TCAGTCAAGA
*
99531175 CATAGCTACACAGTGCTTCTTATACAAGCTGCCAAGTAACCG
1 CATAGCTACACAGTGCTTCTTATACAAGCTACCAAGTAACCG
* *
99531217 CATAGCTATACAGTGCTTCTTATACAAGCTACCATGTAACCG
1 CATAGCTACACAGTGCTTCTTATACAAGCTACCAAGTAACCG
99531259 CA
1 CA
99531261 ACATATGCTA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.26
Consensus pattern (42 bp):
CATAGCTACACAGTGCTTCTTATACAAGCTACCAAGTAACCG
Found at i:99533856 original size:24 final size:25
Alignment explanation
Indices: 99533829--99533881 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 25
99533819 ATGTTCAAGC
*
99533829 GAGCC-ATCTTAGGAAACTCACAAA
1 GAGCCTATATTAGGAAACTCACAAA
* * *
99533853 GAGCCTTTATTAGGACACTCATAAA
1 GAGCCTATATTAGGAAACTCACAAA
99533878 GAGC
1 GAGC
99533882 TGTGTTTGTG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 5 0.21
25 19 0.79
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.21
Consensus pattern (25 bp):
GAGCCTATATTAGGAAACTCACAAA
Found at i:99534377 original size:21 final size:20
Alignment explanation
Indices: 99534353--99534392 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
99534343 TTAACGTCAA
*
99534353 TTTAATCCATTTCATATTCAG
1 TTTAATCCAATTCA-ATTCAG
*
99534374 TTTAATTCAATTCAATTCA
1 TTTAATCCAATTCAATTCA
99534393 CATTCTAGGC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.33, C:0.17, G:0.03, T:0.47
Consensus pattern (20 bp):
TTTAATCCAATTCAATTCAG
Found at i:99538751 original size:15 final size:15
Alignment explanation
Indices: 99538733--99538857 Score: 101
Period size: 15 Copynumber: 8.4 Consensus size: 15
99538723 GTTCACACGA
* *
99538733 AGGGTTCACACATAC
1 AGGGTTCGCACATAT
99538748 AGGGTTCGCACATAT
1 AGGGTTCGCACATAT
* * *
99538763 -GGGTTCTCATATGT
1 AGGGTTCGCACATAT
* * *
99538777 AAAGG-TCACACCTAT
1 -AGGGTTCGCACATAT
*
99538792 AGGGTTCGCACATAC
1 AGGGTTCGCACATAT
* **
99538807 ATGGTTCATACATAT
1 AGGGTTCGCACATAT
* *
99538822 AGGGTTTGCATATAT
1 AGGGTTCGCACATAT
99538837 AGGGTTCGCACATAT
1 AGGGTTCGCACATAT
99538852 AGGGTT
1 AGGGTT
99538858 TGAATATTAA
Statistics
Matches: 82, Mismatches: 25, Indels: 6
0.73 0.22 0.05
Matches are distributed among these distances:
14 14 0.17
15 66 0.80
16 2 0.02
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (15 bp):
AGGGTTCGCACATAT
Found at i:99543116 original size:29 final size:28
Alignment explanation
Indices: 99543060--99543115 Score: 69
Period size: 30 Copynumber: 1.9 Consensus size: 28
99543050 CGTAAAAAAT
*
99543060 TAAATTATAAAAATAATTATTTATTTTA
1 TAAATTATAAAAAAAATTATTTATTTTA
99543088 TAAAGTTATAATAAAAAA-TATATTATTT
1 TAAA-TTATAA-AAAAAATTAT-TTATTT
99543116 AAAATACTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 4 0.17
29 9 0.38
30 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (28 bp):
TAAATTATAAAAAAAATTATTTATTTTA
Found at i:99544601 original size:10 final size:10
Alignment explanation
Indices: 99544556--99544646 Score: 64
Period size: 10 Copynumber: 9.0 Consensus size: 10
99544546 AGTAGTTTCT
*
99544556 TTAACAATTA
1 TTAAAAATTA
99544566 TTAAATAATTA
1 TTAAA-AATTA
99544577 -TAGAAAATTA
1 TTA-AAAATTA
99544587 TTTAAAAATTA
1 -TTAAAAATTA
* *
99544598 TTAAGAGTTA
1 TTAAAAATTA
99544608 -TAAAAATTA
1 TTAAAAATTA
* *
99544617 -CAAATAATGA
1 TTAAA-AATTA
99544627 TTAATAAATT-
1 TTAA-AAATTA
99544637 TTAAAAATTA
1 TTAAAAATTA
99544647 CAAAAAATAT
Statistics
Matches: 64, Mismatches: 9, Indels: 16
0.72 0.10 0.18
Matches are distributed among these distances:
9 15 0.23
10 27 0.42
11 19 0.30
12 3 0.05
ACGTcount: A:0.55, C:0.02, G:0.04, T:0.38
Consensus pattern (10 bp):
TTAAAAATTA
Found at i:99552963 original size:23 final size:22
Alignment explanation
Indices: 99552933--99553019 Score: 88
Period size: 23 Copynumber: 3.9 Consensus size: 22
99552923 CTGATGAACA
99552933 GTAAGCTCTATTGAGCTAGAATG
1 GTAAGCTCTATTGAGCT-GAATG
* *
99552956 GTAAGCTCTATCGAGTTGAATAG
1 GTAAGCTCTATTGAGCTGAAT-G
*
99552979 G-AAGCTC-ATATGAGCTGAAACG
1 GTAAGCTCTAT-TGAGCTG-AATG
*
99553001 GTAAGCTCTAATGAGCTGA
1 GTAAGCTCTATTGAGCTGA
99553020 TAACAGTAAG
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
21 2 0.04
22 18 0.34
23 32 0.60
24 1 0.02
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.26
Consensus pattern (22 bp):
GTAAGCTCTATTGAGCTGAATG
Found at i:99577129 original size:43 final size:43
Alignment explanation
Indices: 99577007--99577212 Score: 216
Period size: 43 Copynumber: 4.7 Consensus size: 43
99576997 GCCACAAAAA
* * *
99577007 TTAGCGGCGTTTTTTAGAAAAAAACGCCGCTAAAGACAAGGACCT
1 TTAGCGGCG-CTTTTA-TAAAAAACGCCGCTAAAGACCAGGACCT
*
99577052 TTAGCGGCGCTCTTAT-AAAAACGCCGCTAAAGACCAGGACCT
1 TTAGCGGCGCTTTTATAAAAAACGCCGCTAAAGACCAGGACCT
* * * * * * *
99577094 TTAGCGGTGCTTTTTTAAAAAACGTCGCTATAGACCTGTACTT
1 TTAGCGGCGCTTTTATAAAAAACGCCGCTAAAGACCAGGACCT
* * * * * *
99577137 TTAGCGGCCCTTTTTTAAAAAACGCCGCTATAGACCTGTACTT
1 TTAGCGGCGCTTTTATAAAAAACGCCGCTAAAGACCAGGACCT
99577180 TTAGCGGCGCTTTTATAAAAAAAACGCCGCTAA
1 TTAGCGGCGCTTTTAT--AAAAAACGCCGCTAA
99577213 TTTGCCCAGT
Statistics
Matches: 140, Mismatches: 18, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
42 38 0.27
43 75 0.54
44 4 0.03
45 23 0.16
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (43 bp):
TTAGCGGCGCTTTTATAAAAAACGCCGCTAAAGACCAGGACCT
Found at i:99577538 original size:21 final size:21
Alignment explanation
Indices: 99577514--99577557 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
99577504 GTTCTGCTCT
*
99577514 GCCTCCCTCGCTGCTGCCTCC
1 GCCTCCCTCGATGCTGCCTCC
99577535 GCCTCCCTCGATGCTGCCTCC
1 GCCTCCCTCGATGCTGCCTCC
99577556 GC
1 GC
99577558 TCTAAGTTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.02, C:0.55, G:0.20, T:0.23
Consensus pattern (21 bp):
GCCTCCCTCGATGCTGCCTCC
Found at i:99578144 original size:18 final size:18
Alignment explanation
Indices: 99578112--99578149 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
99578102 TACAATATAG
99578112 TAGTAAAAATATTATTTAA
1 TAGTAAAAATATTA-TTAA
*
99578131 TAGTAAAAA-GTTATTAA
1 TAGTAAAAATATTATTAA
99578148 TA
1 TA
99578150 CTTGATAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 3 0.17
19 9 0.50
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.39
Consensus pattern (18 bp):
TAGTAAAAATATTATTAA
Found at i:99583569 original size:21 final size:21
Alignment explanation
Indices: 99583545--99583584 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
99583535 AAATTAATTC
*
99583545 ATACTTAAGTTGAATCAAATA
1 ATACTTAAGTTGAACCAAATA
99583566 ATACTTAAGTTGAACCAAA
1 ATACTTAAGTTGAACCAAA
99583585 ATATAAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.47, C:0.12, G:0.10, T:0.30
Consensus pattern (21 bp):
ATACTTAAGTTGAACCAAATA
Found at i:99585991 original size:23 final size:23
Alignment explanation
Indices: 99585959--99586002 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
99585949 CTGCAATTTG
99585959 GTATAACATTAACAGGAGAAACA
1 GTATAACATTAACAGGAGAAACA
*
99585982 GTATACCATTAACAGGAGAAA
1 GTATAACATTAACAGGAGAAA
99586003 TAGGACCAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.50, C:0.14, G:0.18, T:0.18
Consensus pattern (23 bp):
GTATAACATTAACAGGAGAAACA
Found at i:99588653 original size:10 final size:11
Alignment explanation
Indices: 99588632--99588682 Score: 57
Period size: 12 Copynumber: 4.3 Consensus size: 11
99588622 ACTAAACCAC
99588632 TTTTCATATATA
1 TTTT-ATATATA
99588644 TATTTATATATA
1 T-TTTATATATA
*
99588656 TTTTAAAATAATA
1 TTTT-ATAT-ATA
99588669 TTTTATATATA
1 TTTTATATATA
99588680 TTT
1 TTT
99588683 ATCTTATATG
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
11 9 0.26
12 15 0.44
13 10 0.29
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (11 bp):
TTTTATATATA
Found at i:99589594 original size:14 final size:14
Alignment explanation
Indices: 99589575--99589614 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
99589565 ATTAAACCTG
* *
99589575 CTTAAACCATATAT
1 CTTAAACCATAAAC
99589589 CTTAAACCATAAAC
1 CTTAAACCATAAAC
*
99589603 CTTAAACTATAA
1 CTTAAACCATAA
99589615 TGATAATTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.47, C:0.23, G:0.00, T:0.30
Consensus pattern (14 bp):
CTTAAACCATAAAC
Found at i:99589804 original size:41 final size:41
Alignment explanation
Indices: 99589758--99590100 Score: 345
Period size: 41 Copynumber: 8.4 Consensus size: 41
99589748 GGTTATGGGA
*
99589758 TTTTTAGCGGCGTTTTAGAAAAAGCGTCGCTAATGCTCTGG
1 TTTTTAGCGGCGTTTTAGAAAAAGCGCCGCTAATGCTCTGG
* *
99589799 TTTTTAGCGGCGTTTTAGCAAAAGTGCCGCTAATGCTCTGG
1 TTTTTAGCGGCGTTTTAGAAAAAGCGCCGCTAATGCTCTGG
*
99589840 TTTTTAGCGGCGTTTTAGCAAAAGCGCCGCTAATGCTCTGG
1 TTTTTAGCGGCGTTTTAGAAAAAGCGCCGCTAATGCTCTGG
***
99589881 TTTTTAGCGGCGTTTTACCTAAA-CAGCCGCTAATGCTCTGG
1 TTTTTAGCGGCGTTTTAGAAAAAGC-GCCGCTAATGCTCTGG
* * * * * * *
99589922 TTTTTTGAGGCGTTTTACG-GAAAGTGTCGCTAATACTCTAG
1 TTTTTAGCGGCGTTTTA-GAAAAAGCGCCGCTAATGCTCTGG
** * * *
99589963 TTTTTAGCGGCAATTTACAGAAAGCGCAGCTAATGCTCTGG
1 TTTTTAGCGGCGTTTTAGAAAAAGCGCCGCTAATGCTCTGG
* *** *
99590004 TTTTTAGCGGAGTTTTACCGAAAGCGCCACTAATGCTCTGG
1 TTTTTAGCGGCGTTTTAGAAAAAGCGCCGCTAATGCTCTGG
* * **
99590045 -TTTTAGCGGCATTTTTGACTAAAA-CGCCGCTGTTGCTCT-G
1 TTTTTAGCGGCGTTTTAGA--AAAAGCGCCGCTAATGCTCTGG
* *
99590085 TTTTTACCGTCGTTTT
1 TTTTTAGCGGCGTTTT
99590101 TTTTAAAACG
Statistics
Matches: 253, Mismatches: 42, Indels: 14
0.82 0.14 0.05
Matches are distributed among these distances:
40 15 0.06
41 235 0.93
42 3 0.01
ACGTcount: A:0.20, C:0.20, G:0.24, T:0.35
Consensus pattern (41 bp):
TTTTTAGCGGCGTTTTAGAAAAAGCGCCGCTAATGCTCTGG
Found at i:99589987 original size:123 final size:123
Alignment explanation
Indices: 99589758--99590048 Score: 385
Period size: 123 Copynumber: 2.4 Consensus size: 123
99589748 GGTTATGGGA
* *
99589758 TTTTTAGCGGCGTTTTA--GAAAAAGCGTCGCTAATGCTCTGGTTTTTAGCGGCGTTTTAGCAAA
1 TTTTTAGCGGCGTTTTACCGAAACAGC--CGCTAATGCTCTGGTTTTTAGAGGCGTTTTAGCAAA
* * ** *
99589821 AGTGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTAGCAAAAGCGCCGCTAATGCTCTGG
64 AGTGCCGCTAATACTCTAGTTTTTAGCGGCAATTTAGCAAAAGCGCAGCTAATGCTCTGG
* * *
99589881 TTTTTAGCGGCGTTTTACCTAAACAGCCGCTAATGCTCTGGTTTTTTGAGGCGTTTTA-CGGAAA
1 TTTTTAGCGGCGTTTTACCGAAACAGCCGCTAATGCTCTGGTTTTTAGAGGCGTTTTAGC-AAAA
*
99589945 GTGTCGCTAATACTCTAGTTTTTAGCGGCAATTTA-CAGAAAGCGCAGCTAATGCTCTGG
65 GTGCCGCTAATACTCTAGTTTTTAGCGGCAATTTAGCA-AAAGCGCAGCTAATGCTCTGG
* *
99590004 TTTTTAGCGGAGTTTTACCGAAAGC-GCCACTAATGCTCTGGTTTT
1 TTTTTAGCGGCGTTTTACCGAAA-CAGCCGCTAATGCTCTGGTTTT
99590049 AGCGGCATTT
Statistics
Matches: 149, Mismatches: 14, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
122 3 0.02
123 139 0.93
124 1 0.01
125 6 0.04
ACGTcount: A:0.21, C:0.20, G:0.25, T:0.34
Consensus pattern (123 bp):
TTTTTAGCGGCGTTTTACCGAAACAGCCGCTAATGCTCTGGTTTTTAGAGGCGTTTTAGCAAAAG
TGCCGCTAATACTCTAGTTTTTAGCGGCAATTTAGCAAAAGCGCAGCTAATGCTCTGG
Found at i:99590101 original size:41 final size:40
Alignment explanation
Indices: 99589991--99590124 Score: 108
Period size: 41 Copynumber: 3.3 Consensus size: 40
99589981 AGAAAGCGCA
* * * * *
99589991 GCTAATGCTCTGGTTTTTAGCGG-AGTTTTACCGAAAGCGCC
1 GCTATTGCTCTGG-TTTTACCGGCATTTTTA-CTAAAACGCC
* * *
99590032 ACTAATGCTCTGGTTTTAGCGGCATTTTTGACTAAAACGCC
1 GCTATTGCTCTGGTTTTACCGGCATTTTT-ACTAAAACGCC
* * * * **
99590073 GCTGTTGCTCTGTTTTTACCGTCGTTTTTTTTAAAACGCC
1 GCTATTGCTCTGGTTTTACCGGCATTTTTACTAAAACGCC
99590113 GCTATTGCTCTG
1 GCTATTGCTCTG
99590125 AATTTTAAAA
Statistics
Matches: 77, Mismatches: 14, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
40 29 0.38
41 47 0.61
42 1 0.01
ACGTcount: A:0.18, C:0.22, G:0.22, T:0.38
Consensus pattern (40 bp):
GCTATTGCTCTGGTTTTACCGGCATTTTTACTAAAACGCC
Found at i:99594825 original size:26 final size:26
Alignment explanation
Indices: 99594796--99594877 Score: 137
Period size: 26 Copynumber: 3.2 Consensus size: 26
99594786 TGATACAAAT
* *
99594796 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
99594822 TGATAATGGGTTAGGTAAATATTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
99594848 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
99594874 TGAT
1 TGAT
99594878 GGGAATTTCA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 52 1.00
ACGTcount: A:0.32, C:0.05, G:0.24, T:0.39
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:99598986 original size:56 final size:57
Alignment explanation
Indices: 99598925--99599079 Score: 231
Period size: 56 Copynumber: 2.7 Consensus size: 57
99598915 TCCCAGACAA
* *
99598925 GGTCTTACTCGCACAAATATATCAGAGTCACATATCGATGCCAACATAT-AAAACGT
1 GGTCTTACTCGCACACATATATCGGAGTCACATATCGATGCCAACATATAAAAACGT
* * *
99598981 TGTCTTACTCGAACACATATATCGGAGTCACATATCGATGCCAACATATAAAAATGT
1 GGTCTTACTCGCACACATATATCGGAGTCACATATCGATGCCAACATATAAAAACGT
* * *
99599038 GGTCTTACTCACACACATATATCGGAATCACATATCAATGCC
1 GGTCTTACTCGCACACATATATCGGAGTCACATATCGATGCC
99599080 TCATATACAT
Statistics
Matches: 88, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
56 45 0.51
57 43 0.49
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.26
Consensus pattern (57 bp):
GGTCTTACTCGCACACATATATCGGAGTCACATATCGATGCCAACATATAAAAACGT
Found at i:99599194 original size:2 final size:2
Alignment explanation
Indices: 99599183--99599212 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
99599173 ATATAATCGA
*
99599183 AT AT AC 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
99599213 CTATGATTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:99601810 original size:40 final size:40
Alignment explanation
Indices: 99601736--99601913 Score: 191
Period size: 40 Copynumber: 4.5 Consensus size: 40
99601726 GAGTCACGTA
** *
99601736 CCTTCGGGAT-TTAA-CCGGATATAACCACAAGCACAATTG
1 CCTTCGGG-TCTTAACCCGGATATAATAACTAGCACAATTG
* * *
99601775 CCTTCGGGTCTTAACCCGGATTTAGTAACTTGCACAATTG
1 CCTTCGGGTCTTAACCCGGATATAATAACTAGCACAATTG
* *
99601815 CCTTCGGGTCTTAACCCGGATATAACAACTCGCACGAA-TG
1 CCTTCGGGTCTTAACCCGGATATAATAACTAGCAC-AATTG
* * * *
99601855 CCTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATG
1 CCTTCGGGTCTTAACCCGGATATAATAACTAGCACAATTG
* *
99601895 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGTCTTAACCCGG
99601914 GTATCATTCA
Statistics
Matches: 119, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
38 1 0.01
39 14 0.12
40 102 0.86
41 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (40 bp):
CCTTCGGGTCTTAACCCGGATATAATAACTAGCACAATTG
Found at i:99611165 original size:66 final size:68
Alignment explanation
Indices: 99611089--99611275 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
99611079 TAGTACCACT
*
99611089 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
99611151 CACG
65 CACG
99611155 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
99611220 ATCACG
63 ATCACG
99611226 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
99611276 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:99611200 original size:71 final size:71
Alignment explanation
Indices: 99611112--99611275 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
99611102 CGATTTGTCT
99611112 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
99611177 CTTTCA
66 CTTTCA
99611183 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
99611248 CTTTCA
66 CTTTCA
99611254 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
99611276 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:99611313 original size:71 final size:70
Alignment explanation
Indices: 99611112--99611309 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
99611102 CGATTTGTCT
* * * *
99611112 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
99611177 CTTTCA
65 CTTTCA
* * * *
99611183 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
99611248 CTTTCA
65 CTTTCA
* *
99611254 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
99611310 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:99618733 original size:66 final size:68
Alignment explanation
Indices: 99618657--99618843 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
99618647 TAGTACCACT
*
99618657 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
99618719 CACG
65 CACG
99618723 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
99618788 ATCACG
63 ATCACG
99618794 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
99618844 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:99618768 original size:71 final size:71
Alignment explanation
Indices: 99618680--99618843 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
99618670 CGATTTGTCT
99618680 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
99618745 CTTTCA
66 CTTTCA
99618751 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
99618816 CTTTCA
66 CTTTCA
99618822 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
99618844 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:99618881 original size:71 final size:70
Alignment explanation
Indices: 99618680--99618877 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
99618670 CGATTTGTCT
* * * *
99618680 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
99618745 CTTTCA
65 CTTTCA
* * * *
99618751 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
99618816 CTTTCA
65 CTTTCA
* *
99618822 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
99618878 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:99622371 original size:8 final size:8
Alignment explanation
Indices: 99622358--99622389 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
99622348 CTAGATCGGC
99622358 AAAAGCCG
1 AAAAGCCG
99622366 AAAAGCCG
1 AAAAGCCG
*
99622374 AAATGCCG
1 AAAAGCCG
99622382 AAAAGCCG
1 AAAAGCCG
99622390 GTATTTTGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.47, C:0.25, G:0.25, T:0.03
Consensus pattern (8 bp):
AAAAGCCG
Found at i:99622845 original size:27 final size:26
Alignment explanation
Indices: 99622805--99622916 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
99622795 AGGAAGAGTC
*
99622805 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
99622832 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
99622859 CTGGTGGCTTTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTG-AT
* * *
99622887 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGAT
99622913 CTGG
1 CTGG
99622917 CAGCCATGCT
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
26 7 0.09
27 51 0.69
28 16 0.22
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:99622909 original size:54 final size:54
Alignment explanation
Indices: 99622805--99622916 Score: 172
Period size: 54 Copynumber: 2.1 Consensus size: 54
99622795 AGGAAGAGTC
*
99622805 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
* * *
99622859 CTGGTGGCTTTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
99622913 CTGG
1 CTGG
99622917 CAGCCATGCT
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
54 35 0.66
55 18 0.34
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:99628556 original size:13 final size:13
Alignment explanation
Indices: 99628540--99628572 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
99628530 TTTAATTAAA
*
99628540 TTAGTTAATTAGT
1 TTAGATAATTAGT
99628553 TTAGATAATTAGT
1 TTAGATAATTAGT
99628566 TTA-ATAA
1 TTAGATAA
99628573 ACAAACCCTT
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:99628863 original size:5 final size:5
Alignment explanation
Indices: 99628853--99628877 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
99628843 TTTTTCTTGC
99628853 AATTT AATTT AATTT AATTT AATTT
1 AATTT AATTT AATTT AATTT AATTT
99628878 TACTATTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
AATTT
Found at i:99630625 original size:28 final size:28
Alignment explanation
Indices: 99630559--99630625 Score: 100
Period size: 28 Copynumber: 2.4 Consensus size: 28
99630549 GTTAATGAAT
*
99630559 ATGGTGCATTTGGATGATTAGAGTGTAG
1 ATGGTGCATTTGGATGATTAGAGTGCAG
*
99630587 ATGGTGTATTTGGATGATTAGAGTGCAG
1 ATGGTGCATTTGGATGATTAGAGTGCAG
99630615 A-GTGTGCATTT
1 ATG-GTGCATTT
99630626 TCGTGCACAA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
27 1 0.03
28 34 0.97
ACGTcount: A:0.24, C:0.04, G:0.34, T:0.37
Consensus pattern (28 bp):
ATGGTGCATTTGGATGATTAGAGTGCAG
Found at i:99630985 original size:27 final size:26
Alignment explanation
Indices: 99630941--99630991 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
99630931 CTCGCTGCAA
*
99630941 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
99630968 TCTGGTGACTTCGTCACAATATCT
1 TCTGGTGACCTCGCCACAATATCT
99630992 AGCAGCCTCG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.18, C:0.27, G:0.20, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:99631490 original size:8 final size:9
Alignment explanation
Indices: 99631466--99631493 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
99631456 CTAAGTTAGT
99631466 TTATTTTTA
1 TTATTTTTA
99631475 TTATTTTTA
1 TTATTTTTA
99631484 TTATTTTTA
1 TTATTTTTA
99631493 T
1 T
99631494 ATTCTGATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (9 bp):
TTATTTTTA
Found at i:99636388 original size:6 final size:6
Alignment explanation
Indices: 99636377--99636453 Score: 74
Period size: 6 Copynumber: 13.7 Consensus size: 6
99636367 AATCCTCCTA
*
99636377 TTTTAT TTTTAT TTTTA- -TTTAT TCTTA- TTTTA- TTTTA- TTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
* * * *
99636420 TCTTAT TCTTAT TTTTCT TTTGAT TTTTAT TTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTT
99636454 CAATTTTCTT
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
4 4 0.07
5 14 0.23
6 42 0.70
ACGTcount: A:0.16, C:0.05, G:0.01, T:0.78
Consensus pattern (6 bp):
TTTTAT
Found at i:99636407 original size:21 final size:22
Alignment explanation
Indices: 99636375--99636452 Score: 90
Period size: 21 Copynumber: 3.5 Consensus size: 22
99636365 TGAATCCTCC
99636375 TATT-TTATTTTTATTTTTA-TT
1 TATTCTTA-TTTTATTTTTATTT
99636396 TATTCTTATTTTA-TTTTATTT
1 TATTCTTATTTTATTTTTATTT
*
99636417 TATTCTTATTCTTATTTTTCTTT
1 TATTCTTATT-TTATTTTTATTT
*
99636440 TGATTTTTATTTT
1 T-ATTCTTATTTT
99636453 TCAATTTTCT
Statistics
Matches: 50, Mismatches: 2, Indels: 8
0.83 0.03 0.13
Matches are distributed among these distances:
20 5 0.10
21 21 0.42
22 6 0.12
23 10 0.20
24 8 0.16
ACGTcount: A:0.17, C:0.05, G:0.01, T:0.77
Consensus pattern (22 bp):
TATTCTTATTTTATTTTTATTT
Found at i:99636425 original size:27 final size:27
Alignment explanation
Indices: 99636375--99636451 Score: 97
Period size: 27 Copynumber: 2.8 Consensus size: 27
99636365 TGAATCCTCC
99636375 TATTTTATTTTTATTTTTATTTATTCT
1 TATTTTATTTTTATTTTTATTTATTCT
99636402 TATTTTA-TTTTA-TTTTATTCTTATTCT
1 TATTTTATTTTTATTTTTA-T-TTATTCT
99636429 TATTTT-TCTTTTGATTTTTATTT
1 TATTTTAT-TTTT-ATTTTTATTT
99636452 TTCAATTTTC
Statistics
Matches: 44, Mismatches: 0, Indels: 11
0.80 0.00 0.20
Matches are distributed among these distances:
25 5 0.11
26 6 0.14
27 20 0.45
28 6 0.14
29 2 0.05
30 5 0.11
ACGTcount: A:0.17, C:0.05, G:0.01, T:0.77
Consensus pattern (27 bp):
TATTTTATTTTTATTTTTATTTATTCT
Found at i:99656802 original size:26 final size:26
Alignment explanation
Indices: 99656773--99656856 Score: 100
Period size: 26 Copynumber: 3.2 Consensus size: 26
99656763 CCAATAAATT
* *
99656773 TTTTGACAATTTTACCCTCGGTAAAA
1 TTTTGACGATTTTACCCTCGATAAAA
*
99656799 TTTTGACGATTTTACTCCT-AATAAAA
1 TTTTGACGATTTTAC-CCTCGATAAAA
*
99656825 TTTTGACGATTTTAGCCC-CGATAAAG
1 TTTTGACGATTTTA-CCCTCGATAAAA
99656851 TTTTGA
1 TTTTGA
99656857 GAAAATTCAT
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
26 46 0.92
27 4 0.08
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (26 bp):
TTTTGACGATTTTACCCTCGATAAAA
Found at i:99657023 original size:11 final size:13
Alignment explanation
Indices: 99656997--99657031 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
99656987 GGATTGCAAG
99656997 TTTCCATTTTTAA
1 TTTCCATTTTTAA
99657010 TTT-CATTTTT-A
1 TTTCCATTTTTAA
99657021 TTTCCATTTTT
1 TTTCCATTTTT
99657032 GGAAACCTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 4 0.19
12 14 0.67
13 3 0.14
ACGTcount: A:0.17, C:0.14, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTCCATTTTTAA
Found at i:99657886 original size:53 final size:53
Alignment explanation
Indices: 99657823--99657928 Score: 212
Period size: 53 Copynumber: 2.0 Consensus size: 53
99657813 TAGAACAATA
99657823 TTAGAACAATACTAGGTATAAAAACTACCCAAATGCGTATGTGGTGCCTTAAG
1 TTAGAACAATACTAGGTATAAAAACTACCCAAATGCGTATGTGGTGCCTTAAG
99657876 TTAGAACAATACTAGGTATAAAAACTACCCAAATGCGTATGTGGTGCCTTAAG
1 TTAGAACAATACTAGGTATAAAAACTACCCAAATGCGTATGTGGTGCCTTAAG
99657929 AGATTAGAAA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.26
Consensus pattern (53 bp):
TTAGAACAATACTAGGTATAAAAACTACCCAAATGCGTATGTGGTGCCTTAAG
Found at i:99659385 original size:27 final size:27
Alignment explanation
Indices: 99659353--99659495 Score: 94
Period size: 27 Copynumber: 5.4 Consensus size: 27
99659343 AAACATACGT
*
99659353 CACATAGGGGCAAAACAATCATTTTAC
1 CACATAAGGGCAAAACAATCATTTTAC
** *
99659380 CACATAAGGGCAAAACTGTCATTTTAT
1 CACATAAGGGCAAAACAATCATTTTAC
* * *
99659407 CATATAAGGGAAAAATC-GTCATTTTA-
1 CACATAAGGGCAAAA-CAATCATTTTAC
* * ** * * *
99659433 -ACACAAGGACAAAACCGTTAATTTAA
1 CACATAAGGGCAAAACAATCATTTTAC
* *
99659459 CACATAAGGGAAAAATAATCATTTTAC
1 CACATAAGGGCAAAACAATCATTTTAC
**
99659486 CTTATAAGGG
1 CACATAAGGG
99659496 TTTACAGTCA
Statistics
Matches: 89, Mismatches: 23, Indels: 8
0.74 0.19 0.07
Matches are distributed among these distances:
24 1 0.01
25 17 0.19
27 70 0.79
28 1 0.01
ACGTcount: A:0.43, C:0.17, G:0.15, T:0.26
Consensus pattern (27 bp):
CACATAAGGGCAAAACAATCATTTTAC
Found at i:99659535 original size:27 final size:27
Alignment explanation
Indices: 99659477--99659661 Score: 248
Period size: 27 Copynumber: 6.9 Consensus size: 27
99659467 GGAAAAATAA
* ** *
99659477 TCATTTTACCTTATAAGGGT-TTACAG
1 TCATTTTACCCTATGGGGGTATTTCAG
* * *
99659503 TCATTTTACCTTATAGGGGTATTACAG
1 TCATTTTACCCTATGGGGGTATTTCAG
99659530 TCATTTTACCCTATGGGGGTATTTCAG
1 TCATTTTACCCTATGGGGGTATTTCAG
* *
99659557 TCATTTTACCATATGGGGGTATTTCGG
1 TCATTTTACCCTATGGGGGTATTTCAG
*
99659584 TCATTTTACCCTATGGGGGTATTTCGG
1 TCATTTTACCCTATGGGGGTATTTCAG
*
99659611 TCATTTTACCCTAT-GGGGTATTTCGG
1 TCATTTTACCCTATGGGGGTATTTCAG
*
99659637 TCATTTTACCCTATGGAGGTATTTC
1 TCATTTTACCCTATGGGGGTATTTC
99659662 GATCATTATT
Statistics
Matches: 149, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
26 45 0.30
27 104 0.70
ACGTcount: A:0.20, C:0.17, G:0.21, T:0.42
Consensus pattern (27 bp):
TCATTTTACCCTATGGGGGTATTTCAG
Found at i:99663084 original size:13 final size:13
Alignment explanation
Indices: 99663062--99663094 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
99663052 AAGGGTTTGT
99663062 TTAT-TAAACTAA
1 TTATCTAAACTAA
99663074 TTATCTAAACTAA
1 TTATCTAAACTAA
*
99663087 TTAACTAA
1 TTATCTAA
99663095 TTTAATTAAA
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:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:99664853 original size:13 final size:13
Alignment explanation
Indices: 99664835--99664863 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
99664825 TTTAGTTTAA
99664835 TTAGTTAATTAGT
1 TTAGTTAATTAGT
99664848 TTAGTTAATTAGT
1 TTAGTTAATTAGT
99664861 TTA
1 TTA
99664864 AGAAACAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (13 bp):
TTAGTTAATTAGT
Found at i:99669995 original size:6 final size:6
Alignment explanation
Indices: 99669980--99670022 Score: 63
Period size: 6 Copynumber: 7.5 Consensus size: 6
99669970 TCCTCCTATC
*
99669980 TTTTTA -TTTTA TTTTTA TTTTTA TTTTT- TTTTTA TTTTCA TTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTT
99670023 CAATTTTATT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
5 10 0.29
6 24 0.71
ACGTcount: A:0.14, C:0.02, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTTA
Found at i:99669996 original size:11 final size:11
Alignment explanation
Indices: 99669980--99670032 Score: 61
Period size: 11 Copynumber: 4.7 Consensus size: 11
99669970 TCCTCCTATC
99669980 TTTTTATTTTA
1 TTTTTATTTTA
99669991 TTTTTATTTTTA
1 TTTTTA-TTTTA
*
99670003 TTTTTTTTTTA
1 TTTTTATTTTA
* *
99670014 TTTTCATTTCA
1 TTTTTATTTTA
*
99670025 ATTTTATT
1 TTTTTATT
99670033 ATTTTGTTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
11 25 0.71
12 10 0.29
ACGTcount: A:0.17, C:0.04, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTTTATTTTA
Found at i:99670002 original size:17 final size:17
Alignment explanation
Indices: 99669980--99670032 Score: 70
Period size: 17 Copynumber: 3.1 Consensus size: 17
99669970 TCCTCCTATC
99669980 TTTTTATTTTATTTTTA
1 TTTTTATTTTATTTTTA
*
99669997 TTTTTATTTTTTTTTTA
1 TTTTTATTTTATTTTTA
* * *
99670014 TTTTCATTTCAATTTTA
1 TTTTTATTTTATTTTTA
99670031 TT
1 TT
99670033 ATTTTGTTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 31 1.00
ACGTcount: A:0.17, C:0.04, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTTATTTTATTTTTA
Found at i:99672958 original size:13 final size:13
Alignment explanation
Indices: 99672940--99672968 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
99672930 TTTATTTTAA
99672940 TTAGTTAATTAGT
1 TTAGTTAATTAGT
99672953 TTAGTTAATTAGT
1 TTAGTTAATTAGT
99672966 TTA
1 TTA
99672969 ATAAACAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (13 bp):
TTAGTTAATTAGT
Found at i:99680386 original size:34 final size:34
Alignment explanation
Indices: 99680343--99680452 Score: 139
Period size: 34 Copynumber: 3.2 Consensus size: 34
99680333 ATAGTGTTAC
99680343 TTGGTGTGCTGGATGGATTAGCTCATATAAGCAT
1 TTGGTGTGCTGGATGGATTAGCTCATATAAGCAT
* * *
99680377 TTGGTGTGCTGGATAGTTTAGCTCATATGAGCAT
1 TTGGTGTGCTGGATGGATTAGCTCATATAAGCAT
* * * * *
99680411 TTGGTGTCCTAGATGGATTGGCTTATAAAAGCAT
1 TTGGTGTGCTGGATGGATTAGCTCATATAAGCAT
*
99680445 CTGGTGTG
1 TTGGTGTG
99680453 TTAGATGGTT
Statistics
Matches: 63, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
34 63 1.00
ACGTcount: A:0.22, C:0.12, G:0.30, T:0.36
Consensus pattern (34 bp):
TTGGTGTGCTGGATGGATTAGCTCATATAAGCAT
Found at i:99682662 original size:49 final size:49
Alignment explanation
Indices: 99682585--99682710 Score: 173
Period size: 49 Copynumber: 2.6 Consensus size: 49
99682575 AGATGCCGAC
* * *
99682585 GCCATGTCCCAGATATGGTCTTACACTGGCTTTTATATAGCGAG-GTTGAT
1 GCCATGTCCCAGACA-GGTCTTACACTGGCTCTCATATAGC-AGTGTTGAT
* *
99682635 GCCATGTCCCAGACAGGTCTTACACTGGCTCTCATCTATCAGTGTTGAT
1 GCCATGTCCCAGACAGGTCTTACACTGGCTCTCATATAGCAGTGTTGAT
*
99682684 TCCATGTCCCAGACAGGTCTTACACTG
1 GCCATGTCCCAGACAGGTCTTACACTG
99682711 ACACACGACA
Statistics
Matches: 69, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
48 2 0.03
49 53 0.77
50 14 0.20
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.31
Consensus pattern (49 bp):
GCCATGTCCCAGACAGGTCTTACACTGGCTCTCATATAGCAGTGTTGAT
Found at i:99682878 original size:48 final size:46
Alignment explanation
Indices: 99682768--99682939 Score: 222
Period size: 46 Copynumber: 3.7 Consensus size: 46
99682758 GTCTATCGCG
* * *
99682768 AGGCTGATGCATGTCCCAGAC-TGTCTTACACTAGCTCTTGTCTTA
1 AGGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTTATCTTA
* * *
99682813 ATGCTGATGCATGTCCCAGACATGTCTTACACTGGCT-TAAATATCTCA
1 AGGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCT---TATCTTA
* *
99682861 AGGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTTG
1 AGGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTTATCTTA
*
99682907 TGGCCGATGCATGTCCCAGACATGTCTTACACT
1 AGGCCGATGCATGTCCCAGACATGTCTTACACT
99682940 AGCATACAAT
Statistics
Matches: 112, Mismatches: 10, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
45 21 0.19
46 50 0.45
48 40 0.36
49 1 0.01
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (46 bp):
AGGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTTATCTTA
Found at i:99682919 original size:94 final size:93
Alignment explanation
Indices: 99682768--99682939 Score: 265
Period size: 94 Copynumber: 1.8 Consensus size: 93
99682758 GTCTATCGCG
* ** *
99682768 AGGCTGATGCATGTCCCAGACTGTCTTACACTAGCTCTTGTCTTAATGCTGATGCATGTCCCAGA
1 AGGCCGATGCATGTCCCAGACTGTCTTACACTAGCTCTCATCTTAATGCCGATGCATGTCCCAGA
99682833 CATGTCTTACACTGGCTTAAATATCTCA
66 CATGTCTTACACTGGCTTAAATATCTCA
* *
99682861 AGGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTT-GTGGCCGATGCATGTCCCA
1 AGGCCGATGCATGTCCCAGAC-TGTCTTACACTAGCTCTCATCTTAAT-GCCGATGCATGTCCCA
99682925 GACATGTCTTACACT
64 GACATGTCTTACACT
99682940 AGCATACAAT
Statistics
Matches: 71, Mismatches: 6, Indels: 3
0.89 0.08 0.04
Matches are distributed among these distances:
93 21 0.30
94 50 0.70
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (93 bp):
AGGCCGATGCATGTCCCAGACTGTCTTACACTAGCTCTCATCTTAATGCCGATGCATGTCCCAGA
CATGTCTTACACTGGCTTAAATATCTCA
Found at i:99683335 original size:19 final size:19
Alignment explanation
Indices: 99683311--99683349 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
99683301 ACCCGAAAAT
99683311 TGATTTTTATCACATTTTC
1 TGATTTTTATCACATTTTC
99683330 TGATTTTTATCACATTTTC
1 TGATTTTTATCACATTTTC
99683349 T
1 T
99683350 CATTAACCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.21, C:0.15, G:0.05, T:0.59
Consensus pattern (19 bp):
TGATTTTTATCACATTTTC
Found at i:99685544 original size:2 final size:2
Alignment explanation
Indices: 99685537--99685573 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
99685527 ATAACTACTA
*
99685537 AT AT AT AT AT AT AT AT AT AT AT AT GT AT -T AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
99685574 TTTTAAAACA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
AT
Found at i:99689000 original size:13 final size:13
Alignment explanation
Indices: 99688982--99689026 Score: 63
Period size: 13 Copynumber: 3.5 Consensus size: 13
99688972 GTTTCCATAC
99688982 GGCTGTACCGCAA
1 GGCTGTACCGCAA
*
99688995 GGCTGTACCGCAC
1 GGCTGTACCGCAA
* *
99689008 GGCCGTACCGCAG
1 GGCTGTACCGCAA
99689021 GGCTGT
1 GGCTGT
99689027 GTCTCCTCCC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.16, C:0.33, G:0.36, T:0.16
Consensus pattern (13 bp):
GGCTGTACCGCAA
Found at i:99704270 original size:79 final size:79
Alignment explanation
Indices: 99704139--99704296 Score: 289
Period size: 79 Copynumber: 2.0 Consensus size: 79
99704129 AGATGTGTAA
*
99704139 ATTCTACTAGTATACGCAAATGTCTACTCACCAGATTCATAGGATTTCATGTCTTTATGAATGTT
1 ATTCTACTAGTATACCCAAATGTCTACTCACCAGATTCATAGGATTTCATGTCTTTATGAATGTT
99704204 GGATATCATGGAAT
66 GGATATCATGGAAT
* *
99704218 ATTCTCCTAGTATACCCAAATGTCTCCTCACCAGATTCATAGGATTTCATGTCTTTATGAATGTT
1 ATTCTACTAGTATACCCAAATGTCTACTCACCAGATTCATAGGATTTCATGTCTTTATGAATGTT
99704283 GGATATCATGGAAT
66 GGATATCATGGAAT
99704297 TTTAATATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
79 76 1.00
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.37
Consensus pattern (79 bp):
ATTCTACTAGTATACCCAAATGTCTACTCACCAGATTCATAGGATTTCATGTCTTTATGAATGTT
GGATATCATGGAAT
Found at i:99709553 original size:2 final size:2
Alignment explanation
Indices: 99709546--99709578 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
99709536 TCTGATTGAT
99709546 TA TA TA TA 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 TA TA TA TA T
99709579 GGGAAGCATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:99709740 original size:15 final size:15
Alignment explanation
Indices: 99709720--99709762 Score: 68
Period size: 15 Copynumber: 2.9 Consensus size: 15
99709710 TGCTGTAAAT
*
99709720 TGGATTTCCTTATCA
1 TGGATTTCTTTATCA
*
99709735 TGGATTTCTTTATCT
1 TGGATTTCTTTATCA
99709750 TGGATTTCTTTAT
1 TGGATTTCTTTAT
99709763 TCTGGGCTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.16, C:0.14, G:0.14, T:0.56
Consensus pattern (15 bp):
TGGATTTCTTTATCA
Found at i:99714880 original size:9 final size:9
Alignment explanation
Indices: 99714866--99714899 Score: 68
Period size: 9 Copynumber: 3.8 Consensus size: 9
99714856 AGGAATTAGG
99714866 GGAGGTGGA
1 GGAGGTGGA
99714875 GGAGGTGGA
1 GGAGGTGGA
99714884 GGAGGTGGA
1 GGAGGTGGA
99714893 GGAGGTG
1 GGAGGTG
99714900 AAGTGTTTCG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.21, C:0.00, G:0.68, T:0.12
Consensus pattern (9 bp):
GGAGGTGGA
Found at i:99722270 original size:2 final size:2
Alignment explanation
Indices: 99722263--99722315 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
99722253 CAGTGGTGCT
99722263 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
99722305 GA GA GA GA GA G
1 GA GA GA GA GA G
99722316 TCACCAGGGA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:99727945 original size:22 final size:22
Alignment explanation
Indices: 99727917--99727962 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
99727907 GGTACAGGTA
*
99727917 TGTGCATAAACTATTCTAGCAT
1 TGTGCATAAACTATTCTAACAT
99727939 TGTGCATAAACTATTCTAACAT
1 TGTGCATAAACTATTCTAACAT
99727961 TG
1 TG
99727963 AATCAAAGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (22 bp):
TGTGCATAAACTATTCTAACAT
Found at i:99728541 original size:2 final size:2
Alignment explanation
Indices: 99728534--99728569 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
99728524 ATTGAAATGG
99728534 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
99728570 AATGCTTTGG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:99731213 original size:17 final size:17
Alignment explanation
Indices: 99731191--99731223 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
99731181 GGAGAGTGAA
99731191 TTATTTTCATCTTTTAT
1 TTATTTTCATCTTTTAT
99731208 TTATTTTCATCTTTTA
1 TTATTTTCATCTTTTA
99731224 GTTTCGAAAT
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:0.18, C:0.12, G:0.00, T:0.70
Consensus pattern (17 bp):
TTATTTTCATCTTTTAT
Found at i:99732723 original size:38 final size:37
Alignment explanation
Indices: 99732681--99732756 Score: 98
Period size: 38 Copynumber: 2.0 Consensus size: 37
99732671 TTACAATCTA
* **
99732681 CTTTAAGATTTCTACCTAAAGTTTTAAGATTGCAACTC
1 CTTTAAGATTTCTACCCAAA-CCTTAAGATTGCAACTC
* *
99732719 CTTTAAGGTTTCTACCCAAACCTTAAGATTGTAACTC
1 CTTTAAGATTTCTACCCAAACCTTAAGATTGCAACTC
99732756 C
1 C
99732757 CTCATGGCTT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
37 15 0.45
38 18 0.55
ACGTcount: A:0.30, C:0.22, G:0.11, T:0.37
Consensus pattern (37 bp):
CTTTAAGATTTCTACCCAAACCTTAAGATTGCAACTC
Found at i:99732755 original size:37 final size:37
Alignment explanation
Indices: 99732681--99732784 Score: 111
Period size: 37 Copynumber: 2.8 Consensus size: 37
99732671 TTACAATCTA
* **
99732681 CTTTAAGATTTCTACCTAAAGTTTTAAGATTGCAACTC
1 CTTTAAGGTTTCTACCTAAA-CCTTAAGATTGCAACTC
* *
99732719 CTTTAAGGTTTCTACCCAAACCTTAAGATTGTAACTC
1 CTTTAAGGTTTCTACCTAAACCTTAAGATTGCAACTC
* * *
99732756 CCTCATGGCTTT-TACCTAAACCTTAAGAT
1 CTTTAAGG-TTTCTACCTAAACCTTAAGAT
99732785 ACAACCCTCT
Statistics
Matches: 56, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
37 35 0.62
38 21 0.38
ACGTcount: A:0.30, C:0.23, G:0.11, T:0.37
Consensus pattern (37 bp):
CTTTAAGGTTTCTACCTAAACCTTAAGATTGCAACTC
Found at i:99733646 original size:19 final size:19
Alignment explanation
Indices: 99733632--99733673 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
99733622 GCATAAAAAT
99733632 TTATAGAAATTATAAAAGAA
1 TTATA-AAATTATAAAAGAA
*
99733652 TTCTAAAATTATAAAAGAA
1 TTATAAAATTATAAAAGAA
99733671 TTA
1 TTA
99733674 GAACTTTGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.57, C:0.02, G:0.07, T:0.33
Consensus pattern (19 bp):
TTATAAAATTATAAAAGAA
Found at i:99733743 original size:27 final size:27
Alignment explanation
Indices: 99733704--99733758 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
99733694 AAATAGAATT
*
99733704 TTTAAAAGTTATAAAATTA-TAAAAAA
1 TTTAAAAGTTATAAAAATATTAAAAAA
*
99733730 TTTACAAATTTATAAAAATATTAAAAAA
1 TTTA-AAAGTTATAAAAATATTAAAAAA
99733758 T
1 T
99733759 AATAGAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 4 0.16
27 13 0.52
28 8 0.32
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (27 bp):
TTTAAAAGTTATAAAAATATTAAAAAA
Found at i:99733854 original size:10 final size:9
Alignment explanation
Indices: 99733839--99733898 Score: 50
Period size: 9 Copynumber: 6.3 Consensus size: 9
99733829 TTCAAAAATT
99733839 ATTATAGAAA
1 ATTATA-AAA
99733849 ATTATAAAA
1 ATTATAAAA
99733858 ATTATTAAAAA
1 ATTA-T-AAAA
*
99733869 ATATTTAAAA
1 AT-TATAAAA
*
99733879 ATTATGAAA
1 ATTATAAAA
*
99733888 A-TATAACA
1 ATTATAAAA
99733896 ATT
1 ATT
99733899 TTTTTTTTAT
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
8 6 0.15
9 14 0.34
10 13 0.32
11 7 0.17
12 1 0.02
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (9 bp):
ATTATAAAA
Found at i:99733857 original size:22 final size:21
Alignment explanation
Indices: 99733832--99733888 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
99733822 ATAATTTTTC
99733832 AAAAATTATTATAGAAAAT-TAT
1 AAAAATTATTA-A-AAAATATAT
*
99733854 AAAAATTATTAAAAAATATTT
1 AAAAATTATTAAAAAATATAT
*
99733875 AAAAATTATGAAAA
1 AAAAATTATTAAAA
99733889 TATAACAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
20 5 0.16
21 16 0.50
22 11 0.34
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (21 bp):
AAAAATTATTAAAAAATATAT
Found at i:99733890 original size:19 final size:20
Alignment explanation
Indices: 99733839--99733892 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 20
99733829 TTCAAAAATT
99733839 ATTATAGAAAAT-TATAAAA
1 ATTATAGAAAATATATAAAA
* *
99733858 ATTATTAAAAAATATTTAAAA
1 ATTA-TAGAAAATATATAAAA
99733879 ATTAT-GAAAATATA
1 ATTATAGAAAATATA
99733893 ACAATTTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 11 0.38
20 8 0.28
21 10 0.34
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (20 bp):
ATTATAGAAAATATATAAAA
Found at i:99734108 original size:10 final size:9
Alignment explanation
Indices: 99734089--99734208 Score: 59
Period size: 10 Copynumber: 12.6 Consensus size: 9
99734079 ATGCTGATTC
99734089 TTTTTCATAA
1 TTTTT-ATAA
99734099 TTTTATATAA
1 TTTT-TATAA
99734109 TTTTTAATAA
1 TTTTT-ATAA
*
99734119 -TTTTCT-A
1 TTTTTATAA
99734126 TTTTTA-ATA
1 TTTTTATA-A
**
99734135 TTGTTTGCAA
1 TT-TTTATAA
99734145 TTTTTATAA
1 TTTTTATAA
*
99734154 GTTTTTA-CA
1 -TTTTTATAA
99734163 TTTTTATATTA
1 TTTTTATA--A
*
99734174 TTTTAAATAAA
1 TTTT-TAT-AA
*
99734185 TTTTAATATA
1 TTTTTATA-A
99734195 TTTTTATAA
1 TTTTTATAA
99734204 TTTTT
1 TTTTT
99734209 CCTTTTTATA
Statistics
Matches: 87, Mismatches: 9, Indels: 29
0.70 0.07 0.23
Matches are distributed among these distances:
7 1 0.01
8 11 0.13
9 21 0.24
10 39 0.45
11 12 0.14
12 2 0.02
13 1 0.01
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (9 bp):
TTTTTATAA
Done.