Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr8
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: 70076365
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3341059 characters in sequence are not A, C, G, or T
File 134 of 210
Found at i:44379231 original size:17 final size:16
Alignment explanation
Indices: 44379160--44379263 Score: 61
Period size: 17 Copynumber: 6.2 Consensus size: 16
44379150 TGTGGTATGA
* *
44379160 ATGAATTATTATATTGT
1 ATGAACTATTAT-TTAT
*
44379177 ATGAACTATTAATTTAA
1 ATGAACTATT-ATTTAT
*
44379194 ATGAACTGTTA-TTAT
1 ATGAACTATTATTTAT
44379209 GCATGAACTATTATTTCAT
1 --ATGAACTATTATTT-AT
* *
44379228 ATGAATTGTTATTT-T
1 ATGAACTATTATTTAT
44379243 ATGCAAACTATCTATTT-T
1 ATG--AACTAT-TATTTAT
44379261 ATG
1 ATG
44379264 TGAACCATTT
Statistics
Matches: 69, Mismatches: 10, Indels: 15
0.73 0.11 0.16
Matches are distributed among these distances:
15 7 0.10
16 1 0.01
17 46 0.67
18 13 0.19
19 2 0.03
ACGTcount: A:0.35, C:0.08, G:0.11, T:0.47
Consensus pattern (16 bp):
ATGAACTATTATTTAT
Found at i:44379252 original size:34 final size:32
Alignment explanation
Indices: 44379179--44379259 Score: 83
Period size: 34 Copynumber: 2.4 Consensus size: 32
44379169 TATATTGTAT
44379179 GAACTATTAATTTAAATGAACTGTTATTATGCA
1 GAACTATT-ATTTAAATGAACTGTTATTATGCA
* *
44379212 TGAACTATTATTTCATATGAATTGTTATTTTATGCA
1 -GAACTATTATTT-AAATGAACTGTTA--TTATGCA
44379248 -AACTATCTATTT
1 GAACTAT-TATTT
44379260 TATGTGAACC
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
33 4 0.10
34 25 0.61
35 5 0.12
36 7 0.17
ACGTcount: A:0.35, C:0.10, G:0.10, T:0.46
Consensus pattern (32 bp):
GAACTATTATTTAAATGAACTGTTATTATGCA
Found at i:44385249 original size:17 final size:17
Alignment explanation
Indices: 44385227--44385259 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
44385217 CACTAACATT
44385227 AAAATGCAATGACAATA
1 AAAATGCAATGACAATA
44385244 AAAATGCAATGACAAT
1 AAAATGCAATGACAAT
44385260 GTACACTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.58, C:0.12, G:0.12, T:0.18
Consensus pattern (17 bp):
AAAATGCAATGACAATA
Found at i:44396134 original size:32 final size:32
Alignment explanation
Indices: 44396093--44396161 Score: 95
Period size: 32 Copynumber: 2.2 Consensus size: 32
44396083 TTGAAAATCT
44396093 AAACTAACAATCTGCACCATTTTT-ATATAACA
1 AAACTAACAATCT-CACCATTTTTGATATAACA
* * *
44396125 AAACTAACAATCTCCCCCTTTTTGATATAACG
1 AAACTAACAATCTCACCATTTTTGATATAACA
44396157 AAACT
1 AAACT
44396162 TTTTGAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
31 8 0.24
32 25 0.76
ACGTcount: A:0.41, C:0.25, G:0.04, T:0.30
Consensus pattern (32 bp):
AAACTAACAATCTCACCATTTTTGATATAACA
Found at i:44396272 original size:17 final size:16
Alignment explanation
Indices: 44396250--44396281 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
44396240 TTATGAAGAC
44396250 ATCATTTATACAAAAAA
1 ATCATTTATA-AAAAAA
44396267 ATCATTTATAAAAAA
1 ATCATTTATAAAAAA
44396282 GCTTGAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.31
Consensus pattern (16 bp):
ATCATTTATAAAAAAA
Found at i:44397759 original size:49 final size:50
Alignment explanation
Indices: 44397650--44397834 Score: 162
Period size: 49 Copynumber: 3.7 Consensus size: 50
44397640 TTATGAGTGG
* * * **
44397650 TCCCACATAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCACGTAAGACCATATCTGGGACATGGCATTGGCACCGAGATGAGAAC
* * * *
44397700 TCCCCCGTAAGACCAT-TCTAGGACATGGCATGGGCACCGATATGAGAAC
1 TCCCACGTAAGACCATATCTGGGACATGGCATTGGCACCGAGATGAGAAC
* * * * *
44397749 TTCCATGTAAGACCATATCTGGGATATGGCATTGGCA--GTACAAGA-AAC
1 TCCCACGTAAGACCATATCTGGGACATGGCATTGGCACCG-AGATGAGAAC
* * * *
44397797 ATCCCATGTAAGACCTTGTCTGGGACATGGCTTTGGCA
1 -TCCCACGTAAGACCATATCTGGGACATGGCATTGGCA
44397835 TGTTATTATC
Statistics
Matches: 111, Mismatches: 21, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
48 4 0.04
49 76 0.68
50 31 0.28
ACGTcount: A:0.28, C:0.24, G:0.26, T:0.22
Consensus pattern (50 bp):
TCCCACGTAAGACCATATCTGGGACATGGCATTGGCACCGAGATGAGAAC
Found at i:44398052 original size:12 final size:12
Alignment explanation
Indices: 44398035--44398073 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
44398025 ATGAGTTATT
44398035 TAAGTAAGCAAG
1 TAAGTAAGCAAG
*
44398047 TAAGTAAACAAG
1 TAAGTAAGCAAG
* *
44398059 TAAGAAAGTAAG
1 TAAGTAAGCAAG
44398071 TAA
1 TAA
44398074 AGAAGAAGCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.56, C:0.05, G:0.21, T:0.18
Consensus pattern (12 bp):
TAAGTAAGCAAG
Found at i:44407339 original size:59 final size:59
Alignment explanation
Indices: 44407272--44407392 Score: 242
Period size: 59 Copynumber: 2.1 Consensus size: 59
44407262 TGATATCATG
44407272 ATGGTATACAAAGGTTATATGCATAGTTGATTTGGTAGGATTTGATCAAGTGGTTGGAA
1 ATGGTATACAAAGGTTATATGCATAGTTGATTTGGTAGGATTTGATCAAGTGGTTGGAA
44407331 ATGGTATACAAAGGTTATATGCATAGTTGATTTGGTAGGATTTGATCAAGTGGTTGGAA
1 ATGGTATACAAAGGTTATATGCATAGTTGATTTGGTAGGATTTGATCAAGTGGTTGGAA
44407390 ATG
1 ATG
44407393 ATTTGAGTGT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 62 1.00
ACGTcount: A:0.31, C:0.05, G:0.29, T:0.36
Consensus pattern (59 bp):
ATGGTATACAAAGGTTATATGCATAGTTGATTTGGTAGGATTTGATCAAGTGGTTGGAA
Found at i:44410126 original size:19 final size:18
Alignment explanation
Indices: 44410092--44410137 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
44410082 AACTGAACAC
*
44410092 AAATAATATTAATAAAAATA
1 AAATAA-ATGAAT-AAAATA
44410112 AAATAAATGAATAAAATA
1 AAATAAATGAATAAAATA
44410130 ATAATAAA
1 A-AATAAA
44410138 CTATGAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 7 0.29
19 11 0.46
20 6 0.25
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (18 bp):
AAATAAATGAATAAAATA
Found at i:44416539 original size:41 final size:41
Alignment explanation
Indices: 44416482--44416564 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
44416472 ATTGGAATTG
44416482 TAGACGACATAATTATCCATCAAAGGATTTGAATTAAATGC
1 TAGACGACATAATTATCCATCAAAGGATTTGAATTAAATGC
*
44416523 TAGACGACATAATTATCCATCGAAGGATTTGAATTAAATGC
1 TAGACGACATAATTATCCATCAAAGGATTTGAATTAAATGC
44416564 T
1 T
44416565 CACTTTGATT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.30
Consensus pattern (41 bp):
TAGACGACATAATTATCCATCAAAGGATTTGAATTAAATGC
Found at i:44425611 original size:18 final size:18
Alignment explanation
Indices: 44425588--44425622 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
44425578 AGATTAGCCT
*
44425588 AAAAATGCAAAACGAAAG
1 AAAAATGCAAAAAGAAAG
*
44425606 AAAAATTCAAAAAGAAA
1 AAAAATGCAAAAAGAAA
44425623 AAGTAATACA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.71, C:0.09, G:0.11, T:0.09
Consensus pattern (18 bp):
AAAAATGCAAAAAGAAAG
Found at i:44427075 original size:26 final size:27
Alignment explanation
Indices: 44426902--44427072 Score: 182
Period size: 27 Copynumber: 6.4 Consensus size: 27
44426892 GGTATAACAT
* **
44426902 TCATTTTACCCAATATGGGTATTTCGG
1 TCATTTTACCCTATGGGGGTATTTCGG
* * *
44426929 TCATTTTACCTTATGGGAGAATTTCGG
1 TCATTTTACCCTATGGGGGTATTTCGG
* * * *
44426956 TCATTCTACCCTACGGAGGTATTTTGG
1 TCATTTTACCCTATGGGGGTATTTCGG
* * *
44426983 TCATTTTACCTTATAGGGGTATTTTGG
1 TCATTTTACCCTATGGGGGTATTTCGG
** *
44427010 TCATTTTACCCTAACGGGGTATTT-TG
1 TCATTTTACCCTATGGGGGTATTTCGG
*
44427036 TCATTTTACCCTATGGGGGTATTTCAG
1 TCATTTTACCCTATGGGGGTATTTCGG
44427063 TCATTTTACC
1 TCATTTTACC
44427073 TATTTTAGGG
Statistics
Matches: 118, Mismatches: 25, Indels: 2
0.81 0.17 0.01
Matches are distributed among these distances:
26 23 0.19
27 95 0.81
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.42
Consensus pattern (27 bp):
TCATTTTACCCTATGGGGGTATTTCGG
Found at i:44435417 original size:13 final size:13
Alignment explanation
Indices: 44435391--44435432 Score: 50
Period size: 12 Copynumber: 3.2 Consensus size: 13
44435381 GAAGATTAAT
44435391 AAAATAAACTAGTAA
1 AAAATAAA--AGTAA
44435406 AAAATAAAAGT-A
1 AAAATAAAAGTAA
*
44435418 AAAATAAAAATAA
1 AAAATAAAAGTAA
44435431 AA
1 AA
44435433 TTTTAAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
12 11 0.44
13 6 0.24
15 8 0.32
ACGTcount: A:0.76, C:0.02, G:0.05, T:0.17
Consensus pattern (13 bp):
AAAATAAAAGTAA
Found at i:44441921 original size:44 final size:45
Alignment explanation
Indices: 44441871--44441987 Score: 164
Period size: 44 Copynumber: 2.6 Consensus size: 45
44441861 AGAAACGAGA
* * *
44441871 AAGACCATAGTTGAAAGATACTATGGCATTAAACC-GGAATGTAT
1 AAGACCATAGTTGAAAGATACTATGGCATTAAACCAGAAATGAAC
*** *
44441915 AAGACCATAGTTGAAAGATACTATAAAATTATACCAGAAATGAAC
1 AAGACCATAGTTGAAAGATACTATGGCATTAAACCAGAAATGAAC
44441960 AAGACCATAGTTGAAAGATACTATGGCA
1 AAGACCATAGTTGAAAGATACTATGGCA
44441988 ATACATCGGA
Statistics
Matches: 62, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
44 31 0.50
45 31 0.50
ACGTcount: A:0.45, C:0.14, G:0.18, T:0.23
Consensus pattern (45 bp):
AAGACCATAGTTGAAAGATACTATGGCATTAAACCAGAAATGAAC
Found at i:44444496 original size:20 final size:19
Alignment explanation
Indices: 44444447--44444483 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
44444437 TACGGGATTG
*
44444447 CACTTCACTGCCTCTGTTA
1 CACTTCAGTGCCTCTGTTA
44444466 CACTTCAGTGCCTCTGTT
1 CACTTCAGTGCCTCTGTT
44444484 TGCACTTTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.14, C:0.35, G:0.14, T:0.38
Consensus pattern (19 bp):
CACTTCAGTGCCTCTGTTA
Found at i:44447885 original size:50 final size:49
Alignment explanation
Indices: 44447831--44447926 Score: 129
Period size: 50 Copynumber: 1.9 Consensus size: 49
44447821 TATTGAGGTT
* * * * *
44447831 ATGAGAGGTCCCACGTCAGACCATGTTTGGGACATGGCGTTGGCACCAAG
1 ATGAGAGGTCCCACATAAGACCATGTCT-GGACATGGCATGGGCACCAAG
*
44447881 ATGAGAGGTCCCCCATAAGACCATGTCTGGACATGGCATGGGCACC
1 ATGAGAGGTCCCACATAAGACCATGTCTGGACATGGCATGGGCACC
44447927 GATATAAGAA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
49 16 0.40
50 24 0.60
ACGTcount: A:0.25, C:0.26, G:0.30, T:0.19
Consensus pattern (49 bp):
ATGAGAGGTCCCACATAAGACCATGTCTGGACATGGCATGGGCACCAAG
Found at i:44448240 original size:12 final size:12
Alignment explanation
Indices: 44448223--44448261 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
44448213 ATGAGTTATT
44448223 TAAGTAAGCAAG
1 TAAGTAAGCAAG
*
44448235 TAAGTAAACAAG
1 TAAGTAAGCAAG
*
44448247 TAAGAAAGCAAG
1 TAAGTAAGCAAG
44448259 TAA
1 TAA
44448262 AGAAAAAGCA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.56, C:0.08, G:0.21, T:0.15
Consensus pattern (12 bp):
TAAGTAAGCAAG
Found at i:44455360 original size:50 final size:50
Alignment explanation
Indices: 44455237--44455362 Score: 146
Period size: 50 Copynumber: 2.5 Consensus size: 50
44455227 GAGGTCCTAC
* * * **
44455237 GTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCA
1 GTAAGACCATGTTTGGGACATGGCATGGGAACCGAGATGAGAACTCCCCA
* *
44455287 GTAAGACCATGTTGGGGACATGGCATGGGAACCGATATGAGAACT-CCCA
1 GTAAGACCATGTTTGGGACATGGCATGGGAACCGAGATGAGAACTCCCCA
* * *
44455336 TGTAAGACCATATTTGGTATATGGCAT
1 -GTAAGACCATGTTTGGGACATGGCAT
44455363 TGGCAGTACA
Statistics
Matches: 64, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
49 4 0.06
50 60 0.94
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (50 bp):
GTAAGACCATGTTTGGGACATGGCATGGGAACCGAGATGAGAACTCCCCA
Found at i:44462903 original size:25 final size:24
Alignment explanation
Indices: 44462873--44462936 Score: 65
Period size: 25 Copynumber: 2.5 Consensus size: 24
44462863 TCTTAATCCA
**
44462873 TATAACAGGAAGCTCATGTGAGCTG
1 TATAAC-GGAAGCTCATCCGAGCTG
* *
44462898 TATAACGGAAAGCTTATCCGGGCTG
1 TATAACGG-AAGCTCATCCGAGCTG
44462923 TATAACGGGAAGCT
1 TATAAC-GGAAGCT
44462937 TATAAGAGCC
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
24 2 0.06
25 29 0.88
26 2 0.06
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.23
Consensus pattern (24 bp):
TATAACGGAAGCTCATCCGAGCTG
Found at i:44466856 original size:42 final size:41
Alignment explanation
Indices: 44466809--44466951 Score: 141
Period size: 41 Copynumber: 3.5 Consensus size: 41
44466799 CAGTGCCTAT
*
44466809 CAGGCTTAA-TGCCAGTGAAACAATATCAGACTTTACGTCTAG
1 CAGGC-TAAGTGCCAGTGAAAC-ATATCAGACTTTAAGTCTAG
* * * *
44466851 CAGGCTTAA-TGCCGGTGAAACATTTCAGACTATATGTCTAG
1 CAGGC-TAAGTGCCAGTGAAACATATCAGACTTTAAGTCTAG
* * *
44466892 CAGGCTAAGTGCCGGTG-TAC-TGAATCAGGCTTTAAGTCTAG
1 CAGGCTAAGTGCCAGTGAAACAT--ATCAGACTTTAAGTCTAG
44466933 CAGGCTAAGTGCCAGTGAA
1 CAGGCTAAGTGCCAGTGAA
44466952 TCTGTTTAAA
Statistics
Matches: 86, Mismatches: 11, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
39 1 0.01
40 5 0.06
41 60 0.70
42 20 0.23
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.26
Consensus pattern (41 bp):
CAGGCTAAGTGCCAGTGAAACATATCAGACTTTAAGTCTAG
Found at i:44475792 original size:23 final size:22
Alignment explanation
Indices: 44475749--44475792 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
44475739 TTCTAAGCCG
44475749 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
44475772 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
44475793 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:44476041 original size:51 final size:51
Alignment explanation
Indices: 44475934--44476062 Score: 147
Period size: 51 Copynumber: 2.5 Consensus size: 51
44475924 TTCAGTTTAC
* * *
44475934 ATAGTAGCCTACACATAGTACTACACATGTGACCATTACCATCCGATATACG
1 ATAGTAGCCTGCACATAGTACTACACACGTGACCATAACCATCC-ATATACG
* * *
44475986 -TAGTAGCCTGCACATAGTACTACACACGTGATCGA-AACTATCC-TGTACG
1 ATAGTAGCCTGCACATAGTACTACACACGTGA-CCATAACCATCCATATACG
*
44476035 AATAGTAGTCTGCACATAGTACTACACA
1 -ATAGTAGCCTGCACATAGTACTACACA
44476063 TGCGACCTAT
Statistics
Matches: 67, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
49 5 0.07
51 60 0.90
52 2 0.03
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.25
Consensus pattern (51 bp):
ATAGTAGCCTGCACATAGTACTACACACGTGACCATAACCATCCATATACG
Found at i:44480086 original size:32 final size:32
Alignment explanation
Indices: 44480045--44480111 Score: 125
Period size: 32 Copynumber: 2.1 Consensus size: 32
44480035 AGTGGCACTG
44480045 AATTAATCTTTGATACAGACACTTTAGTATAC
1 AATTAATCTTTGATACAGACACTTTAGTATAC
*
44480077 AATTAATCTTTGATTCAGACACTTTAGTATAC
1 AATTAATCTTTGATACAGACACTTTAGTATAC
44480109 AAT
1 AAT
44480112 AGAAAAGTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.37, C:0.15, G:0.09, T:0.39
Consensus pattern (32 bp):
AATTAATCTTTGATACAGACACTTTAGTATAC
Found at i:44483468 original size:25 final size:25
Alignment explanation
Indices: 44483440--44483530 Score: 60
Period size: 25 Copynumber: 3.7 Consensus size: 25
44483430 TCTTGAGCCA
*
44483440 TATAATAGGAAGCTCATATGAGCTG
1 TATAATAGGAAGCTCATAAGAGCTG
** * ** *
44483465 TATAACGGGAAGCTTATCCGGGCTG
1 TATAATAGGAAGCTCATAAGAGCTG
* **
44483490 TATAA-CGAGAAGCTCATAAGAGCCA
1 TATAATAG-GAAGCTCATAAGAGCTG
*
44483515 TAT-TTAGGAAGCTCAT
1 TATAATAGGAAGCTCAT
44483531 GCAAGCCAAT
Statistics
Matches: 49, Mismatches: 15, Indels: 5
0.71 0.22 0.07
Matches are distributed among these distances:
24 10 0.20
25 39 0.80
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.25
Consensus pattern (25 bp):
TATAATAGGAAGCTCATAAGAGCTG
Found at i:44483671 original size:26 final size:25
Alignment explanation
Indices: 44483606--44483672 Score: 75
Period size: 26 Copynumber: 2.7 Consensus size: 25
44483596 CAGTTCAAGT
44483606 GAGCCA-T-ATCGGGAAGCTCTAAA
1 GAGCCATTAATCGGGAAGCTCTAAA
* **
44483629 GATCCATTAATTAGGAAGCTCATAAA
1 GAGCCATTAATCGGGAAGCTC-TAAA
*
44483655 GAGCCTTTAATCGGGAAG
1 GAGCCATTAATCGGGAAG
44483673 TTCACGAAGA
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
23 5 0.15
24 1 0.03
25 10 0.29
26 18 0.53
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.22
Consensus pattern (25 bp):
GAGCCATTAATCGGGAAGCTCTAAA
Found at i:44485162 original size:11 final size:11
Alignment explanation
Indices: 44485146--44485200 Score: 78
Period size: 11 Copynumber: 5.2 Consensus size: 11
44485136 TTTTCAAAAC
44485146 TTTTAAACTAT
1 TTTTAAACTAT
44485157 TTTTAAACTAT
1 TTTTAAACTAT
44485168 TTTTAAA-TAT
1 TTTTAAACTAT
*
44485178 TTCTAAACTA-
1 TTTTAAACTAT
*
44485188 TTTTAAAATAT
1 TTTTAAACTAT
44485199 TT
1 TT
44485201 AAGGCTTGCA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
10 17 0.44
11 22 0.56
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (11 bp):
TTTTAAACTAT
Found at i:44485170 original size:21 final size:21
Alignment explanation
Indices: 44485146--44485200 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
44485136 TTTTCAAAAC
*
44485146 TTTTAAACTATTTTTAAACTAT
1 TTTTAAA-TATTTCTAAACTAT
44485168 TTTTAAATATTTCTAAACTAT
1 TTTTAAATATTTCTAAACTAT
*
44485189 TTTAAAATATTT
1 TTTTAAATATTT
44485201 AAGGCTTGCA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
21 24 0.77
22 7 0.23
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (21 bp):
TTTTAAATATTTCTAAACTAT
Found at i:44489480 original size:37 final size:37
Alignment explanation
Indices: 44489430--44489504 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
44489420 AATGTGGACT
44489430 TTAACTATCGTCGGTACTCCACGAAACTCCTCTGTCA
1 TTAACTATCGTCGGTACTCCACGAAACTCCTCTGTCA
*
44489467 TTAACTATTGTCGGTACTCCACGAAACTCCTCTGTCA
1 TTAACTATCGTCGGTACTCCACGAAACTCCTCTGTCA
44489504 T
1 T
44489505 CCAACAAACC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.31, G:0.13, T:0.32
Consensus pattern (37 bp):
TTAACTATCGTCGGTACTCCACGAAACTCCTCTGTCA
Found at i:44497584 original size:237 final size:237
Alignment explanation
Indices: 44497147--44497607 Score: 649
Period size: 237 Copynumber: 1.9 Consensus size: 237
44497137 CGTGTGGCCC
* * * **
44497147 AAAATCCACACTCGGTTCGTCATCTTTGGGATAGAACACACACCTAAAATCTGTTATTTCGAGGC
1 AAAATCCACACTCGCTTCATCATCTTTGGGATAGAACAAACACCTAAAATCCATTATTTCGAGGC
* *
44497212 AAGATTACAAATTCGAAACTTCAACAACCTAGATCTGACTAGATCTAGTACAGATCTGTACCTAA
66 AAGATTACAAATTCGAAACTTCAACAACCTAGATCTGACTAGATCTAGTACAAATCTATACCTAA
* *** *
44497277 CAATAAGAACAATCGTTTAGCAATAACCCTTACAAGAAATAACTAATCGAATCTGGTTAGATCGG
131 CAATAAGAACAATCGTTTAGCAATAACCCTTACAAGAAATAACTAATCAAATCCAATTAGATCAG
44497342 AGAAACTACTTACTCTATCAACCTACGACAGATATTTCAAAA
196 AGAAACTACTTACTCTATCAACCTACGACAGATATTTCAAAA
* * * * *
44497384 AAAATCCACACTCAGCTT-ATCATCTTTGGGCTAGCACAAACACTTGAAATCCATTATTTTGAGG
1 AAAATCCACACTC-GCTTCATCATCTTTGGGATAGAACAAACACCTAAAATCCATTATTTCGAGG
** * * *
44497448 CAAGATT-GTAATTCGCAGCTTCAACAATCC-AGATCTGACTAGATGTAGTACAAATCTATACCT
65 CAAGATTACAAATTCGAAACTTCAACAA-CCTAGATCTGACTAGATCTAGTACAAATCTATACCT
*
44497511 AACAATAAGAACAATCGTTTAGCAATAACCCCTTACAAGAAATAACTGATCAAATCCAATTAGAT
129 AACAATAAGAACAATCGTTTAGCAATAA-CCCTTACAAGAAATAACTAATCAAATCCAATTAGAT
* *
44497576 CAGAGAAACTACTTACTCTATTAGCCTACGAC
193 CAGAGAAACTACTTACTCTATCAACCTACGAC
44497608 GGATCCCGAC
Statistics
Matches: 196, Mismatches: 25, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
236 74 0.38
237 119 0.61
238 3 0.02
ACGTcount: A:0.38, C:0.22, G:0.13, T:0.26
Consensus pattern (237 bp):
AAAATCCACACTCGCTTCATCATCTTTGGGATAGAACAAACACCTAAAATCCATTATTTCGAGGC
AAGATTACAAATTCGAAACTTCAACAACCTAGATCTGACTAGATCTAGTACAAATCTATACCTAA
CAATAAGAACAATCGTTTAGCAATAACCCTTACAAGAAATAACTAATCAAATCCAATTAGATCAG
AGAAACTACTTACTCTATCAACCTACGACAGATATTTCAAAA
Found at i:44501417 original size:26 final size:25
Alignment explanation
Indices: 44501381--44501475 Score: 82
Period size: 25 Copynumber: 3.8 Consensus size: 25
44501371 GGCTTTTTGA
* ** *
44501381 ATAATACCCCACTTAGGCTTTTCCAG
1 ATAATTCCCCACAAAGGC-TTTACAG
44501407 ATAATTCCCCACAAAGGCTTTACAG
1 ATAATTCCCCACAAAGGCTTTACAG
** * * *
44501432 ATAATTTACCATAAAGGCCTTACAA
1 ATAATTCCCCACAAAGGCTTTACAG
* *
44501457 ATAACTCGCCACAAAGGCT
1 ATAATTCCCCACAAAGGCT
44501476 AAGTTTAGTT
Statistics
Matches: 55, Mismatches: 14, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
25 40 0.73
26 15 0.27
ACGTcount: A:0.36, C:0.27, G:0.12, T:0.25
Consensus pattern (25 bp):
ATAATTCCCCACAAAGGCTTTACAG
Found at i:44507656 original size:21 final size:24
Alignment explanation
Indices: 44507632--44507674 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
44507622 TTAGGGGTGT
44507632 TACAG-TTAGT-G-TTATCAGAGC
1 TACAGTTTAGTCGATTATCAGAGC
44507653 TACAGTTTAGTCGATTATCAGA
1 TACAGTTTAGTCGATTATCAGA
44507675 CTTAACATAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.26
22 5 0.26
23 1 0.05
24 8 0.42
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (24 bp):
TACAGTTTAGTCGATTATCAGAGC
Found at i:44508115 original size:17 final size:17
Alignment explanation
Indices: 44508095--44508128 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
44508085 TTCTGTGCCT
44508095 TTTCTTCTTCTTT-TTTA
1 TTTCTT-TTCTTTCTTTA
44508112 TTTCTTTTCTTTCTTTA
1 TTTCTTTTCTTTCTTTA
44508129 ATTTATTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.06, C:0.18, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTCTTTTCTTTCTTTA
Found at i:44508121 original size:22 final size:21
Alignment explanation
Indices: 44508093--44508140 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 21
44508083 CGTTCTGTGC
44508093 CTTTTCTTCTTCTTT-TTTATTT
1 CTTTTC-T-TTCTTTATTTATTT
44508115 CTTTTCTTTCTTTAATTTATTT
1 CTTTTCTTTCTTT-ATTTATTT
44508137 CTTT
1 CTTT
44508141 GATTTCTCCG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.25
21 1 0.04
22 17 0.71
ACGTcount: A:0.08, C:0.17, G:0.00, T:0.75
Consensus pattern (21 bp):
CTTTTCTTTCTTTATTTATTT
Found at i:44514696 original size:62 final size:61
Alignment explanation
Indices: 44514600--44514752 Score: 171
Period size: 62 Copynumber: 2.5 Consensus size: 61
44514590 AACGGACAAG
* * * * * * *
44514600 GGCCAAGGACATGGCGTGTGTCTGGGTCGTGTAACTCACTGTTTGTGGTATAATACCACAT
1 GGCCAAGGACACGGCGTGTGTCTAGGCCGTGTAACTCACTGTTTATAGTATAAAACCACAC
* *
44514661 GGCCAAGGACACGAGCGTGTGTCTAGGCCGTGTAACTCACTTTTTATAGTATAAAATCACAC
1 GGCCAAGGACACG-GCGTGTGTCTAGGCCGTGTAACTCACTGTTTATAGTATAAAACCACAC
* * * *
44514723 GGCCAGGGACATAGGTGTGTGTCCAGGCCG
1 GGCCAAGGACA-CGGCGTGTGTCTAGGCCG
44514753 AGTGAACCAC
Statistics
Matches: 77, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
61 12 0.16
62 64 0.83
63 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (61 bp):
GGCCAAGGACACGGCGTGTGTCTAGGCCGTGTAACTCACTGTTTATAGTATAAAACCACAC
Found at i:44516070 original size:14 final size:13
Alignment explanation
Indices: 44516043--44516080 Score: 67
Period size: 14 Copynumber: 2.8 Consensus size: 13
44516033 AGTTTCTAAA
44516043 TTTTCAAATTAAG
1 TTTTCAAATTAAG
44516056 TTTTCAAACTTAAG
1 TTTTCAAA-TTAAG
44516070 TTTTCAAATTA
1 TTTTCAAATTA
44516081 CAAATATATC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.37, C:0.11, G:0.05, T:0.47
Consensus pattern (13 bp):
TTTTCAAATTAAG
Found at i:44516322 original size:69 final size:68
Alignment explanation
Indices: 44516245--44516451 Score: 243
Period size: 69 Copynumber: 3.0 Consensus size: 68
44516235 TGTCTTTTTT
* * * * * *
44516245 TTGCAGGGAATATTTCTTCTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTATTCACACATCA
1 TTGCAGGGAATCTTTCCTGTTCACGCATCA-TTTCTTGCAGGGAATCTCTCCTGTTCACACATCA
44516310 TTTC
65 TTTC
* * * * *
44516314 TTGCAGGGAATCTTTCCTGTTCACGCATCATTTCTTACAAGGAATCTTTCCTGTTCACGCATTAT
1 TTGCAGGGAATCTTTCCTGTTCACGCATCATTTCTTGCAGGGAATCTCTCCTGTTCACACATCA-
*
44516379 TTTG
65 TTTC
* ** * *
44516383 TTGGAGGGAATCTTTCCTGTTCATACATCATTTCTTGTAGGGAATCTCTCCTGTTCATACATCAT
1 TTGCAGGGAATCTTTCCTGTTCACGCATCATTTCTTGCAGGGAATCTCTCCTGTTCACACATCAT
44516448 TTC
66 TTC
44516451 T
1 T
44516452 GGTATTATTT
Statistics
Matches: 114, Mismatches: 23, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
68 31 0.27
69 83 0.73
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.41
Consensus pattern (68 bp):
TTGCAGGGAATCTTTCCTGTTCACGCATCATTTCTTGCAGGGAATCTCTCCTGTTCACACATCAT
TTC
Found at i:44516323 original size:34 final size:34
Alignment explanation
Indices: 44516245--44516451 Score: 225
Period size: 34 Copynumber: 6.0 Consensus size: 34
44516235 TGTCTTTTTT
* * * * * *
44516245 TTGCAGGGAATATTTCTTCTTCACGCATTATTTTG
1 TTGCAGGGAATCTTTCCTGTTCACACATCA-TTTC
* *
44516280 TTGCAGGGAATCTCTCCTATTCACACATCATTTC
1 TTGCAGGGAATCTTTCCTGTTCACACATCATTTC
*
44516314 TTGCAGGGAATCTTTCCTGTTCACGCATCATTTC
1 TTGCAGGGAATCTTTCCTGTTCACACATCATTTC
* * * * *
44516348 TTACAAGGAATCTTTCCTGTTCACGCATTATTTTG
1 TTGCAGGGAATCTTTCCTGTTCACACATCA-TTTC
* *
44516383 TTGGAGGGAATCTTTCCTGTTCATACATCATTTC
1 TTGCAGGGAATCTTTCCTGTTCACACATCATTTC
* * *
44516417 TTGTAGGGAATCTCTCCTGTTCATACATCATTTC
1 TTGCAGGGAATCTTTCCTGTTCACACATCATTTC
44516451 T
1 T
44516452 GGTATTATTT
Statistics
Matches: 148, Mismatches: 23, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
34 97 0.66
35 51 0.34
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.41
Consensus pattern (34 bp):
TTGCAGGGAATCTTTCCTGTTCACACATCATTTC
Found at i:44516435 original size:103 final size:103
Alignment explanation
Indices: 44516264--44516451 Score: 304
Period size: 103 Copynumber: 1.8 Consensus size: 103
44516254 ATATTTCTTC
*
44516264 TTCACGCATTATTTTGTTGCAGGGAATCTCTCCTATTCACACATCATTTCTTGCAGGGAATCTTT
1 TTCACGCATTATTTTGTTGCAGGGAATCTCTCCTATTCACACATCATTTCTTGCAGGGAATCTCT
*
44516329 CCTGTTCACGCATCATTTCTTACAAGGAATCTTTCCTG
66 CCTGTTCACACATCATTTCTTACAAGGAATCTTTCCTG
* * * * *
44516367 TTCACGCATTATTTTGTTGGAGGGAATCTTTCCTGTTCATACATCATTTCTTGTAGGGAATCTCT
1 TTCACGCATTATTTTGTTGCAGGGAATCTCTCCTATTCACACATCATTTCTTGCAGGGAATCTCT
*
44516432 CCTGTTCATACATCATTTCT
66 CCTGTTCACACATCATTTCT
44516452 GGTATTATTT
Statistics
Matches: 77, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
103 77 1.00
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.41
Consensus pattern (103 bp):
TTCACGCATTATTTTGTTGCAGGGAATCTCTCCTATTCACACATCATTTCTTGCAGGGAATCTCT
CCTGTTCACACATCATTTCTTACAAGGAATCTTTCCTG
Found at i:44520832 original size:21 final size:22
Alignment explanation
Indices: 44520802--44520846 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
44520792 GAACAAATTG
*
44520802 TTGATTCTATT-TATTTTTTTAT
1 TTGATTCTATTCT-TTTTTGTAT
44520824 TTGA-TCTATTCTTTTTTGTAT
1 TTGATTCTATTCTTTTTTGTAT
44520845 TT
1 TT
44520847 CTTTTTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.16, C:0.07, G:0.07, T:0.71
Consensus pattern (22 bp):
TTGATTCTATTCTTTTTTGTAT
Found at i:44520902 original size:21 final size:23
Alignment explanation
Indices: 44520878--44520920 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 23
44520868 TTAATTTTTT
*
44520878 AAAACATATTT-CTTCT-TTTAG
1 AAAACAGATTTGCTTCTGTTTAG
*
44520899 AAAAGAGATTTGCTTCTGTTTA
1 AAAACAGATTTGCTTCTGTTTA
44520921 TAATTAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 9 0.50
22 5 0.28
23 4 0.22
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.44
Consensus pattern (23 bp):
AAAACAGATTTGCTTCTGTTTAG
Found at i:44521686 original size:7 final size:6
Alignment explanation
Indices: 44521645--44521673 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
44521635 CTAGAAATGA
44521645 TTTCTT TTTCTT TTTCTT TTTCTT TTTCT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCT
44521674 GGTTTATCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTCTT
Found at i:44523237 original size:20 final size:20
Alignment explanation
Indices: 44523208--44523245 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
44523198 CCAGATTCCC
*
44523208 GATTTGATAAACTATGTTTT
1 GATTTCATAAACTATGTTTT
*
44523228 GATTTCATAAATTATGTT
1 GATTTCATAAACTATGTT
44523246 ATTTGAATGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.05, G:0.13, T:0.50
Consensus pattern (20 bp):
GATTTCATAAACTATGTTTT
Found at i:44524479 original size:41 final size:41
Alignment explanation
Indices: 44524422--44524571 Score: 201
Period size: 41 Copynumber: 3.7 Consensus size: 41
44524412 TGGAGATAGC
* ** *
44524422 GATTCATGCTTTGTGCCTAGCAATCTTAGTGTTGGTGTGTT
1 GATTCATGCTTTGTGCCTAGCAAGCTTAGTGCCGGTGTATT
* *
44524463 GATTCAAGCTTTGTGCCTAGCAGGCTTAGTGCCGGTGTATT
1 GATTCATGCTTTGTGCCTAGCAAGCTTAGTGCCGGTGTATT
* * * *
44524504 GATTCAGGCTTTGTGCCTAGCAAGCTTAATGCCAGTGTACT
1 GATTCATGCTTTGTGCCTAGCAAGCTTAGTGCCGGTGTATT
*
44524545 GATTCATGCTTTGTGCCTAGCAGGCTT
1 GATTCATGCTTTGTGCCTAGCAAGCTT
44524572 TGTAACACCT
Statistics
Matches: 96, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 96 1.00
ACGTcount: A:0.17, C:0.19, G:0.27, T:0.37
Consensus pattern (41 bp):
GATTCATGCTTTGTGCCTAGCAAGCTTAGTGCCGGTGTATT
Found at i:44539856 original size:7 final size:8
Alignment explanation
Indices: 44539835--44539864 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
44539825 TTTAGTTTCT
44539835 TATTTTTG
1 TATTTTTG
44539843 TATTTTTG
1 TATTTTTG
44539851 TATTTTTG
1 TATTTTTG
44539859 -ATTTTT
1 TATTTTT
44539865 TTTCTTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 6 0.27
8 16 0.73
ACGTcount: A:0.13, C:0.00, G:0.10, T:0.77
Consensus pattern (8 bp):
TATTTTTG
Found at i:44540026 original size:21 final size:21
Alignment explanation
Indices: 44539983--44540026 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
44539973 TTATAAAATT
* * *
44539983 ATTTAAAAAATATTTCATAAA
1 ATTTAAAAAAAATATAATAAA
*
44540004 ATTTAAAAAAAATATAATGAA
1 ATTTAAAAAAAATATAATAAA
44540025 AT
1 AT
44540027 ACAGATTTAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.34
Consensus pattern (21 bp):
ATTTAAAAAAAATATAATAAA
Found at i:44540665 original size:10 final size:11
Alignment explanation
Indices: 44540648--44540684 Score: 51
Period size: 10 Copynumber: 3.5 Consensus size: 11
44540638 AAAGAGCAAC
44540648 AAAGAGGAAAG
1 AAAGAGGAAAG
*
44540659 AAA-AGGAGAG
1 AAAGAGGAAAG
44540669 AAAGAGG-AAG
1 AAAGAGGAAAG
44540679 AAAGAG
1 AAAGAG
44540685 ACGACACACA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
10 17 0.74
11 6 0.26
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (11 bp):
AAAGAGGAAAG
Found at i:44561425 original size:19 final size:19
Alignment explanation
Indices: 44561401--44561444 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
44561391 GTGAAGGCAT
*
44561401 CGCGCGTGGAGGAG-ACGCA
1 CGCGCGCGGAGGAGCA-GCA
*
44561420 CGCGCGCGGAGGCGCAGCA
1 CGCGCGCGGAGGAGCAGCA
44561439 CGCGCG
1 CGCGCG
44561445 AAAGAGGCCC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 21 0.95
20 1 0.05
ACGTcount: A:0.16, C:0.34, G:0.48, T:0.02
Consensus pattern (19 bp):
CGCGCGCGGAGGAGCAGCA
Found at i:44568708 original size:12 final size:12
Alignment explanation
Indices: 44568691--44568717 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
44568681 CTCTCGGTCT
44568691 CCCATTTCTTTA
1 CCCATTTCTTTA
44568703 CCCATTTCTTTA
1 CCCATTTCTTTA
44568715 CCC
1 CCC
44568718 GAAATCCACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.15, C:0.41, G:0.00, T:0.44
Consensus pattern (12 bp):
CCCATTTCTTTA
Found at i:44571637 original size:16 final size:16
Alignment explanation
Indices: 44571616--44571669 Score: 81
Period size: 16 Copynumber: 3.4 Consensus size: 16
44571606 TTGATTTGCT
*
44571616 ATTACACCTCTATTTC
1 ATTACACCTCTATTCC
44571632 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
*
44571648 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
*
44571664 AATACA
1 ATTACA
44571670 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.28, C:0.33, G:0.02, T:0.37
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:44572412 original size:26 final size:26
Alignment explanation
Indices: 44572379--44572440 Score: 115
Period size: 26 Copynumber: 2.4 Consensus size: 26
44572369 ATAAAAAATA
44572379 ACCAAAATATTATAACTTTTTTATTT
1 ACCAAAATATTATAACTTTTTTATTT
*
44572405 ACCAAAATATTATAATTTTTTTATTT
1 ACCAAAATATTATAACTTTTTTATTT
44572431 ACCAAAATAT
1 ACCAAAATAT
44572441 ACCCAAAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.42, C:0.11, G:0.00, T:0.47
Consensus pattern (26 bp):
ACCAAAATATTATAACTTTTTTATTT
Found at i:44572459 original size:11 final size:11
Alignment explanation
Indices: 44572445--44572475 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
44572435 AAATATACCC
44572445 AAAAAAAACAA
1 AAAAAAAACAA
*
44572456 AAAACAAACAA
1 AAAAAAAACAA
44572467 AAAAAAAAC
1 AAAAAAAAC
44572476 CTGCACCGAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAAACAA
Found at i:44572533 original size:27 final size:27
Alignment explanation
Indices: 44572503--44572562 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
44572493 CACCCTGGTC
*
44572503 GTGCCAAGGTAATTGGCGGCACCAAAG
1 GTGCCAAAGTAATTGGCGGCACCAAAG
* *
44572530 GTGCCAAAGTGATTGGCGGCACCAATG
1 GTGCCAAAGTAATTGGCGGCACCAAAG
44572557 GTGCCA
1 GTGCCA
44572563 TACTGCTTGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.27, C:0.23, G:0.33, T:0.17
Consensus pattern (27 bp):
GTGCCAAAGTAATTGGCGGCACCAAAG
Found at i:44572572 original size:27 final size:27
Alignment explanation
Indices: 44572514--44572578 Score: 94
Period size: 27 Copynumber: 2.4 Consensus size: 27
44572504 TGCCAAGGTA
*
44572514 ATTGGCGGCACCAAAGGTGCCAAAGTG
1 ATTGGCGGCACCAAAGGTGCCAAACTG
* *
44572541 ATTGGCGGCACCAATGGTGCCATACTG
1 ATTGGCGGCACCAAAGGTGCCAAACTG
*
44572568 CTTGGCGGCAC
1 ATTGGCGGCAC
44572579 TACTCGTGTT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.23, C:0.26, G:0.32, T:0.18
Consensus pattern (27 bp):
ATTGGCGGCACCAAAGGTGCCAAACTG
Found at i:44572692 original size:11 final size:11
Alignment explanation
Indices: 44572659--44572700 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
44572649 GAGGTGCTGC
*
44572659 GAAAAAAAAGA
1 GAAAAAGAAGA
*
44572670 GAAAAAG-TGA
1 GAAAAAGAAGA
*
44572680 GAAAGAGAAGA
1 GAAAAAGAAGA
44572691 GAAAAAGAAG
1 GAAAAAGAAG
44572701 GTATTTTTTA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
10 8 0.32
11 17 0.68
ACGTcount: A:0.69, C:0.00, G:0.29, T:0.02
Consensus pattern (11 bp):
GAAAAAGAAGA
Found at i:44572876 original size:3 final size:3
Alignment explanation
Indices: 44572829--44572857 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
44572819 ATTATTATTA
44572829 TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
44572858 TAATTGATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:44572966 original size:3 final size:3
Alignment explanation
Indices: 44572958--44572996 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
44572948 ATAGTTTTAG
* *
44572958 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTG TTA GTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
44572997 AGATGTTATT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:44572974 original size:144 final size:142
Alignment explanation
Indices: 44572716--44572974 Score: 464
Period size: 144 Copynumber: 1.8 Consensus size: 142
44572706 TTTTAAAAAA
*
44572716 TAATTGATTATATTGTTGTTATTGTTTTGTATATTTTGTAATATTTTTTGTTTTAGTTTAGTTAT
1 TAATTGATTATATTGTTGTTATTGTTTTGTATAATTTGTAATATTTTTTGTTTTAGTTTAGTTAT
44572781 TAAGATTAATAAAACTCAAATTGATAGTTTTAGTTAGTATTATTATTATTGTTGTTGTTGTTGTT
66 TAAGATTAATAAAACTCAAATTGATAGTTTTAGTTAGTATTATTATTATTGTTGTTGTTGTTGTT
44572846 GTTGTTGTTGTT
131 GTTGTTGTTGTT
* *
44572858 TAATTGATTATTTTGTTGTTATTGTTTTGTATAATTTGTATTTTATTTTTTGTTTTAGTTTAGTT
1 TAATTGATTATATTGTTGTTATTGTTTTGTATAATTTGTA--ATATTTTTTGTTTTAGTTTAGTT
*
44572923 ATTAAGATTAATAAAACTCAAATTGATAGTTTTAGTTATTATTATTATTATT
64 ATTAAGATTAATAAAACTCAAATTGATAGTTTTAGTTAGTATTATTATTATT
44572975 ATTATTATTA
Statistics
Matches: 111, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
142 38 0.34
144 73 0.66
ACGTcount: A:0.26, C:0.02, G:0.14, T:0.59
Consensus pattern (142 bp):
TAATTGATTATATTGTTGTTATTGTTTTGTATAATTTGTAATATTTTTTGTTTTAGTTTAGTTAT
TAAGATTAATAAAACTCAAATTGATAGTTTTAGTTAGTATTATTATTATTGTTGTTGTTGTTGTT
GTTGTTGTTGTT
Found at i:44573786 original size:18 final size:18
Alignment explanation
Indices: 44573763--44573807 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
44573753 TTGATATGGT
*
44573763 TGGTGGTGAAGAAGAAGG
1 TGGTGGCGAAGAAGAAGG
44573781 TGGTGGCGAAGAAGAAGG
1 TGGTGGCGAAGAAGAAGG
44573799 TGGTGGCGA
1 TGGTGGCGA
44573808 TCATTGGGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.29, C:0.04, G:0.51, T:0.16
Consensus pattern (18 bp):
TGGTGGCGAAGAAGAAGG
Found at i:44577678 original size:12 final size:12
Alignment explanation
Indices: 44577661--44577685 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
44577651 GGTGTTCATT
44577661 CGGTTAACCGAC
1 CGGTTAACCGAC
44577673 CGGTTAACCGAC
1 CGGTTAACCGAC
44577685 C
1 C
44577686 CGAAATTACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:44577854 original size:9 final size:9
Alignment explanation
Indices: 44577840--44577906 Score: 80
Period size: 9 Copynumber: 7.4 Consensus size: 9
44577830 TTTGGTTAAA
44577840 AATTACCCG
1 AATTACCCG
44577849 AATTACCCG
1 AATTACCCG
*
44577858 AATTAACCG
1 AATTACCCG
*
44577867 AATTAACCG
1 AATTACCCG
**
44577876 AATTACCAA
1 AATTACCCG
* *
44577885 AAATACCAG
1 AATTACCCG
44577894 AATTACCCG
1 AATTACCCG
44577903 AATT
1 AATT
44577907 TTTTTATTTT
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 50 1.00
ACGTcount: A:0.43, C:0.25, G:0.09, T:0.22
Consensus pattern (9 bp):
AATTACCCG
Found at i:44578018 original size:34 final size:36
Alignment explanation
Indices: 44577979--44578056 Score: 88
Period size: 39 Copynumber: 2.1 Consensus size: 36
44577969 GACTTTAGTA
44577979 AATTGGGT-TGT-CTTTTAGTTTTATTGGATTGGGT
1 AATTGGGTATGTACTTTTAGTTTTATTGGATTGGGT
* * *
44578013 AATTGGGTAAACTTTAGTTTTAGTTTTATTGGGTTGGGT
1 AATTGGGT--A-TGTACTTTTAGTTTTATTGGATTGGGT
44578052 AATTG
1 AATTG
44578057 AGTTTGGGCT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
34 8 0.22
38 2 0.06
39 26 0.72
ACGTcount: A:0.19, C:0.03, G:0.28, T:0.50
Consensus pattern (36 bp):
AATTGGGTATGTACTTTTAGTTTTATTGGATTGGGT
Found at i:44579469 original size:27 final size:27
Alignment explanation
Indices: 44579431--44579486 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
44579421 TTAGCCACAT
*
44579431 ATTGGTGCCGCCTTTTTATTCCTCTCC
1 ATTGGTGCCGCCTTTTTATTCCCCTCC
*
44579458 ATTGGTGTCGCCTTTTTATTCCCCTCC
1 ATTGGTGCCGCCTTTTTATTCCCCTCC
44579485 AT
1 AT
44579487 CACCCTCCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.09, C:0.32, G:0.14, T:0.45
Consensus pattern (27 bp):
ATTGGTGCCGCCTTTTTATTCCCCTCC
Found at i:44580100 original size:36 final size:37
Alignment explanation
Indices: 44580045--44580218 Score: 146
Period size: 40 Copynumber: 4.7 Consensus size: 37
44580035 TAAAAATTAC
* * *
44580045 TCTTTTTTTCTTTTTTCC-TTCCTTCCCTCTTCTTCT
1 TCTTTTTTTCTCTTCTCCTTTCCTTCCTTCTTCTTCT
* *
44580081 TCTTTTTTTCTCTTCTCCTTTCCTTTTCTTTCCTTCTTTT
1 TCTTTTTTTCTCTTCTCCTTTCC--TTCCTT-CTTCTTCT
* *
44580121 TCTTTCTTTTTTCTTCTCCTTTCCTCTTCTTCTTCTTTCT
1 TCTTT-TTTTCTCTTCTCCTTTCCT-TCCTTCTTC-TTCT
* *
44580161 T-TTTTTTTCCCTTCTCCTTTCCTT--TTCTT-TCCT
1 TCTTTTTTTCTCTTCTCCTTTCCTTCCTTCTTCTTCT
*
44580194 TCTTTTTCTT-TCTT-TCCTCTCCTTC
1 TCTTTTT-TTCTCTTCTCCTTTCCTTC
44580219 ATTTCTTTCT
Statistics
Matches: 114, Mismatches: 14, Indels: 22
0.76 0.09 0.15
Matches are distributed among these distances:
33 13 0.11
34 8 0.07
35 7 0.06
36 16 0.14
37 5 0.04
38 17 0.15
39 12 0.11
40 19 0.17
41 17 0.15
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (37 bp):
TCTTTTTTTCTCTTCTCCTTTCCTTCCTTCTTCTTCT
Found at i:44580126 original size:4 final size:4
Alignment explanation
Indices: 44580105--44580255 Score: 97
Period size: 4 Copynumber: 38.0 Consensus size: 4
44580095 CTCCTTTCCT
*
44580105 TTTC TTTC CTTC -TT- TTTC TTTC TTT- TTTC TTCTCC TTTCC TCTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TT-T-C TTT-C T-TTC
* * *
44580150 -TTC -TTC TTTC TTT- TTT- TTTCC CTTC -TCC TTTCC TTTTC TTTC CTTC
1 TTTC TTTC TTTC TTTC TTTC TTT-C TTTC TTTC TTT-C -TTTC TTTC TTTC
* *
44580196 -TT- TTTC TTTC TTTCC TCTC CTTC ATTTC TTTC TTTC TTTC TTTC TTTC
1 TTTC TTTC TTTC TTT-C TTTC TTTC -TTTC TTTC TTTC TTTC TTTC TTTC
44580244 TTTC TTTC TTTC
1 TTTC TTTC TTTC
44580256 CCTCTCCTTC
Statistics
Matches: 122, Mismatches: 9, Indels: 32
0.75 0.06 0.20
Matches are distributed among these distances:
3 25 0.20
4 73 0.60
5 16 0.13
6 8 0.07
ACGTcount: A:0.01, C:0.30, G:0.00, T:0.69
Consensus pattern (4 bp):
TTTC
Found at i:44580150 original size:33 final size:33
Alignment explanation
Indices: 44580113--44580237 Score: 123
Period size: 33 Copynumber: 3.7 Consensus size: 33
44580103 CTTTTCTTTC
44580113 CTTCTTTTTCTTTCTTTTTTCTTCTCCTTTCCT
1 CTTCTTTTTCTTTCTTTTTTCTTCTCCTTTCCT
* *
44580146 CTTCTTCTTCTTTCTTTTTTTTTC-CCTTCTCCT
1 CTTCTTTTTCTTTCTTTTTTCTTCTCCTT-TCCT
*
44580179 -TTCCTTTTCTTTCCTTCTTTTTCTT-T-CTTTCCT
1 CTTCTTTTTCTTT-C-T-TTTTTCTTCTCCTTTCCT
*
44580212 CTCCTTCATTTCTTTCTTTCTTTCTT
1 CTTCTT--TTTCTTTCTTT-TTTCTT
44580238 TCTTTCTTTC
Statistics
Matches: 76, Mismatches: 7, Indels: 17
0.76 0.07 0.17
Matches are distributed among these distances:
32 14 0.18
33 33 0.43
34 14 0.18
35 8 0.11
36 7 0.09
ACGTcount: A:0.01, C:0.31, G:0.00, T:0.68
Consensus pattern (33 bp):
CTTCTTTTTCTTTCTTTTTTCTTCTCCTTTCCT
Found at i:44580161 original size:43 final size:40
Alignment explanation
Indices: 44580073--44580252 Score: 196
Period size: 38 Copynumber: 4.6 Consensus size: 40
44580063 TTCCTTCCCT
*
44580073 CTTCTTCTTCTTTTTTTCTCTTCTCCTTTCCTTTTCTTTC
1 CTTCTTTTTCTTTTTTTCTCTTCTCCTTTCCTTTTCTTTC
* *
44580113 CTTCTTTTTCTTTCTTTTTTCTTCTCCTTTCCTCTTC-TT-
1 CTTCTTTTTCTTT-TTTTCTCTTCTCCTTTCCTTTTCTTTC
*
44580152 CTTCTTTCTT-TTTTTTTCCCTTCTCCTTTCCTTTTCTTTC
1 CTTCTTT-TTCTTTTTTTCTCTTCTCCTTTCCTTTTCTTTC
* *
44580192 CTTCTTTTTCTTTCTTTC-C-TCTCC-TT-CATTTCTTTC
1 CTTCTTTTTCTTTTTTTCTCTTCTCCTTTCCTTTTCTTTC
* *
44580228 TTTCTTTCTTTCTTTCTTTCT-TTCT
1 CTTC-TT-TTTCTTTTTTTCTCTTCT
44580253 TTCCCTCTCC
Statistics
Matches: 122, Mismatches: 9, Indels: 19
0.81 0.06 0.13
Matches are distributed among these distances:
36 12 0.10
37 4 0.03
38 37 0.30
39 18 0.15
40 30 0.25
41 21 0.17
ACGTcount: A:0.01, C:0.31, G:0.00, T:0.68
Consensus pattern (40 bp):
CTTCTTTTTCTTTTTTTCTCTTCTCCTTTCCTTTTCTTTC
Found at i:44580192 original size:10 final size:10
Alignment explanation
Indices: 44580098--44580211 Score: 59
Period size: 10 Copynumber: 11.7 Consensus size: 10
44580088 TTCTCTTCTC
44580098 CTTTCCTTTT
1 CTTTCCTTTT
44580108 CTTTCCTTCTT
1 CTTTCCTT-TT
44580119 -TTT-C-TTT
1 CTTTCCTTTT
44580126 C-TT--TTTT
1 CTTTCCTTTT
*
44580133 CTTCTCCTTTC
1 CTT-TCCTTTT
44580144 CTCTT-CTTCTT
1 CT-TTCCTT-TT
*
44580155 CTTTCTTTTT
1 CTTTCCTTTT
* *
44580165 TTTTCCCTTCTC
1 CTTT-CCTT-TT
44580177 CTTTCCTTTT
1 CTTTCCTTTT
44580187 CTTTCCTTCTT
1 CTTTCCTT-TT
44580198 -TTT-C-TTT
1 CTTTCCTTTT
44580205 CTTTCCT
1 CTTTCCT
44580212 CTCCTTCATT
Statistics
Matches: 80, Mismatches: 8, Indels: 32
0.67 0.07 0.27
Matches are distributed among these distances:
7 10 0.12
8 6 0.08
9 4 0.05
10 33 0.41
11 22 0.28
12 5 0.06
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (10 bp):
CTTTCCTTTT
Found at i:44580233 original size:79 final size:79
Alignment explanation
Indices: 44580072--44580264 Score: 246
Period size: 79 Copynumber: 2.4 Consensus size: 79
44580062 CTTCCTTCCC
* ** *
44580072 TCTTC-TTCTTCTTTTTTTCTCTTCTCCTTTCCTTTTCTTTCCTTCTTTTTCTTTCTTTTTTCTT
1 TCTTCTTTCTT-TTTTTTTCCCTTCTCCTTTCCTTTTCTTTCCTTCTTTTTCTTTCTTTCCTCTC
*
44580136 CTCCTTTCCTCTTCT
65 CTCATTTCCTCTTCT
44580151 TCTTCTTTCTTTTTTTTTCCCTTCTCCTTTCCTTTTCTTTCCTTCTTTTTCTTTCTTTCCTCTCC
1 TCTTCTTTCTTTTTTTTTCCCTTCTCCTTTCCTTTTCTTTCCTTCTTTTTCTTTCTTTCCTCTCC
*
44580216 TTCATTTCTTTCTTTCTT
66 -TCATTTC-CTC-TTC-T
44580234 TCTTTCTTTCTTTCTTTCTTTCCC-TCTCCTT
1 TC-TTCTTTCTTT-TTT-TTTCCCTTCTCCTT
44580265 CTCCCCCCCA
Statistics
Matches: 100, Mismatches: 6, Indels: 10
0.86 0.05 0.09
Matches are distributed among these distances:
79 55 0.55
80 11 0.11
81 2 0.02
82 3 0.03
83 3 0.03
84 10 0.10
85 10 0.10
86 6 0.06
ACGTcount: A:0.01, C:0.32, G:0.00, T:0.67
Consensus pattern (79 bp):
TCTTCTTTCTTTTTTTTTCCCTTCTCCTTTCCTTTTCTTTCCTTCTTTTTCTTTCTTTCCTCTCC
TCATTTCCTCTTCT
Found at i:44580346 original size:27 final size:27
Alignment explanation
Indices: 44580300--44580378 Score: 104
Period size: 27 Copynumber: 2.9 Consensus size: 27
44580290 TATTATAACA
**
44580300 TTGGTGCCGCCAATGTCTTTGGCACCT
1 TTGGTGCCGCCAATCACTTTGGCACCT
*
44580327 TTGGTGCCGCTAATCACTTTGGCACCT
1 TTGGTGCCGCCAATCACTTTGGCACCT
* * *
44580354 TCGGTACCGCCAATCACCTTGGCAC
1 TTGGTGCCGCCAATCACTTTGGCAC
44580379 GACCACGATG
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.15, C:0.33, G:0.23, T:0.29
Consensus pattern (27 bp):
TTGGTGCCGCCAATCACTTTGGCACCT
Found at i:44580464 original size:26 final size:28
Alignment explanation
Indices: 44580435--44580498 Score: 114
Period size: 28 Copynumber: 2.4 Consensus size: 28
44580425 TTTTTTTGGT
44580435 ATATTTTGGTAAAT-AAAAAAA-TTATA
1 ATATTTTGGTAAATAAAAAAAAGTTATA
44580461 ATATTTTGGTAAATAAAAAAAAGTTATA
1 ATATTTTGGTAAATAAAAAAAAGTTATA
44580489 ATATTTTGGT
1 ATATTTTGGT
44580499 TATTTTTTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
26 14 0.39
27 7 0.19
28 15 0.42
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.41
Consensus pattern (28 bp):
ATATTTTGGTAAATAAAAAAAAGTTATA
Found at i:44581764 original size:15 final size:15
Alignment explanation
Indices: 44581744--44581775 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
44581734 ATGAAGAGAG
44581744 CTATAGCAAGTCTAT
1 CTATAGCAAGTCTAT
44581759 CTATAGCAAGTCTAT
1 CTATAGCAAGTCTAT
44581774 CT
1 CT
44581776 TTTTAACTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.34
Consensus pattern (15 bp):
CTATAGCAAGTCTAT
Found at i:44584025 original size:103 final size:103
Alignment explanation
Indices: 44583846--44584051 Score: 394
Period size: 103 Copynumber: 2.0 Consensus size: 103
44583836 TTTTTTTTAC
* *
44583846 ATTGTCTATTCGGCTGGTAATATTTCAGCCTATAAATAGTTTATCTTGTAAAAATTTGAAGGTTA
1 ATTGTCTATTCAGCTAGTAATATTTCAGCCTATAAATAGTTTATCTTGTAAAAATTTGAAGGTTA
44583911 CATTACTTTTGACATATATAAACTTTGTGAGTTATTCA
66 CATTACTTTTGACATATATAAACTTTGTGAGTTATTCA
44583949 ATTGTCTATTCAGCTAGTAATATTTCAGCCTATAAATAGTTTATCTTGTAAAAATTTGAAGGTTA
1 ATTGTCTATTCAGCTAGTAATATTTCAGCCTATAAATAGTTTATCTTGTAAAAATTTGAAGGTTA
44584014 CATTACTTTTGACATATATAAACTTTGTGAGTTATTCA
66 CATTACTTTTGACATATATAAACTTTGTGAGTTATTCA
44584052 CTCTCAATTT
Statistics
Matches: 101, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
103 101 1.00
ACGTcount: A:0.32, C:0.12, G:0.14, T:0.43
Consensus pattern (103 bp):
ATTGTCTATTCAGCTAGTAATATTTCAGCCTATAAATAGTTTATCTTGTAAAAATTTGAAGGTTA
CATTACTTTTGACATATATAAACTTTGTGAGTTATTCA
Found at i:44589459 original size:16 final size:16
Alignment explanation
Indices: 44589415--44589460 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
44589405 TTACTTTATG
*
44589415 TAATTAATGCAAAATAA
1 TAATTAAT-TAAAATAA
44589432 -AATT-ATTCAAAATAA
1 TAATTAATT-AAAATAA
44589447 TAATTAATTAAAAT
1 TAATTAATTAAAAT
44589461 CATTAAATTG
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
15 9 0.36
16 13 0.52
17 3 0.12
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (16 bp):
TAATTAATTAAAATAA
Found at i:44595384 original size:42 final size:43
Alignment explanation
Indices: 44595319--44595430 Score: 140
Period size: 42 Copynumber: 2.7 Consensus size: 43
44595309 TTTCGCCTGC
* *
44595319 TAAAAGGGATGAAAGGTTAAAAACACCTA-T-ACATACCCCTAG
1 TAAAAGGGATGAAAGGTTAAAAACACCTAGTAAC-TACACCAAG
** *
44595361 TGTAAGGGATGAAAGGTTGAAAACACC-AGTAACTACACCAAG
1 TAAAAGGGATGAAAGGTTAAAAACACCTAGTAACTACACCAAG
*
44595403 TAAAAAGGATGAAAGGTTAAAAACACCT
1 TAAAAGGGATGAAAGGTTAAAAACACCT
44595431 GTGCATACTC
Statistics
Matches: 58, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
41 1 0.02
42 55 0.95
43 2 0.03
ACGTcount: A:0.46, C:0.16, G:0.20, T:0.18
Consensus pattern (43 bp):
TAAAAGGGATGAAAGGTTAAAAACACCTAGTAACTACACCAAG
Found at i:44595444 original size:42 final size:41
Alignment explanation
Indices: 44595319--44595445 Score: 137
Period size: 42 Copynumber: 3.0 Consensus size: 41
44595309 TTTCGCCTGC
* * *
44595319 TAAAAGGGATGAAAGGTTAAAAACACCTATACATACCCCTAG
1 TAAAAGGGATGAAAGGTTAAAAACACCTGT-CATACACCAAG
** * * *
44595361 TGTAAGGGATGAAAGGTTGAAAACACCAGTAACTACACCAAG
1 TAAAAGGGATGAAAGGTTAAAAACACCTGTCA-TACACCAAG
* *
44595403 TAAAAAGGATGAAAGGTTAAAAACACCTGTGCATACTCCAAG
1 TAAAAGGGATGAAAGGTTAAAAACACCTGT-CATACACCAAG
44595445 T
1 T
44595446 GGGCGATTTT
Statistics
Matches: 68, Mismatches: 15, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
41 1 0.01
42 66 0.97
43 1 0.01
ACGTcount: A:0.44, C:0.17, G:0.20, T:0.19
Consensus pattern (41 bp):
TAAAAGGGATGAAAGGTTAAAAACACCTGTCATACACCAAG
Found at i:44601384 original size:51 final size:51
Alignment explanation
Indices: 44601288--44601397 Score: 143
Period size: 51 Copynumber: 2.2 Consensus size: 51
44601278 GTATAATAAT
* *
44601288 AAATTTAGTCCTCAAAGTTTACATATTTTGTGAAGTTAGCTTTGATTTAAC
1 AAATTTAGTCCACAAAGTTTACATATTTTATGAAGTTAGCTTTGATTTAAC
* * *
44601339 AAATTTAGTCCACAACA-TTTACATGTTTTATGAA-TTTGATCTTGATTTAAC
1 AAATTTAGTCCACAA-AGTTTACATATTTTATGAAGTTAGCT-TTGATTTAAC
44601390 AAATTTAG
1 AAATTTAG
44601398 CTGTAACGTT
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
50 4 0.08
51 47 0.90
52 1 0.02
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.43
Consensus pattern (51 bp):
AAATTTAGTCCACAAAGTTTACATATTTTATGAAGTTAGCTTTGATTTAAC
Found at i:44611145 original size:17 final size:17
Alignment explanation
Indices: 44611123--44611156 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
44611113 ACAAATGTTT
44611123 ATATAATTTTTTAATAA
1 ATATAATTTTTTAATAA
*
44611140 ATATAATTTTTTCATAA
1 ATATAATTTTTTAATAA
44611157 TTTTTTCAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (17 bp):
ATATAATTTTTTAATAA
Found at i:44611681 original size:28 final size:29
Alignment explanation
Indices: 44611642--44611711 Score: 92
Period size: 28 Copynumber: 2.4 Consensus size: 29
44611632 TAAAATATTT
*
44611642 TTTTATAAATTTTATATTTTT-CAAAT-AA
1 TTTTATAAATTTTA-ATTTTTAAAAATAAA
44611670 TTTTA-ACAATTTTAATTTTTAAAAATAAA
1 TTTTATA-AATTTTAATTTTTAAAAATAAA
44611699 TTTTATAAATTTT
1 TTTTATAAATTTT
44611712 TGAATTCTTA
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
27 7 0.19
28 16 0.43
29 13 0.35
30 1 0.03
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (29 bp):
TTTTATAAATTTTAATTTTTAAAAATAAA
Found at i:44613509 original size:34 final size:35
Alignment explanation
Indices: 44613452--44613518 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
44613442 AGAAAACAAT
* * * *
44613452 TTATTTTTTAATTTAACATATAAAATTTAATTTAA
1 TTATTTTTTAATATAAAAAATAAAATATAATTTAA
44613487 TTATTTTTTAA-ATAAAAAATAAAATATAATTT
1 TTATTTTTTAATATAAAAAATAAAATATAATTT
44613519 TACTCTTAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 17 0.61
35 11 0.39
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (35 bp):
TTATTTTTTAATATAAAAAATAAAATATAATTTAA
Found at i:44618741 original size:168 final size:166
Alignment explanation
Indices: 44618457--44618956 Score: 660
Period size: 168 Copynumber: 3.0 Consensus size: 166
44618447 ATCAGAGATT
** * *
44618457 GAATATCCATGCAAGAGCCATATTGAAGATCAGGAGAGTGATGATCAAATGTGTCTAAAACCTGT
1 GAATATCCATGCAAGAGCCATATTGAAGATCACAAGAGTGATGATC-AGTGTGTCTAAAACCCGT
* * * * *
44618522 CAAGGAAGAACCTAAAGATGACGTTTGTGATAAACCCTTGCATGGGACTCCTTCATGCAAGGAAA
65 CAAGGAAGAAGCTAAAGATGATGTTTGTGATAAA-CCTTGTATGAGACTCCTCCATGCAAGGAAA
* * * **
44618587 CTAAGAGGAAGAAATCACGATCACTATGTTCTAACGCA
129 CTAGGAGGAAGAAATCACAATCACAATGTTCTAAAACA
* * * *
44618625 GAATATCTATGCAAGAGCTATATTGATGATCATAAGAGTGATGATCAGTTGTGTCTAAAACCCGT
1 GAATATCCATGCAAGAGCCATATTGAAGATCACAAGAGTGATGATCAG-TGTGTCTAAAACCCGT
* *
44618690 CAAGGAAGAAGCTAAAGATGGTGTTTATGATGAAACCTTGTATGAGACTCCTCCATGCAA-GAAA
65 CAAGGAAGAAGCTAAAGATGATGTTTGTGAT-AAACCTTGTATGAGACTCCTCCATGCAAGGAAA
** **
44618754 GCTAGGAGGACTAAATCACAATCACAATGTTCTAAAATT
129 -CTAGGAGGAAGAAATCACAATCACAATGTTCTAAAACA
* *
44618793 GAATATCCATGCAAGAGCCATATTGAAGATCACAAGAGTGAAGATCAAGTGAGTCTAAAACCCGT
1 GAATATCCATGCAAGAGCCATATTGAAGATCACAAGAGTGATGATC-AGTGTGTCTAAAACCCGT
*
44618858 CAAAGAAGAAGCTAAAGATGATGTTTGTGATAAAACCTTGTATGAGACTCCTCCATGCAAGGAAA
65 CAAGGAAGAAGCTAAAGATGATGTTTGTGAT-AAACCTTGTATGAGACTCCTCCATGCAAGGAAA
* * *
44618923 CTAGGAAGAAGAAACCGCAATCACAATGTTCTAA
129 CTAGGAGGAAGAAATCACAATCACAATGTTCTAA
44618957 GCCTCGAAAG
Statistics
Matches: 289, Mismatches: 38, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
167 5 0.02
168 275 0.95
169 9 0.03
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.23
Consensus pattern (166 bp):
GAATATCCATGCAAGAGCCATATTGAAGATCACAAGAGTGATGATCAGTGTGTCTAAAACCCGTC
AAGGAAGAAGCTAAAGATGATGTTTGTGATAAACCTTGTATGAGACTCCTCCATGCAAGGAAACT
AGGAGGAAGAAATCACAATCACAATGTTCTAAAACA
Found at i:44622400 original size:21 final size:20
Alignment explanation
Indices: 44622376--44622415 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
44622366 AAAAAAAAAG
44622376 AAATAGCAACAAAACATTAAA
1 AAATAGCAACAAAAC-TTAAA
*
44622397 AAATAGCAACCAAACTTAA
1 AAATAGCAACAAAACTTAA
44622416 TTTAATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.62, C:0.17, G:0.05, T:0.15
Consensus pattern (20 bp):
AAATAGCAACAAAACTTAAA
Found at i:44624279 original size:63 final size:63
Alignment explanation
Indices: 44624143--44624269 Score: 173
Period size: 63 Copynumber: 2.0 Consensus size: 63
44624133 GCCTAAACAT
* * * *
44624143 ACGCCCGTGTCTCTGGCTCGTATGACTCTAATGCACAAAAAATGAGTTATACGGTTTGGACAC
1 ACGCTCGTGTCTCTGGCCCGTATGACTCTAATGCACAAAAAATGAGTTACACGGTCTGGACAC
* * * * *
44624206 ACGCTCGTGTCTTTGGCCCGTATGACTCTAATGTACAAATAGTGAGTTACATGGTCTGGACAC
1 ACGCTCGTGTCTCTGGCCCGTATGACTCTAATGCACAAAAAATGAGTTACACGGTCTGGACAC
44624269 A
1 A
44624270 TGTCTGTGTC
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
63 55 1.00
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (63 bp):
ACGCTCGTGTCTCTGGCCCGTATGACTCTAATGCACAAAAAATGAGTTACACGGTCTGGACAC
Found at i:44627498 original size:18 final size:18
Alignment explanation
Indices: 44627465--44627515 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
44627455 ATTCACCTAA
*
44627465 ACCCAATCCAAACCCAAGT
1 ACCCAA-CCCAACCCAAGT
** *
44627484 ATTCAACCCAACCCAATT
1 ACCCAACCCAACCCAAGT
44627502 ACCCAACCCAACCC
1 ACCCAACCCAACCC
44627516 TCATAAAAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
18 22 0.85
19 4 0.15
ACGTcount: A:0.39, C:0.47, G:0.02, T:0.12
Consensus pattern (18 bp):
ACCCAACCCAACCCAAGT
Found at i:44627632 original size:9 final size:9
Alignment explanation
Indices: 44627618--44627693 Score: 84
Period size: 9 Copynumber: 8.4 Consensus size: 9
44627608 GTAGAGATTC
44627618 AATTCGGTT
1 AATTCGGTT
44627627 AATTCGGTT
1 AATTCGGTT
44627636 AATTCGAG-T
1 AATTCG-GTT
* *
44627645 AACTCAGTT
1 AATTCGGTT
44627654 AATTCGAG-T
1 AATTCG-GTT
*
44627663 AATCCGGTT
1 AATTCGGTT
*
44627672 AATTCGGGT
1 AATTCGGTT
44627681 AATTCGGTT
1 AATTCGGTT
44627690 AATT
1 AATT
44627694 TTTAACCAAA
Statistics
Matches: 55, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
8 2 0.04
9 51 0.93
10 2 0.04
ACGTcount: A:0.28, C:0.13, G:0.21, T:0.38
Consensus pattern (9 bp):
AATTCGGTT
Found at i:44627641 original size:18 final size:18
Alignment explanation
Indices: 44627626--44627693 Score: 100
Period size: 18 Copynumber: 3.8 Consensus size: 18
44627616 TCAATTCGGT
44627626 TAATTCGGTTAATTCGAG
1 TAATTCGGTTAATTCGAG
* *
44627644 TAACTCAGTTAATTCGAG
1 TAATTCGGTTAATTCGAG
* *
44627662 TAATCCGGTTAATTCGGG
1 TAATTCGGTTAATTCGAG
44627680 TAATTCGGTTAATT
1 TAATTCGGTTAATT
44627694 TTTAACCAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 43 1.00
ACGTcount: A:0.28, C:0.13, G:0.21, T:0.38
Consensus pattern (18 bp):
TAATTCGGTTAATTCGAG
Found at i:44627659 original size:36 final size:36
Alignment explanation
Indices: 44627618--44627693 Score: 100
Period size: 36 Copynumber: 2.1 Consensus size: 36
44627608 GTAGAGATTC
*
44627618 AATTCG-GTTAATTCGGTTAATTCGAGTAACTCAGTT
1 AATTCGAG-TAATCCGGTTAATTCGAGTAACTCAGTT
* * *
44627654 AATTCGAGTAATCCGGTTAATTCGGGTAATTCGGTT
1 AATTCGAGTAATCCGGTTAATTCGAGTAACTCAGTT
44627690 AATT
1 AATT
44627694 TTTAACCAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
36 34 0.97
37 1 0.03
ACGTcount: A:0.28, C:0.13, G:0.21, T:0.38
Consensus pattern (36 bp):
AATTCGAGTAATCCGGTTAATTCGAGTAACTCAGTT
Found at i:44639212 original size:21 final size:22
Alignment explanation
Indices: 44639166--44639213 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
44639156 TGCATTTGAT
* * *
44639166 TCTGATATGTTTTGCATCTATA
1 TCTGATATGTTCTACACCTATA
44639188 TCTGATATGTTCTACACCT-TA
1 TCTGATATGTTCTACACCTATA
44639209 TCTGA
1 TCTGA
44639214 ACTGGTACGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 7 0.30
22 16 0.70
ACGTcount: A:0.23, C:0.19, G:0.12, T:0.46
Consensus pattern (22 bp):
TCTGATATGTTCTACACCTATA
Found at i:44642479 original size:80 final size:80
Alignment explanation
Indices: 44642346--44642500 Score: 301
Period size: 80 Copynumber: 1.9 Consensus size: 80
44642336 CGCAACGGCG
*
44642346 CATCGTATTCATACTACCCGAATCACGACACGTAGGCATTACAACTATCGTATACTAAAGAGAAA
1 CATCGTATCCATACTACCCGAATCACGACACGTAGGCATTACAACTATCGTATACTAAAGAGAAA
44642411 GAGTAAAGAACGACA
66 GAGTAAAGAACGACA
44642426 CATCGTATCCATACTACCCGAATCACGACACGTAGGCATTACAACTATCGTATACTAAAGAGAAA
1 CATCGTATCCATACTACCCGAATCACGACACGTAGGCATTACAACTATCGTATACTAAAGAGAAA
44642491 GAGTAAAGAA
66 GAGTAAAGAA
44642501 AACGTACCAA
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
80 74 1.00
ACGTcount: A:0.41, C:0.23, G:0.16, T:0.20
Consensus pattern (80 bp):
CATCGTATCCATACTACCCGAATCACGACACGTAGGCATTACAACTATCGTATACTAAAGAGAAA
GAGTAAAGAACGACA
Found at i:44644966 original size:17 final size:17
Alignment explanation
Indices: 44644946--44645013 Score: 61
Period size: 18 Copynumber: 3.9 Consensus size: 17
44644936 AAACGCACCA
44644946 TTTCATTTTCTTTTTAT
1 TTTCATTTTCTTTTTAT
*
44644963 TTTCATTTTAGTTTTTAT
1 TTTCATTTT-CTTTTTAT
44644981 TTT--TCTTTCTTTTT-T
1 TTTCAT-TTTCTTTTTAT
*
44644996 CCCTTCATTTTCTTTTTA
1 --TTTCATTTTCTTTTTA
44645014 CATCCCCTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 12
0.73 0.05 0.21
Matches are distributed among these distances:
15 1 0.02
16 6 0.15
17 14 0.34
18 19 0.46
19 1 0.02
ACGTcount: A:0.10, C:0.15, G:0.01, T:0.74
Consensus pattern (17 bp):
TTTCATTTTCTTTTTAT
Found at i:44645139 original size:9 final size:9
Alignment explanation
Indices: 44645103--44645132 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
44645093 CTTCTTCTCG
44645103 TTTTATTTT
1 TTTTATTTT
44645112 TTTTATTTT
1 TTTTATTTT
*
44645121 TTTTGTTTT
1 TTTTATTTT
44645130 TTT
1 TTT
44645133 GTTTTTTCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.07, C:0.00, G:0.03, T:0.90
Consensus pattern (9 bp):
TTTTATTTT
Found at i:44645164 original size:17 final size:16
Alignment explanation
Indices: 44645135--44645175 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
44645125 GTTTTTTTGT
44645135 TTTTTCTTCTTCTTTA
1 TTTTTCTTCTTCTTTA
* *
44645151 TTTTTCTATTTTCTTTC
1 TTTTTCT-TCTTCTTTA
44645168 TTTTTCTT
1 TTTTTCTT
44645176 TCCCCTCCTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 8 0.36
17 14 0.64
ACGTcount: A:0.05, C:0.17, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTTTCTTCTTCTTTA
Found at i:44646174 original size:23 final size:23
Alignment explanation
Indices: 44646147--44646194 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
44646137 TTTCATTGTG
*
44646147 AAAAAAAATGAATGAAAAAAATTT
1 AAAAAAAAAGAA-GAAAAAAATTT
*
44646171 AAAAAAAAAGAAGAAAAAATTTT
1 AAAAAAAAAGAAGAAAAAAATTT
44646194 A
1 A
44646195 GTCTATCTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 11 0.50
24 11 0.50
ACGTcount: A:0.73, C:0.00, G:0.08, T:0.19
Consensus pattern (23 bp):
AAAAAAAAAGAAGAAAAAAATTT
Found at i:44651435 original size:23 final size:22
Alignment explanation
Indices: 44651405--44651488 Score: 120
Period size: 21 Copynumber: 3.9 Consensus size: 22
44651395 NNNNNNNNNN
44651405 AGGCACTTTATGTGTCGTATCTC
1 AGGCACTTTATGTGTCGTAT-TC
44651428 AGGCACTTTATGTGTCGTA-TC
1 AGGCACTTTATGTGTCGTATTC
**
44651449 AGGCACTTCGTGTGTCGT-TTC
1 AGGCACTTTATGTGTCGTATTC
44651470 AGGCAC-TTATGTGTCGTAT
1 AGGCACTTTATGTGTCGTAT
44651489 ACTGATAAGG
Statistics
Matches: 55, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
20 9 0.16
21 27 0.49
23 19 0.35
ACGTcount: A:0.17, C:0.20, G:0.25, T:0.38
Consensus pattern (22 bp):
AGGCACTTTATGTGTCGTATTC
Found at i:44655882 original size:31 final size:30
Alignment explanation
Indices: 44655847--44655912 Score: 96
Period size: 30 Copynumber: 2.2 Consensus size: 30
44655837 AGTTGATGAA
44655847 GAAAAGAGAAATGGTACAGCATGGTACGGTG
1 GAAAA-AGAAATGGTACAGCATGGTACGGTG
***
44655878 GAAAATTTAATGGTACAGCATGGTACGGTG
1 GAAAAAGAAATGGTACAGCATGGTACGGTG
44655908 GAAAA
1 GAAAA
44655913 TTTTAGTATT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
30 27 0.84
31 5 0.16
ACGTcount: A:0.39, C:0.09, G:0.32, T:0.20
Consensus pattern (30 bp):
GAAAAAGAAATGGTACAGCATGGTACGGTG
Found at i:44655890 original size:30 final size:30
Alignment explanation
Indices: 44655856--44655915 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
44655846 AGAAAAGAGA
44655856 AATGGTACAGCATGGTACGGTGGAAAATTT
1 AATGGTACAGCATGGTACGGTGGAAAATTT
44655886 AATGGTACAGCATGGTACGGTGGAAAATTT
1 AATGGTACAGCATGGTACGGTGGAAAATTT
44655916 TAGTATTGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.33, C:0.10, G:0.30, T:0.27
Consensus pattern (30 bp):
AATGGTACAGCATGGTACGGTGGAAAATTT
Found at i:44657594 original size:15 final size:16
Alignment explanation
Indices: 44657564--44657595 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
44657554 TTATATTATA
44657564 AAAATATTATTAAATT
1 AAAATATTATTAAATT
44657580 AAAATATTA-TAAATT
1 AAAATATTATTAAATT
44657595 A
1 A
44657596 TATTAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
AAAATATTATTAAATT
Found at i:44657599 original size:25 final size:26
Alignment explanation
Indices: 44657556--44657608 Score: 74
Period size: 24 Copynumber: 2.1 Consensus size: 26
44657546 TTCTTGATTT
44657556 ATATTATAAAAATATTATTAAATTAAA
1 ATATTATAAAAATATTATT-AATTAAA
*
44657583 ATATTAT-AAATTA-TATTAATTAAA
1 ATATTATAAAAATATTATTAATTAAA
44657607 AT
1 AT
44657609 TAAGATAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 9 0.36
25 4 0.16
26 5 0.20
27 7 0.28
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (26 bp):
ATATTATAAAAATATTATTAATTAAA
Found at i:44657616 original size:25 final size:22
Alignment explanation
Indices: 44657566--44657623 Score: 53
Period size: 24 Copynumber: 2.4 Consensus size: 22
44657556 ATATTATAAA
**
44657566 AATATTATTAAATTAAAATATTAT
1 AATA-TATT-AATTAAAATAAGAT
44657590 AAATTATATTAATTAAAATTAAGAT
1 -AA-TATATTAATTAAAA-TAAGAT
44657615 AATATATTA
1 AATATATTA
44657624 TAGGAAACAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
23 7 0.24
24 10 0.34
25 10 0.34
26 2 0.07
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (22 bp):
AATATATTAATTAAAATAAGAT
Found at i:44657623 original size:28 final size:27
Alignment explanation
Indices: 44657567--44657625 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 27
44657557 TATTATAAAA
44657567 ATATTATTAAATTAAAATATTATAAATT
1 ATATTATTAAATTAAAATA-TATAAATT
* *
44657595 ATATTAATTAAAATTAAGATA-ATATATT
1 ATATT-ATT-AAATTAAAATATATAAATT
44657623 ATA
1 ATA
44657626 GGAAACAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 14 0.52
29 3 0.11
30 10 0.37
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (27 bp):
ATATTATTAAATTAAAATATATAAATT
Found at i:44657879 original size:22 final size:22
Alignment explanation
Indices: 44657840--44657887 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
44657830 AACAAAAAGA
44657840 AAAAGAAACAAAAGAAGA-ACAG
1 AAAAGAAACAAAAGAAGAGAC-G
*
44657862 AAAAGAAAC-AGAGAAAGAGACG
1 AAAAGAAACAAAAG-AAGAGACG
44657884 AAAA
1 AAAA
44657888 CAGGGGAAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
21 3 0.13
22 18 0.78
23 2 0.09
ACGTcount: A:0.71, C:0.08, G:0.21, T:0.00
Consensus pattern (22 bp):
AAAAGAAACAAAAGAAGAGACG
Found at i:44658569 original size:12 final size:12
Alignment explanation
Indices: 44658552--44658600 Score: 53
Period size: 12 Copynumber: 4.1 Consensus size: 12
44658542 ATGTGAGGTA
44658552 AGTATTAATATT
1 AGTATTAATATT
*
44658564 AGTATTTATATT
1 AGTATTAATATT
* *
44658576 ATTATTAGTATT
1 AGTATTAATATT
* *
44658588 ACTATTATTATT
1 AGTATTAATATT
44658600 A
1 A
44658601 TGAGTGGGAG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.37, C:0.02, G:0.06, T:0.55
Consensus pattern (12 bp):
AGTATTAATATT
Found at i:44658581 original size:18 final size:18
Alignment explanation
Indices: 44658554--44658600 Score: 69
Period size: 18 Copynumber: 2.6 Consensus size: 18
44658544 GTGAGGTAAG
*
44658554 TATTAATATTAGTATTTA-
1 TATTATTATTAGTA-TTAC
44658572 TATTATTATTAGTATTAC
1 TATTATTATTAGTATTAC
44658590 TATTATTATTA
1 TATTATTATTA
44658601 TGAGTGGGAG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 3 0.11
18 24 0.89
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.57
Consensus pattern (18 bp):
TATTATTATTAGTATTAC
Found at i:44660106 original size:25 final size:25
Alignment explanation
Indices: 44660049--44660114 Score: 64
Period size: 25 Copynumber: 2.6 Consensus size: 25
44660039 ATTAATTAGA
44660049 AAGCTCATGAAAGAGCCTTTCATCGAG
1 AAGCTCAT--AAGAGCCTTTCATCGAG
*
44660076 AAGCTC-TAGAGAGCCTTGT-ATCGGG
1 AAGCTCATA-AGAGCCTT-TCATCGAG
*
44660101 ATGCTCATAAGAGC
1 AAGCTCATAAGAGC
44660115 TGTGGTGTGT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
24 1 0.03
25 23 0.68
26 4 0.12
27 6 0.18
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.23
Consensus pattern (25 bp):
AAGCTCATAAGAGCCTTTCATCGAG
Found at i:44667319 original size:25 final size:25
Alignment explanation
Indices: 44667291--44667347 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
44667281 ATTCGAGAAT
*
44667291 GCTCATACGAGCACATA-AATGGGAA
1 GCTCATACGAGC-CATATAACGGGAA
* *
44667316 GCTCTTTCGAGCCATATAACGGGAA
1 GCTCATACGAGCCATATAACGGGAA
44667341 GCTCATA
1 GCTCATA
44667348 AAAGCCGTAA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
24 4 0.15
25 22 0.85
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.21
Consensus pattern (25 bp):
GCTCATACGAGCCATATAACGGGAA
Found at i:44679031 original size:17 final size:18
Alignment explanation
Indices: 44679009--44679044 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
44678999 CCTCAATAAG
*
44679009 CACTTATATAAA-TCAAA
1 CACTTACATAAACTCAAA
44679026 CACTTACATAAACTCAAA
1 CACTTACATAAACTCAAA
44679044 C
1 C
44679045 CTTTCCATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (18 bp):
CACTTACATAAACTCAAA
Found at i:44679331 original size:42 final size:42
Alignment explanation
Indices: 44679235--44679428 Score: 207
Period size: 42 Copynumber: 4.6 Consensus size: 42
44679225 CAATTCCATA
* * *
44679235 TCCCAGATATGGTCTTACATGCTATCAT-ATATCGATGCCAATAG
1 TCCCAGACATGGTCTTACACG-AATC-TCATATCGATGCCAAT-G
* * *
44679279 --CTAG-CTATGGTCTTACACGATTCTCATATCGATGTCAATG
1 TCCCAGAC-ATGGTCTTACACGAATCTCATATCGATGCCAATG
44679319 TCCCAGACATGGTCTTACACGAATCTCATATCGATGCCAATG
1 TCCCAGACATGGTCTTACACGAATCTCATATCGATGCCAATG
* * * * *
44679361 TCCCAGACATGGTCTTACATGAATCACATAACAAAGCCAATG
1 TCCCAGACATGGTCTTACACGAATCTCATATCGATGCCAATG
*
44679403 TCCTAGACATGGTCTTACACGTAATC
1 TCCCAGACATGGTCTTACACG-AATC
44679429 ACATTTCAGT
Statistics
Matches: 128, Mismatches: 16, Indels: 13
0.82 0.10 0.08
Matches are distributed among these distances:
40 2 0.02
41 15 0.12
42 106 0.83
43 5 0.04
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (42 bp):
TCCCAGACATGGTCTTACACGAATCTCATATCGATGCCAATG
Found at i:44681699 original size:24 final size:24
Alignment explanation
Indices: 44681658--44681717 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
44681648 AAATAATAAT
*
44681658 AATAATAATATAGT-ATAACTTTTA-
1 AATAATAATACA-TAATAA-TTTTAG
*
44681682 AGTAATAATACATAATAATTTTAG
1 AATAATAATACATAATAATTTTAG
44681706 AATAATAATACA
1 AATAATAATACA
44681718 CTATGATTTC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
23 6 0.19
24 25 0.81
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.37
Consensus pattern (24 bp):
AATAATAATACATAATAATTTTAG
Found at i:44681726 original size:24 final size:22
Alignment explanation
Indices: 44681658--44681726 Score: 66
Period size: 24 Copynumber: 2.9 Consensus size: 22
44681648 AAATAATAAT
*
44681658 AATAATAATATAGTATAACTTTTA
1 AATAATAATACA-TATAA-TTTTA
*
44681682 AGTAATAATACATAATAATTTTA
1 AATAATAATACAT-ATAATTTTA
*
44681705 GAATAATAATACACTATGATTT
1 -AATAATAATACA-TATAATTT
44681727 CGAAAATATG
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
23 6 0.16
24 31 0.82
25 1 0.03
ACGTcount: A:0.49, C:0.06, G:0.06, T:0.39
Consensus pattern (22 bp):
AATAATAATACATATAATTTTA
Found at i:44681850 original size:9 final size:9
Alignment explanation
Indices: 44681812--44681853 Score: 52
Period size: 9 Copynumber: 4.8 Consensus size: 9
44681802 AACTTAAAAT
44681812 ATAGTACATA
1 ATAGTA-ATA
44681822 A-A-TAATA
1 ATAGTAATA
*
44681829 ATAATAATA
1 ATAGTAATA
44681838 ATAGTAATA
1 ATAGTAATA
44681847 ATAGTAA
1 ATAGTAA
44681854 AAGGTTTAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
7 4 0.14
8 3 0.10
9 21 0.72
10 1 0.03
ACGTcount: A:0.60, C:0.02, G:0.07, T:0.31
Consensus pattern (9 bp):
ATAGTAATA
Found at i:44681910 original size:24 final size:24
Alignment explanation
Indices: 44681869--44681928 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 24
44681859 TTAGTTGAAA
*
44681869 AATAATAATATAGT-ATAACTTATA-
1 AATAATAATACA-TAATAA-TTATAG
* *
44681893 AGTAATAATACATAATAATTTTAG
1 AATAATAATACATAATAATTATAG
44681917 AATAATAATACA
1 AATAATAATACA
44681929 CAATGATTTC
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
23 5 0.17
24 25 0.83
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.35
Consensus pattern (24 bp):
AATAATAATACATAATAATTATAG
Found at i:44682055 original size:210 final size:211
Alignment explanation
Indices: 44681658--44682075 Score: 793
Period size: 210 Copynumber: 2.0 Consensus size: 211
44681648 AAATAATAAT
* *
44681658 AATAATAATATAGTATAACTTTTAAGTAATAATACATAATAATTTTAGAATAATAATACACTATG
1 AATAATAATATAGTATAACTTATAAGTAATAATACATAATAATTTTAGAATAATAATACACAATG
*
44681723 ATTTCGAAAATATGAATACATAATACATGATGAAAATAAAAAGTAATGCATAATAGGTTTAAAAT
66 ATTTCGAAAACATGAATACATAATACATGATGAAAATAAAAAGTAATGCATAATAGGTTTAAAAT
44681788 AATAATATGTAGTAAACTTAAAATATAGTACATAAATAATAATAATAATAATAGTAATAATAGTA
131 AATAATATGTAGTAAACTTAAAATATAGTACATAAATAATAATAATAATAATAGTAATAATAGTA
44681853 AAAGGTTTAGTTGAAA
196 AAAGGTTTAGTTGAAA
44681869 AATAATAATATAGTATAACTTATAAGTAATAATACATAATAATTTTAGAATAATAATACACAATG
1 AATAATAATATAGTATAACTTATAAGTAATAATACATAATAATTTTAGAATAATAATACACAATG
*
44681934 ATTTCGAAAACATGAATGCATAATACATGATG-AAATAAAAAGTAATGCATAATAGGTTTAAAAT
66 ATTTCGAAAACATGAATACATAATACATGATGAAAATAAAAAGTAATGCATAATAGGTTTAAAAT
44681998 AATAATATGTAGTAAACTTAAAATATAGTACATAAATAATAATAATAATAATAGTAATAATAGTA
131 AATAATATGTAGTAAACTTAAAATATAGTACATAAATAATAATAATAATAATAGTAATAATAGTA
44682063 AAAGGTTTAGTTG
196 AAAGGTTTAGTTG
44682076 TCATAAAAAC
Statistics
Matches: 203, Mismatches: 4, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
210 110 0.54
211 93 0.46
ACGTcount: A:0.52, C:0.05, G:0.10, T:0.32
Consensus pattern (211 bp):
AATAATAATATAGTATAACTTATAAGTAATAATACATAATAATTTTAGAATAATAATACACAATG
ATTTCGAAAACATGAATACATAATACATGATGAAAATAAAAAGTAATGCATAATAGGTTTAAAAT
AATAATATGTAGTAAACTTAAAATATAGTACATAAATAATAATAATAATAATAGTAATAATAGTA
AAAGGTTTAGTTGAAA
Found at i:44682060 original size:9 final size:9
Alignment explanation
Indices: 44682022--44682063 Score: 52
Period size: 9 Copynumber: 4.8 Consensus size: 9
44682012 AACTTAAAAT
44682022 ATAGTACATA
1 ATAGTA-ATA
44682032 A-A-TAATA
1 ATAGTAATA
*
44682039 ATAATAATA
1 ATAGTAATA
44682048 ATAGTAATA
1 ATAGTAATA
44682057 ATAGTAA
1 ATAGTAA
44682064 AAGGTTTAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
7 4 0.14
8 3 0.10
9 21 0.72
10 1 0.03
ACGTcount: A:0.60, C:0.02, G:0.07, T:0.31
Consensus pattern (9 bp):
ATAGTAATA
Found at i:44682131 original size:210 final size:211
Alignment explanation
Indices: 44681661--44682134 Score: 674
Period size: 210 Copynumber: 2.3 Consensus size: 211
44681651 TAATAATAAT
* * * * ** * *
44681661 AATAATATAGTATAACTTTTAAGTAATAATACATAATAATTTTAGAATAATAATACACTATGATT
1 AATAACATAGTAAAAATTATAAGTAATAATACATAATAAAATAAGAATAATAATACACAATGATT
*
44681726 TCGAAAATATGAATACATAATACATGATGAAAATAAAAAGTAATGCATAATAGGTTTAAAATAAT
66 TCGAAAACATGAATACATAATACATGATGAAAATAAAAAGTAATGCATAATAGGTTTAAAATAAT
44681791 AATATGTAGTAAACTTAAAATATAGTACATAAATAATAATAATAATAATAGTAATAATAGTAAAA
131 AATATGTAGTAAACTTAAAATATAGTACATAAATAATAATAATAATAATAGTAATAATAGTAAAA
*
44681856 GGTTTAGTTGAAAAAT
196 GGTTTAGTTGAAAAAC
* * * ** *
44681872 AATAATATAGTATAACTTATAAGTAATAATACATAATAATTTTAGAATAATAATACACAATGATT
1 AATAACATAGTAAAAATTATAAGTAATAATACATAATAAAATAAGAATAATAATACACAATGATT
*
44681937 TCGAAAACATGAATGCATAATACATGATG-AAATAAAAAGTAATGCATAATAGGTTTAAAATAAT
66 TCGAAAACATGAATACATAATACATGATGAAAATAAAAAGTAATGCATAATAGGTTTAAAATAAT
44682001 AATATGTAGTAAACTTAAAATATAGTACATAAATAATAATAATAATAATAGTAATAATAGTAAAA
131 AATATGTAGTAAACTTAAAATATAGTACATAAATAATAATAATAATAATAGTAATAATAGTAAAA
44682066 GGTTTAGTTGTCATAAAAAC
196 GGTTTAGTTG----AAAAAC
* *
44682086 AATAAACAT-TTACAAAATTA-AA-TGA-AATAC-TAA-AAAATAAGAATAATAA
1 AAT-AACATAGTA-AAAATTATAAGTAATAATACATAATAAAATAAGAATAATAA
44682135 AGAGTAATCG
Statistics
Matches: 244, Mismatches: 13, Indels: 13
0.90 0.05 0.05
Matches are distributed among these distances:
210 123 0.50
211 93 0.38
212 5 0.02
213 2 0.01
214 12 0.05
215 9 0.04
ACGTcount: A:0.54, C:0.05, G:0.09, T:0.31
Consensus pattern (211 bp):
AATAACATAGTAAAAATTATAAGTAATAATACATAATAAAATAAGAATAATAATACACAATGATT
TCGAAAACATGAATACATAATACATGATGAAAATAAAAAGTAATGCATAATAGGTTTAAAATAAT
AATATGTAGTAAACTTAAAATATAGTACATAAATAATAATAATAATAATAGTAATAATAGTAAAA
GGTTTAGTTGAAAAAC
Found at i:44683675 original size:44 final size:44
Alignment explanation
Indices: 44683588--44683675 Score: 122
Period size: 44 Copynumber: 2.0 Consensus size: 44
44683578 TTTTAATCCA
* *
44683588 CTCCACTGTAATCTCAGGGAGATAGGATTACTAGCATCCATCTG
1 CTCCACTGTAATCTCAGGGAGATAAGATTACTAGCATCAATCTG
* * * *
44683632 CTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTG
1 CTCCACTGTAATCTCAGGGAGATAAGATTACTAGCATCAATCTG
44683676 ATGCGATCTA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.30
Consensus pattern (44 bp):
CTCCACTGTAATCTCAGGGAGATAAGATTACTAGCATCAATCTG
Found at i:44683869 original size:96 final size:97
Alignment explanation
Indices: 44683631--44683869 Score: 381
Period size: 98 Copynumber: 2.5 Consensus size: 97
44683621 GCATCCATCT
*
44683631 GCTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGATGCGATCTACTCTACTGTA
1 GCTCCACTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGATGCGATCTACTCTACTGTA
44683696 ACTTCAGAGAGATAAGATCCTTTATTTTAATCC
66 ACTT-AGAGAGATAAGATCCTTTATTTTAATCC
*
44683729 GCTCCACTGTAATCTTAGGGAGATAAGATTTCTGGCTTCAATCTGATGCGATCTACTCTACTGTA
1 GCTCCACTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGATGCGATCTACTCTACTGTA
* *
44683794 ACTT-TAGAGATAAGATCCTTTATTTTAATTC
66 ACTTAGAGAGATAAGATCCTTTATTTTAATCC
* * * * *
44683825 GCTCCACTATAATCTCAGGGAGATAGGATTACTAGCTTCCATCTG
1 GCTCCACTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTG
44683870 CTCCACTGTA
Statistics
Matches: 131, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
96 64 0.49
98 67 0.51
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (97 bp):
GCTCCACTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGATGCGATCTACTCTACTGTA
ACTTAGAGAGATAAGATCCTTTATTTTAATCC
Found at i:44683874 original size:44 final size:44
Alignment explanation
Indices: 44683825--44683942 Score: 182
Period size: 44 Copynumber: 2.7 Consensus size: 44
44683815 ATTTTAATTC
* * *
44683825 GCTCCACTATAATCTCAGGGAGATAGGATTACTAGCTTCCATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCT
*
44683869 GCTCCACTGTAATCTCAGGGAGATAAGATTTCTAGCTTCAATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCT
* *
44683913 GCTCTACTGTAATCTCAGAGAGATAAGATT
1 GCTCCACTGTAATCTCAGGGAGATAAGATT
44683943 CGTCATTTTC
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
44 68 1.00
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.31
Consensus pattern (44 bp):
GCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCT
Found at i:44685412 original size:14 final size:14
Alignment explanation
Indices: 44685404--44685439 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
44685394 ATTTTTACTC
*
44685404 TTTCATTTTTCATT
1 TTTCATCTTTCATT
44685418 TTTCAT-TTTCATT
1 TTTCATCTTTCATT
44685431 TTTCATCTT
1 TTTCATCTT
44685440 CTCCTTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 13 0.62
14 8 0.38
ACGTcount: A:0.14, C:0.17, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTCATCTTTCATT
Found at i:44685426 original size:6 final size:7
Alignment explanation
Indices: 44685404--44685436 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
44685394 ATTTTTACTC
44685404 TTTCATT
1 TTTCATT
44685411 TTTCATT
1 TTTCATT
44685418 TTTCA-T
1 TTTCATT
44685424 TTTCATT
1 TTTCATT
44685431 TTTCAT
1 TTTCAT
44685437 CTTCTCCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 6 0.24
7 19 0.76
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (7 bp):
TTTCATT
Found at i:44685811 original size:21 final size:22
Alignment explanation
Indices: 44685781--44685828 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 22
44685771 CCTTTGCGGG
44685781 TTTTCGCTTTGGCCTCTTTT-CT
1 TTTTCGCTTTGGCCT-TTTTCCT
**
44685803 TTTTC-CTTTTTCCTTTTTCCT
1 TTTTCGCTTTGGCCTTTTTCCT
44685824 TTTTC
1 TTTTC
44685829 TTCTCTCTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 4 0.17
21 14 0.61
22 5 0.22
ACGTcount: A:0.00, C:0.27, G:0.06, T:0.67
Consensus pattern (22 bp):
TTTTCGCTTTGGCCTTTTTCCT
Found at i:44685838 original size:27 final size:26
Alignment explanation
Indices: 44685809--44685892 Score: 82
Period size: 27 Copynumber: 3.2 Consensus size: 26
44685799 TTCTTTTTCC
*
44685809 TTTTTCCTTTTTCCTTTTTCTTCTCT
1 TTTTTTCTTTTTCCTTTTTCTTCTCT
* * *
44685835 CTTTTTTCATTTTCATTTTGACCTT-TCT
1 -TTTTTTCTTTTTCCTTTT--TCTTCTCT
*
44685863 TTTTTTATTTTT-CTTTTTCTTCTCT
1 TTTTTTCTTTTTCCTTTTTCTTCTCT
44685888 TTTTT
1 TTTTT
44685893 GTTTTTGATT
Statistics
Matches: 46, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
24 3 0.07
25 8 0.17
26 4 0.09
27 25 0.54
28 3 0.07
29 3 0.07
ACGTcount: A:0.05, C:0.20, G:0.01, T:0.74
Consensus pattern (26 bp):
TTTTTTCTTTTTCCTTTTTCTTCTCT
Done.