Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 3 of 349
Found at i:849720 original size:19 final size:19
Alignment explanation
Indices: 849696--849734 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
849686 ATATATGTAT
849696 ATAAAATAAACAAAAT-AAA
1 ATAAAATAAA-AAAATGAAA
849715 ATAAAATAAAAAAATGAAA
1 ATAAAATAAAAAAATGAAA
849734 A
1 A
849735 ATGAACAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.79, C:0.03, G:0.03, T:0.15
Consensus pattern (19 bp):
ATAAAATAAAAAAATGAAA
Found at i:850011 original size:9 final size:8
Alignment explanation
Indices: 849982--850025 Score: 54
Period size: 8 Copynumber: 5.4 Consensus size: 8
849972 AGATGTTAGG
*
849982 TTTTTTCT
1 TTTTTTAT
849990 TTTTCTTCAT
1 TTTT-TT-AT
850000 TTTTTTAT
1 TTTTTTAT
850008 TTTTTTA-
1 TTTTTTAT
850015 TTTTTTAT
1 TTTTTTAT
850023 TTT
1 TTT
850026 GGGTTGTATT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
7 7 0.22
8 16 0.50
9 4 0.12
10 5 0.16
ACGTcount: A:0.09, C:0.07, G:0.00, T:0.84
Consensus pattern (8 bp):
TTTTTTAT
Found at i:866047 original size:11 final size:11
Alignment explanation
Indices: 866031--866056 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
866021 TAATCTAATC
866031 TTTAATCAAAA
1 TTTAATCAAAA
866042 TTTAATCAAAA
1 TTTAATCAAAA
866053 TTTA
1 TTTA
866057 TTAACTCAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (11 bp):
TTTAATCAAAA
Found at i:868228 original size:47 final size:47
Alignment explanation
Indices: 868110--868229 Score: 109
Period size: 47 Copynumber: 2.5 Consensus size: 47
868100 ACCTCGAGTG
****
868110 GATGAGGCACTATAAGTGTCGTACTGTTACTGTTACTTCGGTTTAATCT
1 GATGAGGCAC--TAAGTGTCGTACTGTTACTGTTACTTCGACAAAATCT
** * * *
868159 GATGAGATACTGAGT-ACTGTACTGTTACATTTTACTTCGACAAAATC-
1 GATGAGGCACTAAGTGTC-GTACTGTTAC-TGTTACTTCGACAAAATCT
868206 GATGAGGCACTAAGTGTCGTACTG
1 GATGAGGCACTAAGTGTCGTACTG
868230 GTGTGTTGGT
Statistics
Matches: 55, Mismatches: 13, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
46 1 0.02
47 32 0.58
48 14 0.25
49 8 0.15
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.34
Consensus pattern (47 bp):
GATGAGGCACTAAGTGTCGTACTGTTACTGTTACTTCGACAAAATCT
Found at i:870484 original size:31 final size:31
Alignment explanation
Indices: 870449--870544 Score: 104
Period size: 31 Copynumber: 3.1 Consensus size: 31
870439 TTTCCTTCTC
* *
870449 AACGAATCCGATTCGATGTTAGATACGAATT
1 AACGAATCCGATTCGACGTTAGATACGGATT
** *
870480 AACGAATCCGAGCCGGCGTTAGATACGGATT
1 AACGAATCCGATTCGACGTTAGATACGGATT
* * *
870511 AACAAATCAGAGTT-GACGTTAGATATGGATT
1 AACGAATCCGA-TTCGACGTTAGATACGGATT
870542 AAC
1 AAC
870545 ATAAAACATA
Statistics
Matches: 53, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
31 53 1.00
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.25
Consensus pattern (31 bp):
AACGAATCCGATTCGACGTTAGATACGGATT
Found at i:875571 original size:32 final size:32
Alignment explanation
Indices: 875535--875599 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
875525 TGTATGCATT
*
875535 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATAGATGATGGGCA
875567 TTAGCATTTTAATAGTTAATAGATGATGGGCA
1 TTAGCATTTTAATAGTTAATAGATGATGGGCA
875599 T
1 T
875600 GGTAAGCATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.32, C:0.06, G:0.23, T:0.38
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAATAGATGATGGGCA
Found at i:877110 original size:26 final size:26
Alignment explanation
Indices: 877080--877132 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
877070 TTTATAGTTT
*
877080 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCCAAA
*
877106 TACCCCTAGGGTTAAATTGACCCAAA
1 TACCCCTAGGGATAAATTGACCCAAA
877132 T
1 T
877133 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.25, G:0.15, T:0.23
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCCAAA
Found at i:879368 original size:17 final size:19
Alignment explanation
Indices: 879326--879369 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
879316 ATGAAATTTT
*
879326 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
879345 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
879363 AA-TATTA
1 AATTATTA
879370 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:880023 original size:24 final size:25
Alignment explanation
Indices: 879968--880023 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 25
879958 TTGGTGCCGA
*
879968 TTTCTTCTTCCTTTCTTTTTCCTTC
1 TTTCTTCTTCCTTCCTTTTTCCTTC
* * *
879993 ATT-TTCTTTCTTCCTTTTTGCTT-
1 TTTCTTCTTCCTTCCTTTTTCCTTC
880016 TTTCTTCT
1 TTTCTTCT
880024 AGCTGAAACC
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
23 2 0.08
24 21 0.84
25 2 0.08
ACGTcount: A:0.02, C:0.27, G:0.02, T:0.70
Consensus pattern (25 bp):
TTTCTTCTTCCTTCCTTTTTCCTTC
Found at i:881422 original size:65 final size:65
Alignment explanation
Indices: 881318--881448 Score: 244
Period size: 65 Copynumber: 2.0 Consensus size: 65
881308 CCCCTAGGGT
881318 TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTACTACATGCCATGTTATTATTATCTGA
1 TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTACTACATGCCATGTTATTATTATCTGA
* *
881383 TAAGGTTGACCTGAATGCATGTTTGACTGTTACTTTTTACTGCATGCCATGTTATTATTATCTGA
1 TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTACTACATGCCATGTTATTATTATCTGA
881448 T
1 T
881449 GCATGGGACT
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
65 64 1.00
ACGTcount: A:0.24, C:0.15, G:0.18, T:0.43
Consensus pattern (65 bp):
TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTACTACATGCCATGTTATTATTATCTGA
Found at i:884927 original size:46 final size:46
Alignment explanation
Indices: 884867--885090 Score: 360
Period size: 46 Copynumber: 4.9 Consensus size: 46
884857 TTTGACATGA
* * * * * * *
884867 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGC
*
884913 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
884959 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
885005 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
885051 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATA
885091 CCAGAGAGCA
Statistics
Matches: 170, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
45 4 0.02
46 166 0.98
ACGTcount: A:0.23, C:0.25, G:0.15, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
Found at i:887531 original size:30 final size:30
Alignment explanation
Indices: 887464--887531 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
887454 CACCCTTAAA
* * *
887464 ATATTTGCACTATTAGTCCTTCAACTTTTC
1 ATATTTACACTATTAATCCTTCAAATTTTC
*
887494 ATATTTACACT-TTAATCCTTCAAATTTTG
1 ATATTTACACTATTAATCCTTCAAATTTTC
887523 AGTATTTAC
1 A-TATTTAC
887532 TCTTGGGCCA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.28, C:0.19, G:0.06, T:0.47
Consensus pattern (30 bp):
ATATTTACACTATTAATCCTTCAAATTTTC
Found at i:889232 original size:26 final size:26
Alignment explanation
Indices: 889184--889233 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
889174 GAAACAGAGG
* *
889184 AGAAACAAAATAGAAAGAAAGAAAGA
1 AGAAACAAAAAAGAAAAAAAGAAAGA
889210 AGAAA-AAAAAAGAAAAAAGAGAAA
1 AGAAACAAAAAAGAAAAAA-AGAAA
889234 TTAGGGTTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 11 0.52
26 10 0.48
ACGTcount: A:0.78, C:0.02, G:0.18, T:0.02
Consensus pattern (26 bp):
AGAAACAAAAAAGAAAAAAAGAAAGA
Found at i:895978 original size:18 final size:18
Alignment explanation
Indices: 895940--895979 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
895930 GATAAAATGA
*
895940 TTTTTATGAAAATGATAG
1 TTTTTATGAAAATAATAG
* *
895958 TTTTTCTGAAAATAATTG
1 TTTTTATGAAAATAATAG
895976 TTTT
1 TTTT
895980 CAAGGAACAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.33, C:0.03, G:0.12, T:0.53
Consensus pattern (18 bp):
TTTTTATGAAAATAATAG
Found at i:896892 original size:78 final size:78
Alignment explanation
Indices: 896760--896905 Score: 231
Period size: 78 Copynumber: 1.9 Consensus size: 78
896750 CAGAGTGTGG
* * *
896760 ATGGGCCAACTTCTGGCTTCACTGATGAGATTGCAGCTTCTCCAGAATCAGAAGTAGAAGTTTCT
1 ATGGGCCAACTTCTAGCTTCACTGATGAGATTGCAGCTTCTCCAGAATCAGAAGTAGAAATTGCT
896825 ACTAAATTTATCA
66 ACTAAATTTATCA
* *
896838 ATGGGCCAACTTCTAG-TTTAGCTGATGAGATTGCAGCTTCTCCAGAATCGGAAGTAGAAATTGC
1 ATGGGCCAACTTCTAGCTTCA-CTGATGAGATTGCAGCTTCTCCAGAATCAGAAGTAGAAATTGC
896902 TACT
65 TACT
896906 GAATCTACCA
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
77 3 0.05
78 59 0.95
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.30
Consensus pattern (78 bp):
ATGGGCCAACTTCTAGCTTCACTGATGAGATTGCAGCTTCTCCAGAATCAGAAGTAGAAATTGCT
ACTAAATTTATCA
Found at i:901691 original size:78 final size:78
Alignment explanation
Indices: 901555--901705 Score: 266
Period size: 78 Copynumber: 1.9 Consensus size: 78
901545 CCAAAGTGTG
*
901555 GATGGGCCAACTTCTGGCTTAGCTGATGAGATTACAGCTACTCCAGAATCGGATGTAGAAGTTGC
1 GATGGGCCAACTTCTGGCTTAGCTGATGAGATTACAGCTACTCCAGAATCGGAAGTAGAAGTTGC
901620 TACTGAATATGCC
66 TACTGAATATGCC
* * *
901633 GATGGGCCAACTTCTGGCTTAGCTGATGAGATTGCAGCTTCTCCAGAATCTGAAGTAGAAGTTGC
1 GATGGGCCAACTTCTGGCTTAGCTGATGAGATTACAGCTACTCCAGAATCGGAAGTAGAAGTTGC
901698 TACTGAAT
66 TACTGAAT
901706 CTATTGGCGG
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
78 69 1.00
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (78 bp):
GATGGGCCAACTTCTGGCTTAGCTGATGAGATTACAGCTACTCCAGAATCGGAAGTAGAAGTTGC
TACTGAATATGCC
Found at i:904080 original size:78 final size:78
Alignment explanation
Indices: 903944--904094 Score: 266
Period size: 78 Copynumber: 1.9 Consensus size: 78
903934 CCAAAGTGTG
* *
903944 GATGGGCCAACTTCTGGCTTAGCTGATGAGATTGCAGCTACTCCAGAATCGGATGTAGAAGTTGC
1 GATGGGCCAACTTCTGGCTTAGCTGATGAGATTGCAGCTACTCCAAAATCGGAAGTAGAAGTTGC
904009 TACTGAATATGCC
66 TACTGAATATGCC
* *
904022 GATGGGCCAACTTCTGGCTTAGCTGATGAGATTGCAGCTTCTCCAAAATCTGAAGTAGAAGTTGC
1 GATGGGCCAACTTCTGGCTTAGCTGATGAGATTGCAGCTACTCCAAAATCGGAAGTAGAAGTTGC
904087 TACTGAAT
66 TACTGAAT
904095 CTACCGGCGG
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
78 69 1.00
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (78 bp):
GATGGGCCAACTTCTGGCTTAGCTGATGAGATTGCAGCTACTCCAAAATCGGAAGTAGAAGTTGC
TACTGAATATGCC
Found at i:907844 original size:22 final size:22
Alignment explanation
Indices: 907819--907875 Score: 78
Period size: 22 Copynumber: 2.6 Consensus size: 22
907809 GTCATGGAGA
* *
907819 CACACAGGTGTGTCGCATAAGC
1 CACACAGGCGTGTCACATAAGC
907841 CACACAGGCGTGTCACATAAGC
1 CACACAGGCGTGTCACATAAGC
**
907863 CACATGGGCGTGT
1 CACACAGGCGTGT
907876 GGTACTGTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.26, C:0.28, G:0.28, T:0.18
Consensus pattern (22 bp):
CACACAGGCGTGTCACATAAGC
Found at i:909675 original size:27 final size:27
Alignment explanation
Indices: 909645--909821 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
909635 ATATTGAGTC
* *
909645 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
909672 CGCACACTTAGTGCTACGTAATCAA-T
1 CGCACACTTAGTGCTACATAATCAACT
909698 CGCACACTTAGTGCTACATAATCAATCT
1 CGCACACTTAGTGCTACATAATCAA-CT
* ** *
909726 CGCACACTTAGTGCCACATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
** **
909753 CGCACACTTAGTGC-ATCATTTTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
909780 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
909807 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
909822 GTACAATTTA
Statistics
Matches: 130, Mismatches: 16, Indels: 8
0.84 0.10 0.05
Matches are distributed among these distances:
26 26 0.20
27 80 0.62
28 24 0.18
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:909783 original size:54 final size:54
Alignment explanation
Indices: 909645--909821 Score: 216
Period size: 54 Copynumber: 3.3 Consensus size: 54
909635 ATATTGAGTC
* * * * *
909645 CGCACACTCAGTGCTATATAATCAA-CTCGCACACTTAGTGCTACGTAATCAAT
1 CGCACACTTAGTGCTACATAATCAATCTCGCACACTTAGTGCAACATAGTCAAT
* *
909698 CGCACACTTAGTGCTACATAATCAATCTCGCACACTTAGTGCCACATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAATCTCGCACACTTAGTGCAACATAGTCAA-T
** *
909753 CGCACACTTAGTGC-ATCATTTTC-ATTTCGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTA-CATAATCAATCTCGCACACTTAGTGCAACATAGTC-AAT
909807 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
909822 GTACAATTTA
Statistics
Matches: 108, Mismatches: 11, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
53 23 0.21
54 63 0.58
55 22 0.20
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.28
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAATCTCGCACACTTAGTGCAACATAGTCAAT
Found at i:912669 original size:78 final size:78
Alignment explanation
Indices: 912533--912683 Score: 259
Period size: 78 Copynumber: 1.9 Consensus size: 78
912523 CCAAAGTGTG
*
912533 GATGGGCCAACTTCTGGCTTAGCTGATGAGATTACAGCTACTCCAGAATTGGATGTAGAAGTTGC
1 GATGGGCCAACTTCTGGCTTAGCTGATGAGATTACAGCTACTCCAGAATTGGAAGTAGAAGTTGC
912598 TACTGAATATGCC
66 TACTGAATATGCC
* *
912611 GATGGGCCAACTTCTGGCTTAGCTGATGAGATTGCAGCTTCTCCAGAATCT-GAAGTAGAAGTTG
1 GATGGGCCAACTTCTGGCTTAGCTGATGAGATTACAGCTACTCCAGAAT-TGGAAGTAGAAGTTG
912675 CTACTGAAT
65 CTACTGAAT
912684 CTACTGGAGG
Statistics
Matches: 69, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
78 68 0.99
79 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.28
Consensus pattern (78 bp):
GATGGGCCAACTTCTGGCTTAGCTGATGAGATTACAGCTACTCCAGAATTGGAAGTAGAAGTTGC
TACTGAATATGCC
Found at i:916228 original size:24 final size:24
Alignment explanation
Indices: 916186--916233 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
916176 TTATCTAATT
* *
916186 AACTTAATTTAATCATAATTAAAA
1 AACTTAATCTAATCATAATCAAAA
916210 AACTTAATCT-ATCATTAATCAAAA
1 AACTTAATCTAATCA-TAATCAAAA
916234 TAAGTGGATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 4 0.19
24 17 0.81
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.35
Consensus pattern (24 bp):
AACTTAATCTAATCATAATCAAAA
Found at i:916889 original size:17 final size:16
Alignment explanation
Indices: 916867--916899 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
916857 TATTTTATAT
916867 TAATTAAATAAAGTAAA
1 TAATTAAATAAA-TAAA
916884 TAATTAAATAAATAAA
1 TAATTAAATAAATAAA
916900 AGAAAGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (16 bp):
TAATTAAATAAATAAA
Found at i:916956 original size:19 final size:19
Alignment explanation
Indices: 916928--916966 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
916918 TGATATATGG
*
916928 ATACATATGTACT-AATAAT
1 ATACACATGTA-TAAATAAT
916947 ATACACATGTATAAATAAT
1 ATACACATGTATAAATAAT
916966 A
1 A
916967 AATAAGTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 1 0.06
19 17 0.94
ACGTcount: A:0.51, C:0.10, G:0.05, T:0.33
Consensus pattern (19 bp):
ATACACATGTATAAATAAT
Found at i:917085 original size:4 final size:4
Alignment explanation
Indices: 917071--917103 Score: 57
Period size: 4 Copynumber: 8.2 Consensus size: 4
917061 TAAAAAATAG
*
917071 AGAA GGAA AGAA AGAA AGAA AGAA AGAA AGAA A
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
917104 AGGGAAAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:918165 original size:57 final size:59
Alignment explanation
Indices: 918095--918225 Score: 151
Period size: 57 Copynumber: 2.2 Consensus size: 59
918085 TAAGTGCGCC
* * * *
918095 TTACTATTACTGTTCTGGATTCGTTCCGAAT-AGGTACTC-CGTACC-TTACTATTACTG
1 TTACTGTTACTGTTCCGGATTCATTCCG-ATGAGGTACTCGCGTACCACTACTATTACTG
* * *
918152 TTACTGTTACTGTTCCGGATTTATTCCGATGAGGTACTCTGTGTACCACTACTGTTACTG
1 TTACTGTTACTGTTCCGGATTCATTCCGATGAGGTACTC-GCGTACCACTACTATTACTG
*
918212 CTACTGTTACTGTT
1 TTACTGTTACTGTT
918226 ACCGTTACGT
Statistics
Matches: 62, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
56 2 0.03
57 32 0.52
59 5 0.08
60 23 0.37
ACGTcount: A:0.19, C:0.22, G:0.18, T:0.41
Consensus pattern (59 bp):
TTACTGTTACTGTTCCGGATTCATTCCGATGAGGTACTCGCGTACCACTACTATTACTG
Found at i:918217 original size:12 final size:12
Alignment explanation
Indices: 918200--918233 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
918190 CTGTGTACCA
918200 CTACTGTTACTG
1 CTACTGTTACTG
918212 CTACTGTTACTG
1 CTACTGTTACTG
* *
918224 TTACCGTTAC
1 CTACTGTTAC
918234 GTGTATTCGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.18, C:0.26, G:0.15, T:0.41
Consensus pattern (12 bp):
CTACTGTTACTG
Found at i:919531 original size:22 final size:22
Alignment explanation
Indices: 919482--919534 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
919472 GTCATGGAGA
* *
919482 CACACAGGTGTGTCACATAAGC
1 CACACGGGCGTGTCACATAAGC
919504 CACACGGGCGTGTCACATAAGC
1 CACACGGGCGTGTCACATAAGC
919526 CACACGGGC
1 CACACGGGC
919535 ATGTGGTACT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.28, C:0.32, G:0.26, T:0.13
Consensus pattern (22 bp):
CACACGGGCGTGTCACATAAGC
Found at i:929999 original size:45 final size:46
Alignment explanation
Indices: 929836--930010 Score: 216
Period size: 45 Copynumber: 3.8 Consensus size: 46
929826 TGGTTGAGCA
*
929836 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *
929882 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G
929927 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
929975 -CCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
930011 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 9, Indels: 19
0.80 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 37 0.33
46 29 0.26
47 29 0.26
48 3 0.03
50 4 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:937526 original size:93 final size:91
Alignment explanation
Indices: 937369--937538 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 91
937359 GGATGGTTGA
*
937369 GCATCCGAACTGTTGAGTTGAGTCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTTG
1 GCATCCGAACTGTTGAGTTGAGTCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGTTG
937434 AGTCCGAGTTCGTGAGATGTAACTAG
66 AGTCCGAGTTCGTGAGATGTAACTAG
*
937460 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACT-GTTGAGTTGAGT-CGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
937524 TTGAGTCCGAGTTCG
63 TTGAGTCCGAGTTCG
937539 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 2, Indels: 4
0.93 0.03 0.05
Matches are distributed among these distances:
91 11 0.15
92 14 0.19
93 49 0.66
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (91 bp):
GCATCCGAACTGTTGAGTTGAGTCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGTTG
AGTCCGAGTTCGTGAGATGTAACTAG
Found at i:937536 original size:46 final size:45
Alignment explanation
Indices: 937373--937545 Score: 178
Period size: 46 Copynumber: 3.8 Consensus size: 45
937363 GGTTGAGCAT
*
937373 CCGAACT-GTTGAGTTGAGT-CGAGTTCACTTATGGATGCGAATG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *
937416 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 -CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G
937461 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 ---CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
937509 CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
937546 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 9, Indels: 22
0.78 0.06 0.16
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 7 0.06
45 17 0.16
46 39 0.36
47 29 0.27
48 3 0.03
50 4 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (45 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:941241 original size:26 final size:26
Alignment explanation
Indices: 941209--941318 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
941199 TGATACAAAT
*
941209 TGATAATAGGTTAGGTAAATGTTACA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
941235 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
941261 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
941287 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
941313 TGATAA
1 TGATAA
941319 GAATTTCATG
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 81 1.00
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:942847 original size:26 final size:26
Alignment explanation
Indices: 942804--942857 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
942794 AATTACTGTT
*
942804 ATACCCCTAGGTGCAAATTTACCGAA
1 ATACCCCTAGGTGCAAATTGACCGAA
* *
942830 ATACCCCTAGG-GTTAAATTGACCTAA
1 ATACCCCTAGGTG-CAAATTGACCGAA
942856 AT
1 AT
942858 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 1 0.04
26 23 0.96
ACGTcount: A:0.35, C:0.24, G:0.15, T:0.26
Consensus pattern (26 bp):
ATACCCCTAGGTGCAAATTGACCGAA
Found at i:944517 original size:27 final size:27
Alignment explanation
Indices: 944493--944742 Score: 297
Period size: 27 Copynumber: 9.3 Consensus size: 27
944483 TTAGTTTACC
* **
944493 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
944520 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
944547 AAATTACTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
944574 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
944601 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * **
944628 AAATTATCAAAATACCCTTAATTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
944655 AAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
* **
944682 AAATTACTAAAATA-CCCTCGACTTGTA
1 AAATTACCAAAATACCCCT-GGTTTGTA
* * *
944709 AAATTACCAAAGTA-CCCTGATTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
944735 GAATTACC
1 AAATTACC
944743 GTTTTACCCT
Statistics
Matches: 195, Mismatches: 27, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
26 17 0.09
27 178 0.91
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:944768 original size:27 final size:27
Alignment explanation
Indices: 944721--944940 Score: 289
Period size: 27 Copynumber: 8.2 Consensus size: 27
944711 ATTACCAAAG
* * **
944721 TACCCT-GATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACTATTT
* *
944747 TACCCTCGACTTACAAAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTATTT
* * *
944774 TACCCTCGATTGATAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACTATTT
944801 TACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACTATTT
*
944828 TACCCTCGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTATTT
944855 TACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACTATTT
* **
944882 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACTATTT
* * *
944909 TACCCTCAATTTATAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACTATTT
944936 TACCC
1 TACCC
944941 GTAGGGTGTT
Statistics
Matches: 172, Mismatches: 21, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
26 6 0.03
27 166 0.97
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTATTT
Found at i:944815 original size:54 final size:54
Alignment explanation
Indices: 944721--944940 Score: 325
Period size: 54 Copynumber: 4.1 Consensus size: 54
944711 ATTACCAAAG
* * *
944721 TACCCT-GATTTATAGAATTACCGTTTTACCCTCGACTTACAAAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACTATTT
* * **
944774 TACCCTCGATTGATAGAATTACTATTTTACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACTATTT
* *
944828 TACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACTATTT
* * *
944882 TACCCTCGATTTACAGAATTACCGTTTTACCCTCAATTTATAAAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACTATTT
944936 TACCC
1 TACCC
944941 GTAGGGTGTT
Statistics
Matches: 152, Mismatches: 14, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
53 6 0.04
54 146 0.96
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.40
Consensus pattern (54 bp):
TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACTATTT
Found at i:944842 original size:81 final size:81
Alignment explanation
Indices: 944721--944940 Score: 325
Period size: 81 Copynumber: 2.7 Consensus size: 81
944711 ATTACCAAAG
* *
944721 TACCCT-GATTTATAGAATTACCGTTTTACCCTCGACTTACAAAATTACTGTTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACTGTTTTACCCTCGATT
* *
944785 GATAGAATTACTATTT
66 GACAAAATTACTATTT
* **
944801 TACCCTCGATTTACAAAATTACTATTTTACCCTCGATTTACAAAATTACTGTTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACTGTTTTACCCTCGATT
*
944866 TACAAAATTACTATTT
66 GACAAAATTACTATTT
* * **
944882 TACCCTCGATTTACAGAATTACCGTTTTACCCTCAATTTATAAAATTACCATTTTACCC
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACTGTTTTACCC
944941 GTAGGGTGTT
Statistics
Matches: 124, Mismatches: 15, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
80 6 0.05
81 118 0.95
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.40
Consensus pattern (81 bp):
TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACTGTTTTACCCTCGATT
GACAAAATTACTATTT
Found at i:945482 original size:31 final size:31
Alignment explanation
Indices: 945447--945556 Score: 127
Period size: 31 Copynumber: 3.5 Consensus size: 31
945437 TTGCATTCAC
*
945447 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTG
* * * *
945478 ATTCTGATTCTAATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTG
945509 ATTCTGATTCTGATTCTGATT--CTG-TCACCTG
1 ATTCTGATTCTGATTCTG-TTACCTGAT-A-CTG
945540 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
945557 CATTTTGATT
Statistics
Matches: 67, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
29 1 0.01
30 2 0.03
31 63 0.94
32 1 0.01
ACGTcount: A:0.19, C:0.20, G:0.14, T:0.47
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTTACCTGATACTG
Found at i:945486 original size:6 final size:6
Alignment explanation
Indices: 945447--945568 Score: 97
Period size: 6 Copynumber: 19.8 Consensus size: 6
945437 TTGCATTCAC
* * *
945447 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTA ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
945496 -TCACCTA ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG -TCACCTG ATTCTG
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG
* *
945546 ATTCTG ATTCTC ATTTTG ATTCT
1 ATTCTG ATTCTG ATTCTG ATTCT
945569 AGTTTTGATA
Statistics
Matches: 91, Mismatches: 16, Indels: 18
0.73 0.13 0.14
Matches are distributed among these distances:
5 4 0.04
6 76 0.84
7 8 0.09
8 3 0.03
ACGTcount: A:0.19, C:0.20, G:0.13, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:945566 original size:37 final size:37
Alignment explanation
Indices: 945447--945568 Score: 157
Period size: 37 Copynumber: 3.5 Consensus size: 37
945437 TTGCATTCAC
* *
945447 ATTCTGATTTTGATTCTGTTACCTGATACTGATTCTG
1 ATTCTGATTTTGATTCTGTCACCTGATTCTGATTCTG
*
945484 ATTCT-A-----ATTCTGTCACCTAATTCTGATTCTG
1 ATTCTGATTTTGATTCTGTCACCTGATTCTGATTCTG
*
945515 ATTCTGATTCTGATTCTGTCACCTGATTCTGATTCTG
1 ATTCTGATTTTGATTCTGTCACCTGATTCTGATTCTG
*
945552 ATTCTCATTTTGATTCT
1 ATTCTGATTTTGATTCT
945569 AGTTTTGATA
Statistics
Matches: 73, Mismatches: 6, Indels: 12
0.80 0.07 0.13
Matches are distributed among these distances:
31 27 0.37
32 1 0.01
36 1 0.01
37 44 0.60
ACGTcount: A:0.19, C:0.20, G:0.13, T:0.48
Consensus pattern (37 bp):
ATTCTGATTTTGATTCTGTCACCTGATTCTGATTCTG
Found at i:947780 original size:26 final size:26
Alignment explanation
Indices: 947750--947831 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
947740 TGAAATTCCC
947750 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
947776 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
947802 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
947828 ATCA
1 ATCA
947832 ATTTGTATCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.37, C:0.27, G:0.06, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:953334 original size:26 final size:27
Alignment explanation
Indices: 953305--953379 Score: 89
Period size: 26 Copynumber: 2.8 Consensus size: 27
953295 CAATTTAACC
* * *
953305 CTAGGGGTATTTCGGTAATTTTGCAT-
1 CTAGGGGTATTACAGTAATTTTCCATA
*
953331 CTAGGGGTATAACAGTAATTTTCCATA
1 CTAGGGGTATTACAGTAATTTTCCATA
*
953358 CATAGGGGTATTATAGTAATTT
1 C-TAGGGGTATTACAGTAATTT
953380 AGCTGCTTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
26 22 0.54
27 1 0.02
28 18 0.44
ACGTcount: A:0.28, C:0.11, G:0.23, T:0.39
Consensus pattern (27 bp):
CTAGGGGTATTACAGTAATTTTCCATA
Found at i:954856 original size:26 final size:26
Alignment explanation
Indices: 954826--954907 Score: 164
Period size: 26 Copynumber: 3.2 Consensus size: 26
954816 TGAAATTCCC
954826 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
954852 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
954878 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
954904 ATCA
1 ATCA
954908 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.35, C:0.27, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:956399 original size:24 final size:24
Alignment explanation
Indices: 956357--956404 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
956347 TTATCTAATT
* *
956357 AACTTAATTTAATCATAATTAAAA
1 AACTTAATCTAATCATAATCAAAA
956381 AACTTAATCT-ATCATTAATCAAAA
1 AACTTAATCTAATCA-TAATCAAAA
956405 TAAGTGGATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 4 0.19
24 17 0.81
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.35
Consensus pattern (24 bp):
AACTTAATCTAATCATAATCAAAA
Found at i:957741 original size:78 final size:78
Alignment explanation
Indices: 957612--957762 Score: 293
Period size: 78 Copynumber: 1.9 Consensus size: 78
957602 CCAAAGTGAG
957612 GATGGGCCAACTTCTGGCTTAGCTGATGAGATTGCAGCTACTCCAGAATCGGATGTAAAAGTTGC
1 GATGGGCCAACTTCTGGCTTAGCTGATGAGATTGCAGCTACTCCAGAATCGGATGTAAAAGTTGC
957677 TACTGAATATGCC
66 TACTGAATATGCC
*
957690 GATGGGCCAACTTCTGGCTTAGCTGATGAGATTGCAGCTACTCCAGAATCGGATGTAGAAGTTGC
1 GATGGGCCAACTTCTGGCTTAGCTGATGAGATTGCAGCTACTCCAGAATCGGATGTAAAAGTTGC
957755 TACTGAAT
66 TACTGAAT
957763 CTACTGGCGG
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 72 1.00
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.27
Consensus pattern (78 bp):
GATGGGCCAACTTCTGGCTTAGCTGATGAGATTGCAGCTACTCCAGAATCGGATGTAAAAGTTGC
TACTGAATATGCC
Found at i:961447 original size:26 final size:26
Alignment explanation
Indices: 961414--961521 Score: 162
Period size: 26 Copynumber: 4.2 Consensus size: 26
961404 TGATACAAAT
*
961414 TGATAATGGGTTAGCTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * * *
961440 TGACAATGGATTAGGTAAATATTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
961466 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
961492 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
961518 TGAT
1 TGAT
961522 GAGAATTTCA
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 72 1.00
ACGTcount: A:0.32, C:0.08, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:963037 original size:26 final size:26
Alignment explanation
Indices: 963008--963060 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
962998 TTTACAGTTT
*
963008 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCATAGG-GATAAATTGACCGAAA
* *
963034 TACCCATAGGGTTAAATTGACCTAAA
1 TACCCATAGGGATAAATTGACCGAAA
963060 T
1 T
963061 GCATTTGATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCATAGGGATAAATTGACCGAAA
Found at i:968547 original size:26 final size:26
Alignment explanation
Indices: 968507--968611 Score: 165
Period size: 26 Copynumber: 4.0 Consensus size: 26
968497 TGATACAAAT
968507 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
968533 TGACAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
968559 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
968585 TGGTAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
968611 T
1 T
968612 AATGAGAATT
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 71 1.00
ACGTcount: A:0.31, C:0.09, G:0.25, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:972180 original size:9 final size:9
Alignment explanation
Indices: 972166--972194 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
972156 ATTTTATATT
972166 AATTAAATA
1 AATTAAATA
972175 AATTAAAT-
1 AATTAAATA
972183 AATTAAATA
1 AATTAAATA
972192 AAT
1 AAT
972195 AAAAGAAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
8 8 0.42
9 11 0.58
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (9 bp):
AATTAAATA
Found at i:972254 original size:19 final size:19
Alignment explanation
Indices: 972226--972264 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
972216 TGATATATGG
*
972226 ATACATATGTACT-AATAAT
1 ATACACATGTA-TAAATAAT
972245 ATACACATGTATAAATAAT
1 ATACACATGTATAAATAAT
972264 A
1 A
972265 AATAAGTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 1 0.06
19 17 0.94
ACGTcount: A:0.51, C:0.10, G:0.05, T:0.33
Consensus pattern (19 bp):
ATACACATGTATAAATAAT
Found at i:973510 original size:12 final size:12
Alignment explanation
Indices: 973493--973517 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
973483 TTTGTGTACC
973493 GCTACTGTTACT
1 GCTACTGTTACT
973505 GCTACTGTTACT
1 GCTACTGTTACT
973517 G
1 G
973518 TTACCTTTAC
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:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (12 bp):
GCTACTGTTACT
Found at i:973658 original size:18 final size:17
Alignment explanation
Indices: 973634--973678 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 17
973624 GTAAATAAAG
973634 GTACTGAATAATTGACT
1 GTACTGAATAATTGACT
*
973651 GCTACTGAATATTTGACT
1 G-TACTGAATAATTGACT
973669 GTCACTGAAT
1 GT-ACTGAAT
973679 TACTAATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 2 0.08
18 23 0.92
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.36
Consensus pattern (17 bp):
GTACTGAATAATTGACT
Found at i:974364 original size:21 final size:20
Alignment explanation
Indices: 974325--974364 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
974315 TGAAAAGATT
*
974325 TAATTGAAATGAATTTGAAC
1 TAATTGAAATGAATGTGAAC
*
974345 TAATTGATAATGTATGTGAA
1 TAATTGA-AATGAATGTGAA
974365 TTATTTAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.42, C:0.03, G:0.17, T:0.38
Consensus pattern (20 bp):
TAATTGAAATGAATGTGAAC
Found at i:978129 original size:47 final size:47
Alignment explanation
Indices: 978066--978382 Score: 589
Period size: 47 Copynumber: 6.7 Consensus size: 47
978056 ATGATAGTAT
978066 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
978113 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
978160 TGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
978207 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
978254 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
978301 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAA
978350 GGCCTAATGGCCGATGTGATGAATGTGATAAGT
1 GGCCTAATGGCCGATGTGATGAATGTGA-AAGT
978383 CCCGAAGGGC
Statistics
Matches: 264, Mismatches: 3, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
47 219 0.83
49 41 0.16
50 4 0.02
ACGTcount: A:0.31, C:0.09, G:0.30, T:0.30
Consensus pattern (47 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
Found at i:978556 original size:37 final size:37
Alignment explanation
Indices: 978500--978578 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
978490 CCGAGCTCTA
* * *
978500 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
978537 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
978574 AAGAC
1 AAGAC
978579 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:981142 original size:16 final size:16
Alignment explanation
Indices: 981121--981155 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
981111 ATGCTTACCA
981121 ATTAGGGACCAATTTG
1 ATTAGGGACCAATTTG
981137 ATTAGGGACCAATTTG
1 ATTAGGGACCAATTTG
981153 ATT
1 ATT
981156 GAGCTTCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.31, C:0.11, G:0.23, T:0.34
Consensus pattern (16 bp):
ATTAGGGACCAATTTG
Found at i:984277 original size:79 final size:81
Alignment explanation
Indices: 984141--984325 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
984131 TTGAATGATG
* *
984141 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
984205 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
984220 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
984282 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
984300 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
984326 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:984339 original size:40 final size:40
Alignment explanation
Indices: 984142--984325 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
984132 TGAATGATGT
* * * *
984142 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
984182 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
984222 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
984260 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
984301 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
984326 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:984347 original size:79 final size:79
Alignment explanation
Indices: 984194--984358 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
984184 GGACTAAGAT
* * **
984194 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
984259 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
984273 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
984336 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
984352 CCGAAGG
1 CCGAAGG
984359 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:989372 original size:19 final size:19
Alignment explanation
Indices: 989337--989379 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
989327 TCTTTCTTTC
*
989337 CTTTTTCTTTATTTTATTT
1 CTTTTTCTTTATATTATTT
989356 CTTTATTCTTT-TATTATTT
1 CTTT-TTCTTTATATTATTT
989375 CTTTT
1 CTTTT
989380 ATTATATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 1 0.05
19 15 0.68
20 6 0.27
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.77
Consensus pattern (19 bp):
CTTTTTCTTTATATTATTT
Found at i:989389 original size:8 final size:8
Alignment explanation
Indices: 989378--989415 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
989368 ATTATTTCTT
989378 TTATTATA
1 TTATTATA
989386 TTATTA-A
1 TTATTATA
*
989393 CTATTATA
1 TTATTATA
989401 TTATTATAA
1 TTATTAT-A
989410 TTATTA
1 TTATTA
989416 ATTTCTTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
7 6 0.23
8 13 0.50
9 7 0.27
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (8 bp):
TTATTATA
Found at i:990000 original size:23 final size:23
Alignment explanation
Indices: 989956--990027 Score: 67
Period size: 23 Copynumber: 3.1 Consensus size: 23
989946 TAGGGGTAAG
* *
989956 ATCTGAATCTGTAT-TTATTATGC
1 ATCTGAATATGTATCTGA-TATGC
* *
989979 ATTTGAATCTGTGA-CTGATATGC
1 ATCTGAATATGT-ATCTGATATGC
*
990002 ATCTGAATATGTATCTGCTATGC
1 ATCTGAATATGTATCTGATATGC
990025 ATC
1 ATC
990028 GATGTCTATA
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
22 1 0.02
23 37 0.90
24 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.17, T:0.42
Consensus pattern (23 bp):
ATCTGAATATGTATCTGATATGC
Found at i:992408 original size:78 final size:78
Alignment explanation
Indices: 992279--992435 Score: 269
Period size: 78 Copynumber: 2.0 Consensus size: 78
992269 TCAGAGTGTG
* *
992279 GATGGGCCAACTTCTAGCTTAGCTGATGAGATTGCAGCTGCTCCAGAATCGGATGTAGAAGTTGC
1 GATGGGCCAACTTCTAGCTTAGCTGATGAGATTGCAGCTGCTCCAGAATCGGAAGTAGAAGATGC
992344 TACTGAATATGCC
66 TACTGAATATGCC
* *
992357 GATGGGCCAACTTCTGGCTTAGCTGATGAGATTGCAGCTTCTCCAGAATCGGAAGTAGAAGATGC
1 GATGGGCCAACTTCTAGCTTAGCTGATGAGATTGCAGCTGCTCCAGAATCGGAAGTAGAAGATGC
*
992422 TACTGAATCTGCC
66 TACTGAATATGCC
992435 G
1 G
992436 GCGGGAGGAA
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
78 74 1.00
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (78 bp):
GATGGGCCAACTTCTAGCTTAGCTGATGAGATTGCAGCTGCTCCAGAATCGGAAGTAGAAGATGC
TACTGAATATGCC
Found at i:995192 original size:23 final size:23
Alignment explanation
Indices: 995133--995184 Score: 104
Period size: 23 Copynumber: 2.3 Consensus size: 23
995123 TTTAAGTGGA
995133 TGTGTTGGGAGGGTATATTTTGT
1 TGTGTTGGGAGGGTATATTTTGT
995156 TGTGTTGGGAGGGTATATTTTGT
1 TGTGTTGGGAGGGTATATTTTGT
995179 TGTGTT
1 TGTGTT
995185 TGGTGGGTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.12, C:0.00, G:0.38, T:0.50
Consensus pattern (23 bp):
TGTGTTGGGAGGGTATATTTTGT
Found at i:996228 original size:16 final size:16
Alignment explanation
Indices: 996207--996256 Score: 100
Period size: 16 Copynumber: 3.1 Consensus size: 16
996197 GGTCTATGTG
996207 AAAATAGAATGTCAAT
1 AAAATAGAATGTCAAT
996223 AAAATAGAATGTCAAT
1 AAAATAGAATGTCAAT
996239 AAAATAGAATGTCAAT
1 AAAATAGAATGTCAAT
996255 AA
1 AA
996257 TGGCAATGTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.58, C:0.06, G:0.12, T:0.24
Consensus pattern (16 bp):
AAAATAGAATGTCAAT
Found at i:1003210 original size:17 final size:15
Alignment explanation
Indices: 1003192--1003229 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
1003182 TAAAAATTTA
1003192 AAATTATAATAAATAT
1 AAATT-TAATAAATAT
*
1003208 AAATTTAATAAA-AG
1 AAATTTAATAAATAT
1003222 AAATTTAA
1 AAATTTAA
1003230 CGATTTTAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 9 0.43
15 7 0.33
16 5 0.24
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (15 bp):
AAATTTAATAAATAT
Found at i:1006526 original size:29 final size:29
Alignment explanation
Indices: 1006484--1006541 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
1006474 GCTCAGCTTC
1006484 AAGAATCCTCCAAAAATACGAAAAACTTA
1 AAGAATCCTCCAAAAATACGAAAAACTTA
1006513 AAGAATCCTCCAAAAATACGAAAAACTTA
1 AAGAATCCTCCAAAAATACGAAAAACTTA
1006542 GGGAAAGAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.55, C:0.21, G:0.07, T:0.17
Consensus pattern (29 bp):
AAGAATCCTCCAAAAATACGAAAAACTTA
Found at i:1015633 original size:22 final size:21
Alignment explanation
Indices: 1015608--1015649 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1015598 AGTAATTTTA
1015608 TTTTACTGAAAAATGCTTTGCT
1 TTTTA-TGAAAAATGCTTTGCT
* *
1015630 TTTTATGTAAAATGTTTTGC
1 TTTTATGAAAAATGCTTTGC
1015650 AAAATTATTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.26, C:0.10, G:0.14, T:0.50
Consensus pattern (21 bp):
TTTTATGAAAAATGCTTTGCT
Found at i:1018468 original size:9 final size:9
Alignment explanation
Indices: 1018454--1018511 Score: 53
Period size: 9 Copynumber: 5.9 Consensus size: 9
1018444 AAAAAGAATA
1018454 AATTAAATT
1 AATTAAATT
1018463 AATTAAATT
1 AATTAAATT
1018472 AATTAAAAATT
1 AATT--AAATT
*
1018483 ATTTAAATT
1 AATTAAATT
*
1018492 GAATTGAAACT
1 -AATT-AAATT
1018503 AATTTAAAT
1 AA-TTAAAT
1018512 ATTTAATTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
9 18 0.45
10 8 0.20
11 14 0.35
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.41
Consensus pattern (9 bp):
AATTAAATT
Found at i:1018483 original size:20 final size:21
Alignment explanation
Indices: 1018458--1018496 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
1018448 AGAATAAATT
1018458 AAATTAATTAAATT-AATTAA
1 AAATTAATTAAATTGAATTAA
*
1018478 AAATTATTTAAATTGAATT
1 AAATTAATTAAATTGAATT
1018497 GAAACTAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (21 bp):
AAATTAATTAAATTGAATTAA
Found at i:1018507 original size:21 final size:20
Alignment explanation
Indices: 1018465--1018511 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 20
1018455 ATTAAATTAA
*
1018465 TTAAATTAATTAAAAATTAT
1 TTAAATTAATTAAAAATAAT
* *
1018485 TTAAATTGAATTGAAACTAAT
1 TTAAATT-AATTAAAAATAAT
1018506 TTAAAT
1 TTAAAT
1018512 ATTTAATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 7 0.30
21 16 0.70
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.43
Consensus pattern (20 bp):
TTAAATTAATTAAAAATAAT
Found at i:1022159 original size:44 final size:44
Alignment explanation
Indices: 1022096--1022185 Score: 171
Period size: 44 Copynumber: 2.0 Consensus size: 44
1022086 TTATTGTCTT
1022096 TTTTAAGGGTTAAATTACTTTTTTGGGTTTGAACTTGGCTACCA
1 TTTTAAGGGTTAAATTACTTTTTTGGGTTTGAACTTGGCTACCA
*
1022140 TTTTAAGGGTTAAATTACTTTTTTGGGTTTGAACTTGGCTGCCA
1 TTTTAAGGGTTAAATTACTTTTTTGGGTTTGAACTTGGCTACCA
1022184 TT
1 TT
1022186 CTCATGTTGG
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.21, C:0.11, G:0.21, T:0.47
Consensus pattern (44 bp):
TTTTAAGGGTTAAATTACTTTTTTGGGTTTGAACTTGGCTACCA
Found at i:1022377 original size:60 final size:59
Alignment explanation
Indices: 1022313--1022426 Score: 147
Period size: 60 Copynumber: 1.9 Consensus size: 59
1022303 AAGTTCAAGT
* *
1022313 CTCAATATGGGAAAAACTACCAAGTTCAAGGACTAATTTGGATAAAAAAAAGGTTCATGA
1 CTCAATATGAGAAAAACTACCAAGTTCAAAGACTAATTTGGAT-AAAAAAAGGTTCATGA
* ** * * *
1022373 CTCAATGTGAGAATTATTACCTAGTTCAAAGATTAATTTGGATAAAAAAAGGTT
1 CTCAATATGAGAAAAACTACCAAGTTCAAAGACTAATTTGGATAAAAAAAGGTT
1022427 GAAGCCCTTG
Statistics
Matches: 46, Mismatches: 8, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
59 11 0.24
60 35 0.76
ACGTcount: A:0.43, C:0.11, G:0.18, T:0.28
Consensus pattern (59 bp):
CTCAATATGAGAAAAACTACCAAGTTCAAAGACTAATTTGGATAAAAAAAGGTTCATGA
Found at i:1025108 original size:24 final size:24
Alignment explanation
Indices: 1025081--1025129 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
1025071 TGGTTTTCAA
*
1025081 GATTATATATCCACAGTGAAGTGG
1 GATTATACATCCACAGTGAAGTGG
*
1025105 GATTATACATCCATAGTGAAGTGG
1 GATTATACATCCACAGTGAAGTGG
1025129 G
1 G
1025130 GTGGATTGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.33, C:0.12, G:0.27, T:0.29
Consensus pattern (24 bp):
GATTATACATCCACAGTGAAGTGG
Found at i:1030196 original size:185 final size:184
Alignment explanation
Indices: 1029876--1030247 Score: 543
Period size: 185 Copynumber: 2.0 Consensus size: 184
1029866 TCTTTGTATA
* * *
1029876 TTAGATTAAAGAGCAAATTAATATTTTCTGTTAAAAATTTTACCCATTTATACTGTTAAAAACTG
1 TTAGACTAAAGAGCAAACTAATATTTTCTGTCAAAAATTTTACCCATTTATACTGTTAAAAACTG
* *
1029941 GCATAGCTAACAGAATAACTAAACAATAACACGTGGCATGCCACATGAACCTCATGCTGACGTAC
66 GCATAGCTAACAAAATAACTAAACAATAACACGTGACATGCCACATGAACCTCATGCTGACGTAC
* * *
1030006 AGGGACCAATTTTTTATAGCAAAACTGGA-TGAATTTTTTAACAAAATAATCAAT
131 AGGGACCAATTTTTAACAGCAAAA-TGGATTGAATTTTTTAACAAAAGAATCAAT
* * *
1030060 TTAGACTAAAGAGCAAAACTAATATTTTCTGTCAAAATTTTTATCCATTTTTACTGTTAAAAACT
1 TTAGACTAAAGAGC-AAACTAATATTTTCTGTCAAAAATTTTACCCATTTATACTGTTAAAAACT
* * * *
1030125 GGCAT-GTCTAATAAAATAACTAAACAATGACACGTGACGTGCCACATGTACCTCATG-TAGACG
65 GGCATAG-CTAACAAAATAACTAAACAATAACACGTGACATGCCACATGAACCTCATGCT-GACG
*
1030188 TTCAGGGACCAATTTTTAACAGCAAAATGGATTGAATTTTTTAACAAAAGAATCAAT
128 TACAGGGACCAATTTTTAACAGCAAAATGGATTGAATTTTTTAACAAAAGAATCAAT
1030245 TTA
1 TTA
1030248 CTCTTTGATC
Statistics
Matches: 168, Mismatches: 16, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
184 19 0.11
185 149 0.89
ACGTcount: A:0.40, C:0.16, G:0.13, T:0.31
Consensus pattern (184 bp):
TTAGACTAAAGAGCAAACTAATATTTTCTGTCAAAAATTTTACCCATTTATACTGTTAAAAACTG
GCATAGCTAACAAAATAACTAAACAATAACACGTGACATGCCACATGAACCTCATGCTGACGTAC
AGGGACCAATTTTTAACAGCAAAATGGATTGAATTTTTTAACAAAAGAATCAAT
Found at i:1033077 original size:51 final size:52
Alignment explanation
Indices: 1033013--1033115 Score: 133
Period size: 51 Copynumber: 2.0 Consensus size: 52
1033003 AGCAGCCGAC
*
1033013 TGACTTGATTCCAAACTTCT-TCCAG-TAATTCCAACTTCTCTTC-TAGATTCAG
1 TGACTTGACTCCAAACTTCTCT-CAGAT-ATTCCAACTTCTCTTCTTA-ATTCAG
*
1033065 TGACTTG-CTCCAAACTTCTCTCAGATATTCCAACTTCTTTTCTTAATTCAG
1 TGACTTGACTCCAAACTTCTCTCAGATATTCCAACTTCTCTTCTTAATTCAG
1033116 CAGCCTGCTC
Statistics
Matches: 46, Mismatches: 2, Indels: 7
0.84 0.04 0.13
Matches are distributed among these distances:
51 35 0.76
52 11 0.24
ACGTcount: A:0.24, C:0.27, G:0.09, T:0.40
Consensus pattern (52 bp):
TGACTTGACTCCAAACTTCTCTCAGATATTCCAACTTCTCTTCTTAATTCAG
Found at i:1033125 original size:51 final size:51
Alignment explanation
Indices: 1033022--1033128 Score: 123
Period size: 51 Copynumber: 2.1 Consensus size: 51
1033012 CTGACTTGAT
* *
1033022 TCCAAACTTCTTCCAGTAATTCCAACTTCTCTTCTAGATTCAGTGACTTGC
1 TCCAAACTTCTTCCAGTAATTCCAACTTCTCTTCTAGATTCAGAGACCTGC
*
1033073 TCCAAACTTC-TCTCAG-ATATTCCAACTTCTTTTCTTA-ATTCAGCAG-CCTGC
1 TCCAAACTTCTTC-CAGTA-ATTCCAACTTCTCTTC-TAGATTCAG-AGACCTGC
1033124 TCCAA
1 TCCAA
1033129 CCTCATATCA
Statistics
Matches: 49, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
50 3 0.06
51 43 0.88
52 3 0.06
ACGTcount: A:0.24, C:0.31, G:0.08, T:0.36
Consensus pattern (51 bp):
TCCAAACTTCTTCCAGTAATTCCAACTTCTCTTCTAGATTCAGAGACCTGC
Found at i:1047619 original size:30 final size:29
Alignment explanation
Indices: 1047585--1047650 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 29
1047575 AATAATTATG
* *
1047585 AAAATTAAATCAAATTAAAATTTTATGTAT
1 AAAATTAAATAAAAATAAAA-TTTATGTAT
**
1047615 AAAATTGTATAAAAATAAAATTTATGTAT
1 AAAATTAAATAAAAATAAAATTTATGTAT
*
1047644 AACATTA
1 AAAATTA
1047651 TATATTGGAT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
29 14 0.47
30 16 0.53
ACGTcount: A:0.55, C:0.03, G:0.05, T:0.38
Consensus pattern (29 bp):
AAAATTAAATAAAAATAAAATTTATGTAT
Found at i:1052385 original size:13 final size:13
Alignment explanation
Indices: 1052367--1052393 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1052357 TTACTTTTCA
1052367 AAAAAAAAAAAGC
1 AAAAAAAAAAAGC
1052380 AAAAAAAAAAAGC
1 AAAAAAAAAAAGC
1052393 A
1 A
1052394 TACTTTTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.85, C:0.07, G:0.07, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAAGC
Found at i:1057278 original size:225 final size:225
Alignment explanation
Indices: 1056887--1057338 Score: 726
Period size: 225 Copynumber: 2.0 Consensus size: 225
1056877 CAGTCCTCGG
* * * *
1056887 TTAAGCCAGTTCTATATCCTCCTAGTCTGCTGCCATCATTTGAAACATCATTTACGGCCCAGAAA
1 TTAAGCCAGTTCTATATCCTCCTAGTCCGCTGCCATCATTTAAAACATCATTCACGGCCCAAAAA
* *
1056952 CCATCTCCATCACCTAAAGGATTGACACCACCTAAACCAACCACACCGTCTCTGAAACCCTCTTC
66 CCATCTCCATCACCTAAAGGACTGACACCACCTAAACCAACCACACCGTCTCCGAAACCCTCTTC
*
1057017 ATCGTCTTTTAAGCCAAGTCCATCCCTTAAGCCAACTCTATCAGAACTAGGGAAAGGAAAGTACA
131 ATCGTCTTCTAAGCCAAGTCCATCCCTTAAGCCAACTCTATCAGAACTAGGGAAAGGAAAGTACA
*
1057082 AAACACTCAATCCAGAGGATACATTACCGA
196 AAACACTCAATCCAAAGGATACATTACCGA
* ** *
1057112 TTAAGCC-GATTCTATATCCTCCTAGTCCGCTTCCATCATTTAAAATGTCATTCACGGCCGAAAA
1 TTAAGCCAG-TTCTATATCCTCCTAGTCCGCTGCCATCATTTAAAACATCATTCACGGCCCAAAA
* *
1057176 ACCATCTCCATCACCTAAAGGACTGACACCACCTAAATCAACCACACCGTCTCCGAAACGCTCTT
65 ACCATCTCCATCACCTAAAGGACTGACACCACCTAAACCAACCACACCGTCTCCGAAACCCTCTT
*
1057241 CATCGTCTTCTAAGCCAAGTCCATCCCTTAAGCCAACTCTATCGGAACTAGGGAAAGGAAAGTAC
130 CATCGTCTTCTAAGCCAAGTCCATCCCTTAAGCCAACTCTATCAGAACTAGGGAAAGGAAAGTAC
* * *
1057306 AAAACAGTCGATCCAAAGGATACGTTACCGA
195 AAAACACTCAATCCAAAGGATACATTACCGA
1057337 TT
1 TT
1057339 TACATGATTC
Statistics
Matches: 208, Mismatches: 18, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
224 1 0.00
225 207 1.00
ACGTcount: A:0.33, C:0.31, G:0.13, T:0.23
Consensus pattern (225 bp):
TTAAGCCAGTTCTATATCCTCCTAGTCCGCTGCCATCATTTAAAACATCATTCACGGCCCAAAAA
CCATCTCCATCACCTAAAGGACTGACACCACCTAAACCAACCACACCGTCTCCGAAACCCTCTTC
ATCGTCTTCTAAGCCAAGTCCATCCCTTAAGCCAACTCTATCAGAACTAGGGAAAGGAAAGTACA
AAACACTCAATCCAAAGGATACATTACCGA
Found at i:1060378 original size:19 final size:17
Alignment explanation
Indices: 1060354--1060398 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 17
1060344 GAGTGTTTAT
1060354 ATTATTTATTTATAATATG
1 ATTATTTATTTAT-AT-TG
1060373 ATTATTAATATTTATATTG
1 ATTATT--TATTTATATTG
1060392 ATTATTT
1 ATTATTT
1060399 TATATCTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
17 1 0.04
19 14 0.58
20 2 0.08
21 7 0.29
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (17 bp):
ATTATTTATTTATATTG
Found at i:1065585 original size:225 final size:225
Alignment explanation
Indices: 1065194--1065645 Score: 726
Period size: 225 Copynumber: 2.0 Consensus size: 225
1065184 CAGTCCTCGG
* * * *
1065194 TTAAGCCAGTTCTATATCCTCCTAGTCTGCTGCCATCATTTGAAACATCATTTACGGCCCAGAAA
1 TTAAGCCAGTTCTATATCCTCCTAGTCCGCTGCCATCATTTAAAACATCATTCACGGCCCAAAAA
* *
1065259 CCATCTCCATCACCTAAAGGATTGACACCACCTAAACCAACCACACCGTCTCTGAAACCCTCTTC
66 CCATCTCCATCACCTAAAGGACTGACACCACCTAAACCAACCACACCGTCTCCGAAACCCTCTTC
*
1065324 ATCGTCTTTTAAGCCAAGTCCATCCCTTAAGCCAACTCTATCAGAACTAGGGAAAGGAAAGTACA
131 ATCGTCTTCTAAGCCAAGTCCATCCCTTAAGCCAACTCTATCAGAACTAGGGAAAGGAAAGTACA
*
1065389 AAACACTCAATCCAGAGGATACATTACCGA
196 AAACACTCAATCCAAAGGATACATTACCGA
* ** *
1065419 TTAAGCC-GATTCTATATCCTCCTAGTCCGCTTCCATCATTTAAAATGTCATTCACGGCCGAAAA
1 TTAAGCCAG-TTCTATATCCTCCTAGTCCGCTGCCATCATTTAAAACATCATTCACGGCCCAAAA
* *
1065483 ACCATCTCCATCACCTAAAGGACTGACACCACCTAAATCAACCACACCGTCTCCGAAACGCTCTT
65 ACCATCTCCATCACCTAAAGGACTGACACCACCTAAACCAACCACACCGTCTCCGAAACCCTCTT
*
1065548 CATCGTCTTCTAAGCCAAGTCCATCCCTTAAGCCAACTCTATCGGAACTAGGGAAAGGAAAGTAC
130 CATCGTCTTCTAAGCCAAGTCCATCCCTTAAGCCAACTCTATCAGAACTAGGGAAAGGAAAGTAC
* * *
1065613 AAAACAGTCGATCCAAAGGATACGTTACCGA
195 AAAACACTCAATCCAAAGGATACATTACCGA
1065644 TT
1 TT
1065646 TACATGATTC
Statistics
Matches: 208, Mismatches: 18, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
224 1 0.00
225 207 1.00
ACGTcount: A:0.33, C:0.31, G:0.13, T:0.23
Consensus pattern (225 bp):
TTAAGCCAGTTCTATATCCTCCTAGTCCGCTGCCATCATTTAAAACATCATTCACGGCCCAAAAA
CCATCTCCATCACCTAAAGGACTGACACCACCTAAACCAACCACACCGTCTCCGAAACCCTCTTC
ATCGTCTTCTAAGCCAAGTCCATCCCTTAAGCCAACTCTATCAGAACTAGGGAAAGGAAAGTACA
AAACACTCAATCCAAAGGATACATTACCGA
Found at i:1068680 original size:19 final size:17
Alignment explanation
Indices: 1068658--1068702 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 17
1068648 GAGTGTTTAT
1068658 ATTATTTATTTATAATATG
1 ATTATTTATTTAT-AT-TG
1068677 ATTATTAATATTTATATTG
1 ATTATT--TATTTATATTG
1068696 ATTATTT
1 ATTATTT
1068703 TATATCTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
17 1 0.04
19 14 0.58
20 2 0.08
21 7 0.29
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (17 bp):
ATTATTTATTTATATTG
Found at i:1072238 original size:21 final size:20
Alignment explanation
Indices: 1072214--1072256 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
1072204 TACCTAAAAA
1072214 AAAAAAC-AAATCTCAGATTTC
1 AAAAAACAAAATC-CA-ATTTC
*
1072235 AAAAATCAAAATCCAATTTC
1 AAAAAACAAAATCCAATTTC
1072255 AA
1 AA
1072257 TAAATAAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 7 0.35
21 8 0.40
22 5 0.25
ACGTcount: A:0.56, C:0.19, G:0.02, T:0.23
Consensus pattern (20 bp):
AAAAAACAAAATCCAATTTC
Found at i:1072261 original size:21 final size:21
Alignment explanation
Indices: 1072221--1072265 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 21
1072211 AAAAAAAAAC
1072221 AAATCTCAGATTTCAAAAATCA
1 AAATCTCAGATTTCAAAAAT-A
1072243 AAATC-CA-ATTTCAATAAATA
1 AAATCTCAGATTTCAA-AAATA
1072263 AAA
1 AAA
1072266 GGGAATAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 11 0.50
21 6 0.27
22 5 0.23
ACGTcount: A:0.56, C:0.16, G:0.02, T:0.27
Consensus pattern (21 bp):
AAATCTCAGATTTCAAAAATA
Found at i:1076778 original size:19 final size:18
Alignment explanation
Indices: 1076756--1076857 Score: 71
Period size: 19 Copynumber: 5.4 Consensus size: 18
1076746 ATAAATTCTA
*
1076756 AAAATATGTTAGAATTTTT
1 AAAATAT-TTAGAAATTTT
* * * *
1076775 AAAATGTTGTAAAAAATAT
1 AAAATATT-TAGAAATTTT
1076794 AAAATATATTAGAAATTTT
1 AAAATAT-TTAGAAATTTT
* * * *
1076813 AAAATATTGAAAAAAATAT
1 AAAATATT-TAGAAATTTT
1076832 AAAA-ATATTAGAAATTTT
1 AAAATAT-TTAGAAATTTT
1076850 AAAATATT
1 AAAATATT
1076858 ATTTTTTAAA
Statistics
Matches: 61, Mismatches: 17, Indels: 11
0.69 0.19 0.12
Matches are distributed among these distances:
18 15 0.25
19 45 0.74
20 1 0.02
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (18 bp):
AAAATATTTAGAAATTTT
Found at i:1076799 original size:38 final size:38
Alignment explanation
Indices: 1076756--1076857 Score: 161
Period size: 38 Copynumber: 2.7 Consensus size: 38
1076746 ATAAATTCTA
* * * *
1076756 AAAATATGTTAGAATTTTTAAAATGTTGTAAAAAATAT
1 AAAATATATTAGAAATTTTAAAATATTGAAAAAAATAT
1076794 AAAATATATTAGAAATTTTAAAATATTGAAAAAAATAT
1 AAAATATATTAGAAATTTTAAAATATTGAAAAAAATAT
1076832 AAAA-ATATTAGAAATTTTAAAATATT
1 AAAATATATTAGAAATTTTAAAATATT
1076858 ATTTTTTAAA
Statistics
Matches: 60, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
37 22 0.37
38 38 0.63
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (38 bp):
AAAATATATTAGAAATTTTAAAATATTGAAAAAAATAT
Found at i:1076853 original size:17 final size:17
Alignment explanation
Indices: 1076799--1076858 Score: 66
Period size: 17 Copynumber: 3.4 Consensus size: 17
1076789 AATATAAAAT
1076799 ATATTAGAAATTTTAAA
1 ATATTAGAAATTTTAAA
* * *
1076816 ATATTGAAAAAAATATAAAA
1 ATATT---AGAAATTTTAAA
1076836 ATATTAGAAATTTTAAA
1 ATATTAGAAATTTTAAA
1076853 ATATTA
1 ATATTA
1076859 TTTTTTAAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
17 20 0.59
20 14 0.41
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (17 bp):
ATATTAGAAATTTTAAA
Found at i:1081698 original size:74 final size:75
Alignment explanation
Indices: 1081554--1081713 Score: 166
Period size: 74 Copynumber: 2.2 Consensus size: 75
1081544 GTTTGTTAAT
* * * * * *
1081554 ACTTAGATGGCTGCATATTTTCCTACGTGCCTACAAGGATGTGAAATGCAATAGTATATGGAGAA
1 ACTTAGATGGTTGCATACTTTCCTACATGCCTACAAGGATGTAAAATGCAATAATACATGGAGAA
*
1081619 GCATAATA-A
66 ACATAATATA
*** *
1081628 ACTTAGATGGTTGCATACTTTCCTACATTTGTACAAGGATG-AAAATTGCACTAATACAT-GAGG
1 ACTTAGATGGTTGCATACTTTCCTACATGCCTACAAGGATGTAAAA-TGCAATAATACATGGA-G
*
1081691 AAACATAATATT
64 AAACATAATATA
1081703 ACTT-GATGGTT
1 ACTTAGATGGTT
1081714 TTCTATTCTT
Statistics
Matches: 71, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
73 5 0.07
74 62 0.87
75 4 0.06
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.31
Consensus pattern (75 bp):
ACTTAGATGGTTGCATACTTTCCTACATGCCTACAAGGATGTAAAATGCAATAATACATGGAGAA
ACATAATATA
Found at i:1083227 original size:22 final size:22
Alignment explanation
Indices: 1083199--1083242 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
1083189 GGTATGAGGC
1083199 TCAAAGGGTTTAGACAAAAAGA
1 TCAAAGGGTTTAGACAAAAAGA
1083221 TCAAAGGGTTTAGACAAAAAGA
1 TCAAAGGGTTTAGACAAAAAGA
1083243 AAAGTTTGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.50, C:0.09, G:0.23, T:0.18
Consensus pattern (22 bp):
TCAAAGGGTTTAGACAAAAAGA
Found at i:1085026 original size:6 final size:6
Alignment explanation
Indices: 1085015--1085039 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
1085005 TTATAAAATT
1085015 ATATAA ATATAA ATATAA ATATAA A
1 ATATAA ATATAA ATATAA ATATAA A
1085040 ATATTTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
ATATAA
Found at i:1088457 original size:7 final size:7
Alignment explanation
Indices: 1088445--1088471 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
1088435 TTCGAAATAT
1088445 AAATTTC
1 AAATTTC
1088452 AAATTTC
1 AAATTTC
1088459 AAATTTC
1 AAATTTC
1088466 AAATTT
1 AAATTT
1088472 ATTTATTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.11, G:0.00, T:0.44
Consensus pattern (7 bp):
AAATTTC
Found at i:1099780 original size:32 final size:32
Alignment explanation
Indices: 1099741--1099811 Score: 133
Period size: 32 Copynumber: 2.2 Consensus size: 32
1099731 TACGGATTAT
*
1099741 ACAACAAACACATATTTAAAACTCAAAACCCA
1 ACAACAAAAACATATTTAAAACTCAAAACCCA
1099773 ACAACAAAAACATATTTAAAACTCAAAACCCA
1 ACAACAAAAACATATTTAAAACTCAAAACCCA
1099805 ACAACAA
1 ACAACAA
1099812 TAATTATATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.59, C:0.27, G:0.00, T:0.14
Consensus pattern (32 bp):
ACAACAAAAACATATTTAAAACTCAAAACCCA
Found at i:1101886 original size:21 final size:20
Alignment explanation
Indices: 1101849--1101904 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 20
1101839 AATCGACATT
1101849 AAATTTTAGAATG-TTTAATTTA
1 AAATTTTA-AA-GATTTAA-TTA
1101871 AAATTTTAAAGATTTAATTA
1 AAATTTTAAAGATTTAATTA
*
1101891 ATATTTTAAA-ATTT
1 AAATTTTAAAGATTT
1101905 TTAAAGGGTT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
19 4 0.12
20 13 0.41
21 7 0.22
22 8 0.25
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (20 bp):
AAATTTTAAAGATTTAATTA
Found at i:1104440 original size:50 final size:50
Alignment explanation
Indices: 1104365--1104641 Score: 464
Period size: 50 Copynumber: 5.5 Consensus size: 50
1104355 CCATGGCAAC
* *
1104365 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1104415 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
*
1104465 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1104515 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * *
1104565 AAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAAGACAAATGGC
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAAT-GA
* * *
1104616 AAGTAAAAAGTGGTAGCTTCGGCTAC
1 AAGTGATAAGTGATAGCTTCGGCTAC
1104642 CTGATCAATG
Statistics
Matches: 215, Mismatches: 11, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
50 192 0.89
51 23 0.11
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:1104659 original size:31 final size:31
Alignment explanation
Indices: 1104621--1104679 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
1104611 ATGGCAAGTA
1104621 AAAAGTGGTAGCTTCGGCTACCTGATCAATG
1 AAAAGTGGTAGCTTCGGCTACCTGATCAATG
1104652 AAAAGTGGTAGCTTCGGCTACCTGATCA
1 AAAAGTGGTAGCTTCGGCTACCTGATCA
1104680 TCGACTACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.25
Consensus pattern (31 bp):
AAAAGTGGTAGCTTCGGCTACCTGATCAATG
Found at i:1105936 original size:19 final size:18
Alignment explanation
Indices: 1105912--1105959 Score: 78
Period size: 19 Copynumber: 2.6 Consensus size: 18
1105902 ACGTAAAAAG
1105912 TAAAAAGTAAAAGATGAAA
1 TAAAAA-TAAAAGATGAAA
1105931 TAAAAATAAAAAGATGAAA
1 TAAAAAT-AAAAGATGAAA
1105950 TAAAAATAAA
1 TAAAAATAAA
1105960 TAACAAAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.14
19 24 0.86
ACGTcount: A:0.73, C:0.00, G:0.10, T:0.17
Consensus pattern (18 bp):
TAAAAATAAAAGATGAAA
Found at i:1106875 original size:16 final size:16
Alignment explanation
Indices: 1106845--1106892 Score: 57
Period size: 15 Copynumber: 3.1 Consensus size: 16
1106835 GAAAATTAAT
1106845 ATAAAATCT-AAAAT-A
1 ATAAAAT-TAAAAATAA
1106860 ATAATAATTAAAAATAA
1 ATAA-AATTAAAAATAA
1106877 ATAAAATT-AAAATAA
1 ATAAAATTAAAAATAA
1106892 A
1 A
1106893 CTTAAAATAG
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
15 13 0.43
16 12 0.40
17 5 0.17
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (16 bp):
ATAAAATTAAAAATAA
Found at i:1106891 original size:11 final size:11
Alignment explanation
Indices: 1106836--1106906 Score: 58
Period size: 11 Copynumber: 6.5 Consensus size: 11
1106826 ATAGCTTAAG
*
1106836 AAAATTAATAT
1 AAAATTAAAAT
1106847 AAAATCTAAAAT
1 AAAAT-TAAAAT
*
1106859 AATAA-T-AATT
1 AA-AATTAAAAT
*
1106869 AAAAAT-AAAT
1 AAAATTAAAAT
1106879 AAAATTAAAAT
1 AAAATTAAAAT
*
1106890 AAACTTAAAAT
1 AAAATTAAAAT
*
1106901 AGAATT
1 AAAATT
1106907 TCCTATTTTT
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
9 2 0.04
10 14 0.29
11 24 0.49
12 7 0.14
13 2 0.04
ACGTcount: A:0.66, C:0.03, G:0.01, T:0.30
Consensus pattern (11 bp):
AAAATTAAAAT
Found at i:1109362 original size:32 final size:32
Alignment explanation
Indices: 1109320--1109383 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
1109310 TTTCAGGCGT
*
1109320 TTATAGACCAAATGAACCAACTATGGCCTTAA
1 TTATAAACCAAATGAACCAACTATGGCCTTAA
1109352 TTATAAACCAAATGAACCAACTATGGCCTTAA
1 TTATAAACCAAATGAACCAACTATGGCCTTAA
1109384 ATTAATACCT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.42, C:0.22, G:0.11, T:0.25
Consensus pattern (32 bp):
TTATAAACCAAATGAACCAACTATGGCCTTAA
Found at i:1110063 original size:31 final size:29
Alignment explanation
Indices: 1110026--1110126 Score: 89
Period size: 31 Copynumber: 3.3 Consensus size: 29
1110016 ATTGGGATTT
1110026 TAATTAAAAAATTTAAAATTTTAAGAGACA
1 TAATTAAAAAATTTAAAATTTTAA-AGACA
* * **
1110056 TTAATTAAAATACTTAAAAAATTAAA-AGCA
1 -TAATTAAAAAATTTAAAATTTTAAAGA-CA
*
1110086 TAA-TAAGAAAATTTTAAAATTTTGAAAGATA
1 TAATTAA-AAAA-TTTAAAATTTT-AAAGACA
1110117 TAATTAAAAA
1 TAATTAAAAA
1110127 TTCCAAAGGA
Statistics
Matches: 55, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
28 3 0.05
29 7 0.13
30 11 0.20
31 30 0.55
32 4 0.07
ACGTcount: A:0.58, C:0.03, G:0.06, T:0.33
Consensus pattern (29 bp):
TAATTAAAAAATTTAAAATTTTAAAGACA
Found at i:1115267 original size:14 final size:15
Alignment explanation
Indices: 1115250--1115280 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
1115240 AAATATGTGG
1115250 ATGAAATA-ATAGAA
1 ATGAAATACATAGAA
1115264 ATGAAATACATAGAA
1 ATGAAATACATAGAA
1115279 AT
1 AT
1115281 TTGATATGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.61, C:0.03, G:0.13, T:0.23
Consensus pattern (15 bp):
ATGAAATACATAGAA
Found at i:1121152 original size:33 final size:33
Alignment explanation
Indices: 1121115--1121238 Score: 230
Period size: 33 Copynumber: 3.8 Consensus size: 33
1121105 CTCTGTTTCA
1121115 GGTTGCTGGACAGGAGCTGGAATGTGAGTGTTT
1 GGTTGCTGGACAGGAGCTGGAATGTGAGTGTTT
*
1121148 GGTTGCTGGACGGGAGCTGGAATGTGAGTGTTT
1 GGTTGCTGGACAGGAGCTGGAATGTGAGTGTTT
1121181 GGTTGCTGGACAGGAGCTGGAATGTGAGTGTTT
1 GGTTGCTGGACAGGAGCTGGAATGTGAGTGTTT
*
1121214 GGTTGCTGGACAGTAGCTGGAATGT
1 GGTTGCTGGACAGGAGCTGGAATGT
1121239 CAAGAAGAAA
Statistics
Matches: 88, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 88 1.00
ACGTcount: A:0.18, C:0.10, G:0.43, T:0.30
Consensus pattern (33 bp):
GGTTGCTGGACAGGAGCTGGAATGTGAGTGTTT
Found at i:1127624 original size:8 final size:9
Alignment explanation
Indices: 1127608--1127632 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
1127598 ACCAAAAGAG
1127608 GGAAAAAAA
1 GGAAAAAAA
1127617 GGAAAAAAA
1 GGAAAAAAA
1127626 GGAAAAA
1 GGAAAAA
1127633 GAAAACCTCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (9 bp):
GGAAAAAAA
Found at i:1133277 original size:21 final size:21
Alignment explanation
Indices: 1133239--1133278 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
1133229 GGAATATTTA
*
1133239 CAAAACCATTTAATTTGAAAT
1 CAAAACCATTTAAATTGAAAT
1133260 CAAAACC-TATTAAATTGAA
1 CAAAACCAT-TTAAATTGAA
1133279 CAATCCAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.50, C:0.15, G:0.05, T:0.30
Consensus pattern (21 bp):
CAAAACCATTTAAATTGAAAT
Found at i:1139294 original size:27 final size:27
Alignment explanation
Indices: 1139262--1139318 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
1139252 CGAACTCGAA
1139262 TCTATAATGCAATAATTATATTTGATG
1 TCTATAATGCAATAATTATATTTGATG
1139289 TCTATAATGCAATAATTATATTTGATG
1 TCTATAATGCAATAATTATATTTGATG
1139316 TCT
1 TCT
1139319 CTAAATTGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.35, C:0.09, G:0.11, T:0.46
Consensus pattern (27 bp):
TCTATAATGCAATAATTATATTTGATG
Found at i:1142913 original size:15 final size:15
Alignment explanation
Indices: 1142893--1142921 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
1142883 TCCAAACTAA
1142893 ACAACATCATGTGAC
1 ACAACATCATGTGAC
1142908 ACAACATCATGTGA
1 ACAACATCATGTGA
1142922 TCTAATAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.24, G:0.14, T:0.21
Consensus pattern (15 bp):
ACAACATCATGTGAC
Found at i:1146784 original size:36 final size:36
Alignment explanation
Indices: 1146737--1146814 Score: 147
Period size: 36 Copynumber: 2.1 Consensus size: 36
1146727 AGAATACTTG
1146737 ATAAGGTTAAGGACTTAAGTTTAGAAACTTCAATTA
1 ATAAGGTTAAGGACTTAAGTTTAGAAACTTCAATTA
1146773 ATAAGGTTAAGGACTTAAGTTTAGAAACTTCAATTA
1 ATAAGGTTAAGGACTTAAGTTTAGAAACTTCAATTA
1146809 AGTAAG
1 A-TAAG
1146815 AGCAACATTG
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
36 37 0.90
37 4 0.10
ACGTcount: A:0.42, C:0.08, G:0.18, T:0.32
Consensus pattern (36 bp):
ATAAGGTTAAGGACTTAAGTTTAGAAACTTCAATTA
Found at i:1149247 original size:19 final size:19
Alignment explanation
Indices: 1149223--1149265 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
1149213 CATTTTTTTT
1149223 ATAATAGGAGATAAAATTG
1 ATAATAGGAGATAAAATTG
1149242 ATAATAGGAGATAAAATTG
1 ATAATAGGAGATAAAATTG
1149261 ATAAT
1 ATAAT
1149266 TTGGTTTACC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.53, C:0.00, G:0.19, T:0.28
Consensus pattern (19 bp):
ATAATAGGAGATAAAATTG
Found at i:1152179 original size:13 final size:13
Alignment explanation
Indices: 1152161--1152188 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1152151 AACATACAAG
1152161 TAAGAATACATAC
1 TAAGAATACATAC
1152174 TAAGAATACATAC
1 TAAGAATACATAC
1152187 TA
1 TA
1152189 CAATGATCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.54, C:0.14, G:0.07, T:0.25
Consensus pattern (13 bp):
TAAGAATACATAC
Found at i:1154558 original size:6 final size:7
Alignment explanation
Indices: 1154541--1154566 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
1154531 AGAGCATATA
1154541 AAAAAAT
1 AAAAAAT
1154548 AAAAAAT
1 AAAAAAT
1154555 AAAAAAT
1 AAAAAAT
1154562 AAAAA
1 AAAAA
1154567 GAAAGGATGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAAAT
Found at i:1158245 original size:14 final size:14
Alignment explanation
Indices: 1158209--1158265 Score: 50
Period size: 13 Copynumber: 4.3 Consensus size: 14
1158199 AAATGATAAT
*
1158209 TTAAATATTTAAAA
1 TTAAATATTAAAAA
1158223 -TAAA-A-TAAAAA
1 TTAAATATTAAAAA
1158234 TTAAATATT-AAAA
1 TTAAATATTAAAAA
* *
1158247 TGGAAATATTAAAAG
1 T-TAAATATTAAAAA
1158262 TTAA
1 TTAA
1158266 TTCGCCAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
11 5 0.15
12 5 0.15
13 10 0.29
14 10 0.29
15 4 0.12
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.33
Consensus pattern (14 bp):
TTAAATATTAAAAA
Found at i:1162971 original size:18 final size:18
Alignment explanation
Indices: 1162948--1162982 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
1162938 AGTTAAAATA
*
1162948 TAATTTTTATTTTTATAT
1 TAATTTATATTTTTATAT
1162966 TAATTTATATTTTTATA
1 TAATTTATATTTTTATA
1162983 ATTTTCAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
TAATTTATATTTTTATAT
Found at i:1166477 original size:21 final size:20
Alignment explanation
Indices: 1166444--1166497 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 20
1166434 TAAAAAATAA
*
1166444 AAAATAAAT-TTAAAATATC
1 AAAATTAATATTAAAATATC
* *
1166463 AAAATTTTATATTAAAATTTC
1 AAAA-TTAATATTAAAATATC
*
1166484 CAAATTAATATTAA
1 AAAATTAATATTAA
1166498 CTAAAACAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 4 0.14
20 12 0.43
21 12 0.43
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.39
Consensus pattern (20 bp):
AAAATTAATATTAAAATATC
Found at i:1167142 original size:28 final size:28
Alignment explanation
Indices: 1167111--1167190 Score: 115
Period size: 28 Copynumber: 2.8 Consensus size: 28
1167101 TACCATCAAC
*
1167111 TTTTCAAAAATAGTCCAATTATATATATT
1 TTTT-AAAAATAGTCCAATTATATATATA
*
1167140 TTTTAAAAATAGTACAATTATATATATA
1 TTTTAAAAATAGTCCAATTATATATATA
**
1167168 TTTTTGAAATAGTCCAATTATAT
1 TTTTAAAAATAGTCCAATTATAT
1167191 TTTTTAATAG
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
28 42 0.91
29 4 0.09
ACGTcount: A:0.42, C:0.07, G:0.05, T:0.45
Consensus pattern (28 bp):
TTTTAAAAATAGTCCAATTATATATATA
Found at i:1167798 original size:26 final size:28
Alignment explanation
Indices: 1167749--1167801 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 28
1167739 GATAATCATA
1167749 ATTAATATATCAATAAATAAAATTTTAT
1 ATTAATATATCAATAAATAAAATTTTAT
* *
1167777 ATTAA-ATAT-AATAATTACAATTTTA
1 ATTAATATATCAATAAATAAAATTTTA
1167802 AAAGTATGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 14 0.61
27 4 0.17
28 5 0.22
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (28 bp):
ATTAATATATCAATAAATAAAATTTTAT
Found at i:1171512 original size:20 final size:20
Alignment explanation
Indices: 1171474--1171512 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
1171464 GTATATTTTT
** *
1171474 TTTATATTATGTAATCATAG
1 TTTATATTATACAAGCATAG
1171494 TTTATATTATACAAGCATA
1 TTTATATTATACAAGCATA
1171513 TATAATATTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (20 bp):
TTTATATTATACAAGCATAG
Found at i:1173844 original size:13 final size:13
Alignment explanation
Indices: 1173826--1173850 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1173816 TGTTACTTAC
1173826 TACAGCTCTTTAT
1 TACAGCTCTTTAT
1173839 TACAGCTCTTTA
1 TACAGCTCTTTA
1173851 CCCATTGAGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.24, G:0.08, T:0.44
Consensus pattern (13 bp):
TACAGCTCTTTAT
Found at i:1174088 original size:3 final size:3
Alignment explanation
Indices: 1174080--1174110 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
1174070 TGACCACCTT
1174080 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1174111 GACTCCTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:1180204 original size:27 final size:27
Alignment explanation
Indices: 1180174--1180233 Score: 86
Period size: 27 Copynumber: 2.2 Consensus size: 27
1180164 AGATTCAGGG
1180174 ACTAA-AAGTTAGATTAATATTTTTTTT
1 ACTAACAAGTTAGATTAATA-TTTTTTT
* *
1180201 ACTAACTATTTAGATTAATATTTTTTT
1 ACTAACAAGTTAGATTAATATTTTTTT
1180228 ACTAAC
1 ACTAAC
1180234 TATTCCACCC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 18 0.60
28 12 0.40
ACGTcount: A:0.37, C:0.08, G:0.05, T:0.50
Consensus pattern (27 bp):
ACTAACAAGTTAGATTAATATTTTTTT
Done.