Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 206 of 250
Found at i:64243970 original size:3 final size:3
Alignment explanation
Indices: 64243938--64244029 Score: 50
Period size: 3 Copynumber: 30.3 Consensus size: 3
64243928 TTATATATAG
* *
64243938 TAT TAT TTT TAT ATAT CAT TA- TATT TAT TAT TA- TACT TAT TAT T-T
1 TAT TAT TAT TAT -TAT TAT TAT TA-T TAT TAT TAT TA-T TAT TAT TAT
* * *
64243983 TCAC TAT TGT TACT TAT TAT T-T TAT T-T TAA TAT TAT TAT GTAT TAT
1 T-AT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT
64244029 T
1 T
64244030 TGGTATACAT
Statistics
Matches: 68, Mismatches: 10, Indels: 22
0.68 0.10 0.22
Matches are distributed among these distances:
2 10 0.15
3 44 0.65
4 14 0.21
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:64243972 original size:12 final size:12
Alignment explanation
Indices: 64243870--64243981 Score: 58
Period size: 12 Copynumber: 9.3 Consensus size: 12
64243860 ATTTCACCCC
64243870 TATTATATTTAT
1 TATTATATTTAT
64243882 TATTA-A--TAT
1 TATTATATTTAT
*
64243891 TAGTATATATT-T
1 TATTATAT-TTAT
*
64243903 TATTATACGTGTA-
1 TATTATA--TTTAT
*
64243916 TATATATATTTTT
1 TAT-TATATTTAT
64243929 TATATATAGTATTAT
1 TAT-TATA-T-TTAT
*
64243944 T-TT-TATATAT
1 TATTATATTTAT
*
64243954 CATTATATTTAT
1 TATTATATTTAT
*
64243966 TATTATACTTAT
1 TATTATATTTAT
64243978 TATT
1 TATT
64243982 TTCACTATTG
Statistics
Matches: 76, Mismatches: 11, Indels: 26
0.67 0.10 0.23
Matches are distributed among these distances:
9 7 0.09
10 4 0.05
11 4 0.05
12 36 0.47
13 14 0.18
14 7 0.09
15 4 0.05
ACGTcount: A:0.34, C:0.03, G:0.04, T:0.60
Consensus pattern (12 bp):
TATTATATTTAT
Found at i:64244624 original size:19 final size:19
Alignment explanation
Indices: 64244584--64244624 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
64244574 TCGGCCTTCT
* *
64244584 TTTTGTTTTAAAAAATAAA
1 TTTTCTTTTAAAAAAGAAA
*
64244603 TTTTCTTTTAAAAAAGAGA
1 TTTTCTTTTAAAAAAGAAA
64244622 TTT
1 TTT
64244625 ATTAGGTGTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.49
Consensus pattern (19 bp):
TTTTCTTTTAAAAAAGAAA
Found at i:64246290 original size:3 final size:3
Alignment explanation
Indices: 64246282--64246324 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
64246272 ACTCGCGTCG
*
64246282 TTA TTA TTA CTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
64246325 ACTATTAAAC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:64246375 original size:4 final size:4
Alignment explanation
Indices: 64246354--64246394 Score: 50
Period size: 4 Copynumber: 10.8 Consensus size: 4
64246344 TAATATTCAA
* *
64246354 TATT TATT TGTT TGTT TATT TATT TATT TA-T TATT T-TT TAT
1 TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TAT
64246395 AGCTTGGTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
3 6 0.18
4 27 0.82
ACGTcount: A:0.20, C:0.00, G:0.05, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:64246502 original size:24 final size:25
Alignment explanation
Indices: 64246474--64246530 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 25
64246464 ATACTTTCAA
* *
64246474 ATTTTATATTATTTATTTTTATT-AT
1 ATTTTATAATA-TTATTGTTATTAAT
64246499 -TTTTACTAATATTATTGTTATTAAT
1 ATTTTA-TAATATTATTGTTATTAAT
64246524 ATTTTAT
1 ATTTTAT
64246531 GTTCATTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
24 15 0.56
25 7 0.26
26 5 0.19
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (25 bp):
ATTTTATAATATTATTGTTATTAAT
Found at i:64246511 original size:15 final size:15
Alignment explanation
Indices: 64246493--64246526 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
64246483 TATTTATTTT
*
64246493 TATTATTTTTACTAA
1 TATTATTGTTACTAA
*
64246508 TATTATTGTTATTAA
1 TATTATTGTTACTAA
64246523 TATT
1 TATT
64246527 TTATGTTCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (15 bp):
TATTATTGTTACTAA
Found at i:64265723 original size:19 final size:20
Alignment explanation
Indices: 64265699--64265737 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
64265689 GTTGAGTTAG
64265699 AATTTTTAA-AATTTTTTAA
1 AATTTTTAATAATTTTTTAA
64265718 AATTTTTAATAATTTTTTAA
1 AATTTTTAATAATTTTTTAA
64265738 TTAGACCAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
AATTTTTAATAATTTTTTAA
Found at i:64265738 original size:11 final size:10
Alignment explanation
Indices: 64265701--64265737 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
64265691 TGAGTTAGAA
64265701 TTTTTAAAAT
1 TTTTTAAAAT
64265711 TTTTTAAAA-
1 TTTTTAAAAT
64265720 TTTTTAATAAT
1 TTTTTAA-AAT
64265731 TTTTTAA
1 TTTTTAA
64265738 TTAGACCAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 7 0.28
10 11 0.44
11 7 0.28
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (10 bp):
TTTTTAAAAT
Found at i:64276535 original size:18 final size:18
Alignment explanation
Indices: 64276514--64276548 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
64276504 TATTTAGTCA
* *
64276514 GTAACAGTCAGTTATTCG
1 GTAACAATCAATTATTCG
64276532 GTAACAATCAATTATTC
1 GTAACAATCAATTATTC
64276549 AATAATAACC
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:0.34, C:0.17, G:0.14, T:0.34
Consensus pattern (18 bp):
GTAACAATCAATTATTCG
Found at i:64276613 original size:18 final size:18
Alignment explanation
Indices: 64276587--64276777 Score: 131
Period size: 18 Copynumber: 10.6 Consensus size: 18
64276577 AATTGATCGG
*
64276587 TTATCCAGTAACAGAT-AA
1 TTATTCAGTAACA-ATCAA
64276605 TTATTCAGTAA-AATCAGA
1 TTATTCAGTAACAATCA-A
*
64276623 -TATTCAGTAACAATTAA
1 TTATTCAGTAACAATCAA
*
64276640 GTTATTCAGTAACAGTC-A
1 -TTATTCAGTAACAATCAA
* *
64276658 TTCATTCAGTGACAATCAG
1 TT-ATTCAGTAACAATCAA
**
64276677 TTATTCAGTAATGATCAA
1 TTATTCAGTAACAATCAA
* * *
64276695 TTATTCAGTAATATTCAG
1 TTATTCAGTAACAATCAA
* *
64276713 TTATTCAGTAATAGTCTAA
1 TTATTCAGTAACAATC-AA
* * * *
64276732 -TATCCAATAACAGTAAA
1 TTATTCAGTAACAATCAA
* * *
64276749 TTATCCGGTAACAGTCAA
1 TTATTCAGTAACAATCAA
64276767 TTATTCAGTAA
1 TTATTCAGTAA
64276778 TAATAAGTTA
Statistics
Matches: 139, Mismatches: 25, Indels: 18
0.76 0.14 0.10
Matches are distributed among these distances:
16 2 0.01
17 17 0.12
18 104 0.75
19 16 0.12
ACGTcount: A:0.39, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATTCAGTAACAATCAA
Found at i:64276648 original size:36 final size:35
Alignment explanation
Indices: 64276592--64276789 Score: 148
Period size: 36 Copynumber: 5.5 Consensus size: 35
64276582 ATCGGTTATC
64276592 CAGTAACAGATAA-TTATTCAGTAA-AATCAGATATT
1 CAGTAACA-ATAAGTTATTCAGTAACAATCA-ATATT
* *
64276627 CAGTAACAATTAAGTTATTCAGTAACAGTCATTCATT
1 CAGTAACAA-TAAGTTATTCAGTAACAATCAAT-ATT
* * **
64276664 CAGTGACAATCAGTTATTCAGTAATGATCAATTATT
1 CAGTAACAATAAGTTATTCAGTAACAATCAA-TATT
* * * * * *
64276700 CAGTAATATTCAGTTATTCAGTAATAGTCTAATATC
1 CAGTAACAATAAGTTATTCAGTAACAATC-AATATT
* * * * * *
64276736 CAATAACAGTAAATTATCCGGTAACAGTCAATTATT
1 CAGTAACAATAAGTTATTCAGTAACAATCAA-TATT
*
64276772 CAGTAATAATAAGTTATT
1 CAGTAACAATAAGTTATT
64276790 TTCTACCTTT
Statistics
Matches: 128, Mismatches: 28, Indels: 13
0.76 0.17 0.08
Matches are distributed among these distances:
34 1 0.01
35 13 0.10
36 96 0.75
37 18 0.14
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.35
Consensus pattern (35 bp):
CAGTAACAATAAGTTATTCAGTAACAATCAATATT
Found at i:64276651 original size:54 final size:55
Alignment explanation
Indices: 64276586--64276705 Score: 147
Period size: 54 Copynumber: 2.2 Consensus size: 55
64276576 CAATTGATCG
* *
64276586 GTTATCCAGTAACAGATAATT-ATTCAGT-AAAATCAGATATTCAGTAACAATTAA
1 GTTATTCAGTAACAG-TAATTCATTCAGTGAAAATCAGATATTCAGTAACAATCAA
* * * **
64276640 GTTATTCAGTAACAGTCATTCATTCAGTGACAATCAGTTATTCAGTAATGATCAA
1 GTTATTCAGTAACAGTAATTCATTCAGTGAAAATCAGATATTCAGTAACAATCAA
64276695 -TTATTCAGTAA
1 GTTATTCAGTAA
64276706 TATTCAGTTA
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
53 4 0.07
54 32 0.56
55 21 0.37
ACGTcount: A:0.39, C:0.14, G:0.12, T:0.34
Consensus pattern (55 bp):
GTTATTCAGTAACAGTAATTCATTCAGTGAAAATCAGATATTCAGTAACAATCAA
Found at i:64276964 original size:6 final size:6
Alignment explanation
Indices: 64276953--64276977 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
64276943 ACAAATCTGG
64276953 AACAGT AACAGT AACAGT AACAGT A
1 AACAGT AACAGT AACAGT AACAGT A
64276978 TTCAACACAC
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:0.52, C:0.16, G:0.16, T:0.16
Consensus pattern (6 bp):
AACAGT
Found at i:64277007 original size:45 final size:45
Alignment explanation
Indices: 64276958--64277067 Score: 157
Period size: 45 Copynumber: 2.4 Consensus size: 45
64276948 TCTGGAACAG
**
64276958 TAACAGTAACAGTAACAGTATTCAACACACAAAGTACTGAATCAA
1 TAACAGTAACAGTAACAGTATTCAACACACAAAGTACCAAATCAA
* * **
64277003 TAACAGTAATAGTAACAGTATTCGACACACAAAGTACCAAATCGG
1 TAACAGTAACAGTAACAGTATTCAACACACAAAGTACCAAATCAA
*
64277048 TAACAGTAACGGTAACAGTA
1 TAACAGTAACAGTAACAGTA
64277068 ACAGTAACAG
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 57 1.00
ACGTcount: A:0.46, C:0.19, G:0.15, T:0.20
Consensus pattern (45 bp):
TAACAGTAACAGTAACAGTATTCAACACACAAAGTACCAAATCAA
Found at i:64277062 original size:6 final size:6
Alignment explanation
Indices: 64277047--64277079 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
64277037 TACCAAATCG
*
64277047 GTAACA GTAACG GTAACA GTAACA GTAACA GTA
1 GTAACA GTAACA GTAACA GTAACA GTAACA GTA
64277080 TTCGGCACAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.45, C:0.15, G:0.21, T:0.18
Consensus pattern (6 bp):
GTAACA
Found at i:64279794 original size:26 final size:26
Alignment explanation
Indices: 64279756--64279813 Score: 89
Period size: 26 Copynumber: 2.2 Consensus size: 26
64279746 CATGAAATTC
64279756 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* **
64279782 TTATCATGGAACATTTACCTAACTTA
1 TTATCATGAAACATTTACCTAACCCA
64279808 TTATCA
1 TTATCA
64279814 ATTTGTATCA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.36, C:0.22, G:0.05, T:0.36
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:64284011 original size:25 final size:27
Alignment explanation
Indices: 64283974--64284026 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
64283964 TCAAACATAC
64283974 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
64284000 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
64284026 A
1 A
64284027 AAACTGTAAA
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:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:64285547 original size:26 final size:26
Alignment explanation
Indices: 64285509--64285566 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
64285499 CATGAAATTC
64285509 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
64285535 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
64285561 TTATCA
1 TTATCA
64285567 ATTTGTATCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:64287621 original size:31 final size:32
Alignment explanation
Indices: 64287553--64287614 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 32
64287543 CACACTTGTC
*
64287553 ATAATTTAATATATTTATTACATAAAAATCTT
1 ATAATATAATATATTTATTACATAAAAATCTT
*
64287585 ATAATATAAT-TATTTAATTA-ATAAATATCT
1 ATAATATAATATATTT-ATTACATAAAAATCT
64287615 ACTAATAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
31 14 0.52
32 13 0.48
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.47
Consensus pattern (32 bp):
ATAATATAATATATTTATTACATAAAAATCTT
Found at i:64291043 original size:6 final size:6
Alignment explanation
Indices: 64291034--64291066 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
64291024 AATAAAATTG
*
64291034 AAATGA AAATAA AAATAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAA
64291067 GATAAGAGGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:64305823 original size:6 final size:7
Alignment explanation
Indices: 64305806--64305832 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
64305796 CCATTTAAAT
64305806 AAAAAAG
1 AAAAAAG
64305813 AAAAAAG
1 AAAAAAG
64305820 AAAAAAG
1 AAAAAAG
64305827 AAAAAA
1 AAAAAA
64305833 AATCCATCTA
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:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:64317216 original size:35 final size:36
Alignment explanation
Indices: 64317137--64317216 Score: 85
Period size: 35 Copynumber: 2.3 Consensus size: 36
64317127 TGTATTTATT
** *
64317137 TTTATTTA-TTTATAATATAAACTTTAATATTTATA
1 TTTATTTATTTTATAATATAAAAATTAATATATATA
* *
64317172 TTTGA-TTATTTTAT-ATCTAAAAATTAATATATATG
1 TTT-ATTTATTTTATAATATAAAAATTAATATATATA
64317207 TTTATTTATT
1 TTTATTTATT
64317217 ATGCATATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
34 1 0.03
35 30 0.81
36 6 0.16
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (36 bp):
TTTATTTATTTTATAATATAAAAATTAATATATATA
Found at i:64320885 original size:42 final size:42
Alignment explanation
Indices: 64320819--64320946 Score: 159
Period size: 42 Copynumber: 3.0 Consensus size: 42
64320809 CTTCGTTTTC
** * *
64320819 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACAT-A
* *
64320862 T-GATGTCATAGCCCAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
* * *
64320903 TCGATGCCATAGCCTAGCTATGGTCTTACACGTAATCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
64320945 TC
1 TC
64320947 ACATATCGAT
Statistics
Matches: 73, Mismatches: 11, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
41 2 0.03
42 70 0.96
43 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
Found at i:64320974 original size:49 final size:47
Alignment explanation
Indices: 64320854--64321026 Score: 146
Period size: 47 Copynumber: 3.7 Consensus size: 47
64320844 TTACACATCT
* *
64320854 TCACATAAT-GATGTCATAGCCCAGCTATGGTCTTACAC-AT---AT-
1 TCACAT-ATCGATGTCATATCCCAGATATGGTCTTACACAATCACATA
* * * * *
64320896 TCATATATCGATGCCATAGCCTAGCTATGGTCTTACACGTAATCACATA
1 TCACATATCGATGTCATATCCCAGATATGGTCTTACAC--AATCACATA
*
64320945 TCACATATCGATGTCATATCCCAGATATGGTCTTATACAAT-AGCATA
1 TCACATATCGATGTCATATCCCAGATATGGTCTTACACAATCA-CATA
* * *
64320992 T-ATCACACCGATGTCATATGCCAGATATGGTCTTA
1 TCA-CATATCGATGTCATATCCCAGATATGGTCTTA
64321027 TACGGAAATC
Statistics
Matches: 109, Mismatches: 12, Indels: 15
0.80 0.09 0.11
Matches are distributed among these distances:
41 2 0.02
42 32 0.29
45 2 0.02
46 2 0.02
47 37 0.34
48 2 0.02
49 32 0.29
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.31
Consensus pattern (47 bp):
TCACATATCGATGTCATATCCCAGATATGGTCTTACACAATCACATA
Found at i:64321083 original size:31 final size:31
Alignment explanation
Indices: 64321048--64321196 Score: 228
Period size: 31 Copynumber: 4.8 Consensus size: 31
64321038 CTTGTCACTT
*
64321048 GTAGCTGAAGCTACCA-TTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTT-TTCACTGATCAG
* *
64321079 GTAGCCGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
64321110 GTAGCCAAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
64321141 GTAGCCGAAGCTATCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
64321172 GTAGCCGAAGCTATCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
64321197 TGTCATTTGT
Statistics
Matches: 110, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
31 108 0.98
32 2 0.02
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:64321278 original size:50 final size:50
Alignment explanation
Indices: 64321172--64321347 Score: 262
Period size: 50 Copynumber: 3.5 Consensus size: 50
64321162 CACTGATCAG
* * *
64321172 GTAGCCGAAGCTATCACTTTTCACTTGTCATTTGTCCTTAATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCACTTGTCCTTGATCAGATAAGT
*
64321223 GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTGATCAGGTAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTGATCAGATAAGT
* * *
64321273 GTAGCCGAAGCTATTACTTATCACTTTCACTTATCCTTGACCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTGATCAGATAAGT
* *
64321323 GTCGTCGAAGCTATCACTTATCACT
1 GTAGCCGAAGCTATCACTTATCACT
64321348 GGTTGCCATA
Statistics
Matches: 114, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
50 89 0.78
51 25 0.22
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.35
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTGATCAGATAAGT
Found at i:64324720 original size:28 final size:30
Alignment explanation
Indices: 64324689--64324748 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 30
64324679 AAAGTGATTT
*
64324689 TTGACAAAAATGTCAATT-AGGGATT-AAA
1 TTGACAAAAATGTAAATTGAGGGATTGAAA
* *
64324717 TTGAGAAAAATGTAAATTGAGGGGTTGAAA
1 TTGACAAAAATGTAAATTGAGGGATTGAAA
64324747 TT
1 TT
64324749 TGAAATAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 16 0.59
29 6 0.22
30 5 0.19
ACGTcount: A:0.43, C:0.03, G:0.23, T:0.30
Consensus pattern (30 bp):
TTGACAAAAATGTAAATTGAGGGATTGAAA
Found at i:64325286 original size:43 final size:41
Alignment explanation
Indices: 64325233--64325345 Score: 129
Period size: 43 Copynumber: 2.6 Consensus size: 41
64325223 TCGAGATATG
* *
64325233 ATTACATGTAAGATCATGTTTGGGACATTGGCATTGTATTAA-A
1 ATTACGTGTAAGA-CATGTTTGGGACATTGGCATAG--TTAACA
*
64325276 ATTACGTGTAAGACCATGCTTGGGACATTGGCATAGTTAATCA
1 ATTACGTGTAAGA-CATGTTTGGGACATTGGCATAGTTAA-CA
*
64325319 ATTTCGTGTAAGACACTGTTTGGGACA
1 ATTACGTGTAAGACA-TGTTTGGGACA
64325346 ATGTCATCGA
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
41 4 0.07
42 2 0.03
43 55 0.90
ACGTcount: A:0.30, C:0.13, G:0.23, T:0.34
Consensus pattern (41 bp):
ATTACGTGTAAGACATGTTTGGGACATTGGCATAGTTAACA
Found at i:64336299 original size:26 final size:26
Alignment explanation
Indices: 64336267--64336352 Score: 118
Period size: 26 Copynumber: 3.3 Consensus size: 26
64336257 GAAGCTCCTG
64336267 AGAGCCATTAATCAGGAAGCTCACAA
1 AGAGCCATTAATCAGGAAGCTCACAA
*
64336293 AGAGCCATTAATCAGGAAGCTCATAA
1 AGAGCCATTAATCAGGAAGCTCACAA
* * * * *
64336319 AGAGTCTTTAATCGGGAAGCTTACGA
1 AGAGCCATTAATCAGGAAGCTCACAA
64336345 AGAGCCAT
1 AGAGCCAT
64336353 ATATCAGAAT
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 51 1.00
ACGTcount: A:0.38, C:0.20, G:0.22, T:0.20
Consensus pattern (26 bp):
AGAGCCATTAATCAGGAAGCTCACAA
Found at i:64336337 original size:52 final size:52
Alignment explanation
Indices: 64336274--64336372 Score: 139
Period size: 52 Copynumber: 1.9 Consensus size: 52
64336264 CTGAGAGCCA
64336274 TTAATCAGGAAGCTCACAAAGAGCCAT-TAATCAGGAA-GCTCATAAAGAGTCT
1 TTAATCAGGAAGCTCACAAAGAGCCATAT-ATCA-GAATGCTCATAAAGAGTCT
* * *
64336326 TTAATCGGGAAGCTTACGAAGAGCCATATATCAGAATGCTCATAAAG
1 TTAATCAGGAAGCTCACAAAGAGCCATATATCAGAATGCTCATAAAG
64336373 GTGCGGTGTG
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
51 3 0.07
52 38 0.90
53 1 0.02
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.22
Consensus pattern (52 bp):
TTAATCAGGAAGCTCACAAAGAGCCATATATCAGAATGCTCATAAAGAGTCT
Found at i:64339965 original size:2 final size:2
Alignment explanation
Indices: 64339958--64340010 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
64339948 CTTTAACATT
64339958 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
64340000 CA CA CA CA CA C
1 CA CA CA CA CA C
64340011 TCTCACAATC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.49, C:0.51, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:64340026 original size:4 final size:4
Alignment explanation
Indices: 64340019--64340589 Score: 245
Period size: 4 Copynumber: 147.8 Consensus size: 4
64340009 ACTCTCACAA
* * * * * *
64340019 TCTC TCTC TCTG TCTC TCGC TCCC TCTC TCCC TCTC TCTC TCCC TCCC
1 TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC
* * * * * *
64340067 TC-C TC-C TCCC TCTC TCTC TCTC TCCC TCCC TCTC CCTC CCTC ACTC
1 TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC
* * *
64340113 CCTC -CT- TC-C T-TC TCCC TCTC T-TC -CTC TCTC CCTC -CT- TCTC
1 TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC
* * * * * * * * *
64340153 CCTC CCTC TCTC CCTC CCTC TCCC TCCC TCCC TCTC CCTC TCTC GCTC
1 TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC
* * * * * * *
64340201 TCTC CCTC TC-C TCTC CCTC TCCC TCTC CCTC TCCC TCTC CCTC TCCC
1 TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC
* * * *
64340248 TCTC TCTC TCTC TCTC TCTC TCTC TCAC TCTC TCTC CCTC CCTC CCTC
1 TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC
* * * * * * * * * *
64340296 TCTC TCCC TCTC -CTA T-TC TCCC TCAC ACAC ACAC ACAC AT-TC TCTC
1 TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC -TCTC TCTC
* * * * * * * *
64340342 CCTC TCTC TCTC ACAC ACTC TCTC TCCC TCCC TCCC TCCC TCTC TCTC
1 TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC
* * * * * * * *
64340390 ACTC CCCC TCCC TCCC TCCC TCTC ACTC TCCC TCTC TCT- TC-C TCTC
1 TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC
* * * *
64340436 TCAC TCTAC -CTC TCTC ACTC TCCC T-TAC TTTC -CTC TCTC TCTC TCTC
1 TCTC TCT-C TCTC TCTC TCTC TCTC TCT-C TCTC TCTC TCTC TCTC TCTC
* * *
64340483 TCTC TCTC TC-C AT-TC T-TC CCTC -CTC TCTC TCTC CCTC TCTC CCTC
1 TCTC TCTC TCTC -TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC
* * * * * * *
64340528 CCTC CCTC TCTC TC-C TCTC TCCC TCCC TCCC TCTT TCCC TCTC TCTC
1 TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC
* *
64340575 TGTC TCTG TCTC TCT
1 TCTC TCTC TCTC TCT
64340590 ATAGCACCCC
Statistics
Matches: 448, Mismatches: 93, Indels: 52
0.76 0.16 0.09
Matches are distributed among these distances:
3 45 0.10
4 401 0.90
5 2 0.00
ACGTcount: A:0.04, C:0.58, G:0.01, T:0.37
Consensus pattern (4 bp):
TCTC
Found at i:64340028 original size:6 final size:6
Alignment explanation
Indices: 64340019--64340589 Score: 245
Period size: 6 Copynumber: 98.5 Consensus size: 6
64340009 ACTCTCACAA
* * * * * *
64340019 TCTCTC TCTCTG TCTCTC GCTCCC TCTCTC CCTCTC TCTCTC CCTCCC
1 TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC
* * * * * *
64340067 TC-CTC -CTCCC TCTCTC TCTCTC TCCCTC CCTCTC CCTCCC TCACTC
1 TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC
* * *
64340113 CCTC-C T-TC-C T-TCTC CCTCTC T-TC-C TCTCTC CCTC-C T-TCTC
1 TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC
* * * * * * * * *
64340153 CCTCCC TCTCTC CCTCCC TCTCCC TCCCTC CCTCTC CCTCTC TCGCTC
1 TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC
* * * * * * *
64340201 TCTCCC TCTC-C TCTCCC TCTCCC TCTCCC TCTCCC TCTCCC TCTCCC
1 TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC
* * * *
64340248 TCTCTC TCTCTC TCTCTC TCTCTC TCACTC TCTCTC CCTCCC TCCCTC
1 TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC
* * * * * * * * * *
64340296 TCTCTC CCTCTC -CTAT- TCTCCC TCACAC ACACAC ACACAT- TCTCTC
1 TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTC-TC TCTCTC
* * * * * * * *
64340342 CCTCTC TCTCTC ACACAC TCTCTC TCCCTC CCTCCC TCCCTC TCTCTC
1 TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC
* * * * * * * *
64340390 ACTCCC CCTCCC TCCCTC CCTCTC ACTCTC CCTCTC TCT-TC -CTCTC
1 TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC
* * * *
64340436 TCACTC TAC-CTC TCTCAC TCTCCC T-TACTT TC-CTC TCTCTC TCTCTC
1 TCTCTC T-CTCTC TCTCTC TCTCTC TCT-CTC TCTCTC TCTCTC TCTCTC
* * *
64340483 TCTCTC TCTC-C AT-TCT- TCCCTC -CTCTC TCTCTC CCTCTC TCCCTC
1 TCTCTC TCTCTC -TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC
* * * * * * *
64340528 CCTCCC TCTCTC TC-CTC TCTCCC TCCCTC CCTCTT TCCCTC TCTCTC
1 TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC
* *
64340575 TGTCTC TGTCTC TCT
1 TCTCTC TCTCTC TCT
64340590 ATAGCACCCC
Statistics
Matches: 422, Mismatches: 117, Indels: 52
0.71 0.20 0.09
Matches are distributed among these distances:
4 14 0.03
5 47 0.11
6 360 0.85
7 1 0.00
ACGTcount: A:0.04, C:0.58, G:0.01, T:0.37
Consensus pattern (6 bp):
TCTCTC
Found at i:64340049 original size:8 final size:8
Alignment explanation
Indices: 64340019--64340572 Score: 297
Period size: 8 Copynumber: 69.8 Consensus size: 8
64340009 ACTCTCACAA
*
64340019 TCTCTCTC
1 TCTCTCCC
* *
64340027 TCTGTCTC
1 TCTCTCCC
*
64340035 TCGCTCCC
1 TCTCTCCC
64340043 TCTCTCCC
1 TCTCTCCC
*
64340051 TCTCTCTC
1 TCTCTCCC
*
64340059 TCCCTCCC
1 TCTCTCCC
64340067 TCCTCCTCCC
1 T-CT-CTCCC
*
64340077 TCTCTCTC
1 TCTCTCCC
64340085 TCTCTCCC
1 TCTCTCCC
*
64340093 TC-C-CTC
1 TCTCTCCC
*
64340099 TCCCTCCC
1 TCTCTCCC
*
64340107 TCACTCCC
1 TCTCTCCC
*
64340115 TC-CTTCC
1 TCTCTCCC
64340122 T-TCTCCC
1 TCTCTCCC
*
64340129 TCTCTTCC
1 TCTCTCCC
64340137 TCTCTCCC
1 TCTCTCCC
*
64340145 TC-CT-TC
1 TCTCTCCC
*
64340151 TCCCTCCC
1 TCTCTCCC
64340159 TCTCTCCC
1 TCTCTCCC
64340167 TCCCTCTCCC
1 T--CTCTCCC
*
64340177 TCCCT-CC
1 TCTCTCCC
64340184 -CTCTCCC
1 TCTCTCCC
*
64340191 TCTCTCGC
1 TCTCTCCC
64340199 TCTCTCCC
1 TCTCTCCC
64340207 TCTCCTCTCC
1 TCT-CTC-CC
64340217 -CTCTCCC
1 TCTCTCCC
64340224 TCTC-CCTC
1 TCTCTCC-C
*
64340232 TCCCTCTCC
1 TCTCTC-CC
64340241 -CTCTCCC
1 TCTCTCCC
64340248 TCTCT--C
1 TCTCTCCC
*
64340254 TCTCTCTC
1 TCTCTCCC
*
64340262 TCTCTCTC
1 TCTCTCCC
* *
64340270 TCTCACTC
1 TCTCTCCC
64340278 TCTCTCCC
1 TCTCTCCC
*
64340286 TCCCTCCC
1 TCTCTCCC
64340294 TCTCTCTCC
1 TCTCTC-CC
64340303 -CTCT-CC
1 TCTCTCCC
*
64340309 TATTCTCCC
1 T-CTCTCCC
* *
64340318 TCACACACAC
1 TCTCTC-C-C
* * * **
64340328 ACACACAT
1 TCTCTCCC
64340336 TCTCTCCC
1 TCTCTCCC
64340344 TCTCT--C
1 TCTCTCCC
* *
64340350 TCTCACAC
1 TCTCTCCC
* *
64340358 ACTCTCTC
1 TCTCTCCC
*
64340366 TCCCTCCC
1 TCTCTCCC
*
64340374 TCCCTCCC
1 TCTCTCCC
*
64340382 TCTCTCTC
1 TCTCTCCC
* *
64340390 ACTCCCCC
1 TCTCTCCC
*
64340398 TCCCTCCC
1 TCTCTCCC
* *
64340406 TCCCTCTC
1 TCTCTCCC
*
64340414 ACTCTCCC
1 TCTCTCCC
64340422 TCTCTCTTCC
1 TCTCTC--CC
64340432 TCTCT--C
1 TCTCTCCC
* *
64340438 ACTCTACC
1 TCTCTCCC
*
64340446 TCTCTCAC
1 TCTCTCCC
*
64340454 TCTC-CCT
1 TCTCTCCC
*
64340461 TACTTTCCTC
1 T-CTCTCC-C
*
64340471 TCTCTCTC
1 TCTCTCCC
*
64340479 TCTCTCTC
1 TCTCTCCC
*
64340487 TCTCTCCA
1 TCTCTCCC
64340495 T-TCTTCCC
1 TCTC-TCCC
*
64340503 TC-CTCTC
1 TCTCTCCC
64340510 TCTCTCCC
1 TCTCTCCC
64340518 TCTCTCCC
1 TCTCTCCC
*
64340526 TCCCTCCC
1 TCTCTCCC
64340534 TCTCTCTCC
1 TCTCTC-CC
64340543 TCTCTCCC
1 TCTCTCCC
*
64340551 TCCCTCCC
1 TCTCTCCC
*
64340559 TCTTTCCC
1 TCTCTCCC
64340567 TCTCTC
1 TCTCTC
64340573 TCTGTCTCTG
Statistics
Matches: 421, Mismatches: 85, Indels: 80
0.72 0.15 0.14
Matches are distributed among these distances:
6 28 0.07
7 35 0.08
8 297 0.71
9 30 0.07
10 31 0.07
ACGTcount: A:0.04, C:0.59, G:0.01, T:0.37
Consensus pattern (8 bp):
TCTCTCCC
Found at i:64343276 original size:26 final size:26
Alignment explanation
Indices: 64343241--64343348 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
64343231 TGAAATGCCC
*
64343241 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
*
64343267 ATCATAGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
64343293 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
64343319 ATCGTGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
64343345 ATCA
1 ATCA
64343349 ATTTGTATCA
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 73 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:64343701 original size:4 final size:4
Alignment explanation
Indices: 64343694--64343842 Score: 95
Period size: 4 Copynumber: 37.8 Consensus size: 4
64343684 CACACACACA
* * * * * * *
64343694 CTCT CTCT CTCT CTCT CCCT CCCT CCCT CCCT CCCT CTTT CTCC CTCT
1 CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT
* * * * * *
64343742 CCCT CTCT CTTT CTCT CCCT CTCC CTCT CTCT CCCT CTCT CCCT CTCT
1 CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT
* * * * * * *
64343790 CTCT CCCT -TC- CTCC CTCC CTCC CTCT CTTT CTCT CACT CTCA CTCT
1 CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT
*
64343836 CCCT CTC
1 CTCT CTC
64343843 CCTCCTTCCC
Statistics
Matches: 114, Mismatches: 29, Indels: 4
0.78 0.20 0.03
Matches are distributed among these distances:
3 3 0.03
4 111 0.97
ACGTcount: A:0.01, C:0.59, G:0.00, T:0.40
Consensus pattern (4 bp):
CTCT
Found at i:64343855 original size:12 final size:12
Alignment explanation
Indices: 64343709--64343882 Score: 64
Period size: 12 Copynumber: 14.8 Consensus size: 12
64343699 TCTCTCTCTC
*
64343709 TCCCTCCCTCCC
1 TCCCTCCCTCCT
64343721 TCCCTCCCT-CT
1 TCCCTCCCTCCT
*
64343732 T-TCTCCCT-C-
1 TCCCTCCCTCCT
* *
64343741 TCCCTCTCTCTT
1 TCCCTCCCTCCT
*
64343753 TCTCTCCCT-C-
1 TCCCTCCCTCCT
*
64343763 TCCCTCTCT-C-
1 TCCCTCCCTCCT
* *
64343773 TCCCTCTCTCCC
1 TCCCTCCCTCCT
* *
64343785 TCTCTCTCTCCCT
1 TCCCTCCCT-CCT
*
64343798 T-CCTCCCTCCC
1 TCCCTCCCTCCT
*
64343809 TCCCT--CTCTT
1 TCCCTCCCTCCT
*
64343819 TCTCTCACTCTCACT
1 TCCCTC-C-CTC-CT
64343834 CTCCCTCTCCCTCCT
1 -T-CC-CTCCCTCCT
*
64343849 TCCCTCCCTCCC
1 TCCCTCCCTCCT
*
64343861 TCCCTCCCTCCC
1 TCCCTCCCTCCT
*
64343873 TCCCCCCCTC
1 TCCCTCCCTC
64343883 TCTATCTCTC
Statistics
Matches: 125, Mismatches: 22, Indels: 30
0.71 0.12 0.17
Matches are distributed among these distances:
9 1 0.01
10 36 0.29
11 6 0.05
12 61 0.49
13 5 0.04
14 4 0.03
15 3 0.02
16 4 0.03
17 2 0.02
18 3 0.02
ACGTcount: A:0.01, C:0.63, G:0.00, T:0.36
Consensus pattern (12 bp):
TCCCTCCCTCCT
Found at i:64343856 original size:4 final size:4
Alignment explanation
Indices: 64343840--64343882 Score: 68
Period size: 4 Copynumber: 10.8 Consensus size: 4
64343830 CACTCTCCCT
* *
64343840 CTCC CTCC TTCC CTCC CTCC CTCC CTCC CTCC CTCC CCCC CTC
1 CTCC CTCC CTCC CTCC CTCC CTCC CTCC CTCC CTCC CTCC CTC
64343883 TCTATCTCTC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.00, C:0.74, G:0.00, T:0.26
Consensus pattern (4 bp):
CTCC
Found at i:64347252 original size:3 final size:3
Alignment explanation
Indices: 64347244--64347281 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
64347234 GATAAACTAA
64347244 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
64347282 AAAGTTGGTC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:64349911 original size:85 final size:87
Alignment explanation
Indices: 64349822--64349979 Score: 207
Period size: 87 Copynumber: 1.8 Consensus size: 87
64349812 TGAATTATAA
* * *
64349822 ATTTTTTAG-ATGTCAAAATATAAACTTTATCAT-T-TATTAATTTATGATTTTATTAT-TTTTG
1 ATTTTTTAGAAAGTCAAAATAT-AACTTTATCATATATATTAATTTATAATTTAATTATCTTTT-
*
64349883 AAGGGACTAAATAATTTTATTTTT
64 AAGAGACTAAATAATTTTATTTTT
* * *
64349907 ATTTTTTAGAAAGTTAAAGTATAATTTTATCATATATATTAATTTATAATTTAATTATCTTTTAA
1 ATTTTTTAGAAAGTCAAAATATAACTTTATCATATATATTAATTTATAATTTAATTATCTTTTAA
64349972 GAGACTAA
66 GAGACTAA
64349980 GGCTTCCTTT
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
85 19 0.31
86 10 0.16
87 29 0.47
88 4 0.06
ACGTcount: A:0.37, C:0.04, G:0.08, T:0.51
Consensus pattern (87 bp):
ATTTTTTAGAAAGTCAAAATATAACTTTATCATATATATTAATTTATAATTTAATTATCTTTTAA
GAGACTAAATAATTTTATTTTT
Found at i:64351704 original size:21 final size:21
Alignment explanation
Indices: 64351664--64351704 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
64351654 AATACCACAT
*
64351664 AAAAATATTTATTATTTTTTA
1 AAAAATATTTATTATGTTTTA
64351685 AAAAATATTT-TTAGTGTTTT
1 AAAAATATTTATTA-TGTTTT
64351705 CTCTTATTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (21 bp):
AAAAATATTTATTATGTTTTA
Found at i:64355253 original size:21 final size:23
Alignment explanation
Indices: 64355229--64355272 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 23
64355219 GAATTAAATT
64355229 TTATTTTT-ATTTAAT-ATATAA
1 TTATTTTTAATTTAATGATATAA
*
64355250 TTATTTTTAATTTTATGATATAA
1 TTATTTTTAATTTAATGATATAA
64355273 AAATAAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 8 0.40
22 6 0.30
23 6 0.30
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (23 bp):
TTATTTTTAATTTAATGATATAA
Found at i:64355264 original size:23 final size:21
Alignment explanation
Indices: 64355229--64355272 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 21
64355219 GAATTAAATT
64355229 TTATTTTTATTTAAT-ATATAA
1 TTATTTTTATTT-ATGATATAA
64355250 TTATTTTTAATTTTATGATATAA
1 TTATTTTT-A-TTTATGATATAA
64355273 AAATAAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 8 0.40
22 3 0.15
23 9 0.45
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (21 bp):
TTATTTTTATTTATGATATAA
Found at i:64357319 original size:18 final size:18
Alignment explanation
Indices: 64357259--64357350 Score: 73
Period size: 18 Copynumber: 5.1 Consensus size: 18
64357249 TTTAATATAC
64357259 AATATATAATAACAA-AAAA
1 AATATAT-ATAA-AATAAAA
* *
64357278 AAT-TATAAAAGAATAATA
1 AATATATATAA-AATAAAA
*
64357296 ATTATATATAAAATAAAA
1 AATATATATAAAATAAAA
* **
64357314 AATATAT-TGATTTAAAA
1 AATATATATAAAATAAAA
64357331 AATAATATATAAAATAAAA
1 AAT-ATATATAAAATAAAA
64357350 A
1 A
64357351 GTATGTAAAA
Statistics
Matches: 56, Mismatches: 13, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
17 15 0.27
18 24 0.43
19 17 0.30
ACGTcount: A:0.67, C:0.01, G:0.02, T:0.29
Consensus pattern (18 bp):
AATATATATAAAATAAAA
Found at i:64357350 original size:20 final size:20
Alignment explanation
Indices: 64357260--64357350 Score: 57
Period size: 20 Copynumber: 4.7 Consensus size: 20
64357250 TTAATATACA
* *
64357260 ATATATAATAACAAAAAAAAT
1 ATATAAAATAA-AAAAATAAT
* * *
64357281 -TATAAAAGAATAATAATTAT
1 ATATAAAATAA-AAAAATAAT
64357301 ATATAAAAT-AAAAAAT-AT
1 ATATAAAATAAAAAAATAAT
* * *
64357319 AT-T-GATTTAAAAAATAAT
1 ATATAAAATAAAAAAATAAT
64357337 ATATAAAATAAAAA
1 ATATAAAATAAAAA
64357351 GTATGTAAAA
Statistics
Matches: 52, Mismatches: 13, Indels: 11
0.68 0.17 0.14
Matches are distributed among these distances:
16 2 0.04
17 8 0.15
18 8 0.15
19 6 0.12
20 21 0.40
21 7 0.13
ACGTcount: A:0.67, C:0.01, G:0.02, T:0.30
Consensus pattern (20 bp):
ATATAAAATAAAAAAATAAT
Found at i:64357457 original size:19 final size:20
Alignment explanation
Indices: 64357412--64357458 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
64357402 TATCAGTTTA
*
64357412 AAATGAAAT-AACACATAAT
1 AAATGAAATAAACAAATAAT
*
64357431 AAAT-AAATAAATAAATAAT
1 AAATGAAATAAACAAATAAT
64357450 -AATGAAATA
1 AAATGAAATA
64357459 TGTATATAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
18 7 0.29
19 17 0.71
ACGTcount: A:0.68, C:0.04, G:0.04, T:0.23
Consensus pattern (20 bp):
AAATGAAATAAACAAATAAT
Found at i:64357559 original size:7 final size:7
Alignment explanation
Indices: 64357525--64357610 Score: 54
Period size: 7 Copynumber: 12.1 Consensus size: 7
64357515 ATTATAAATA
64357525 ATATAAT
1 ATATAAT
64357532 GA-ATAAT
1 -ATATAAT
* *
64357539 ATAAAAC
1 ATATAAT
64357546 ATA-AAT
1 ATATAAT
64357552 ATATAAT
1 ATATAAT
*
64357559 AGATAAT
1 ATATAAT
*
64357566 ATACGATAT
1 ATA-TA-AT
64357575 ATATAAT
1 ATATAAT
*
64357582 A-AAAAT
1 ATATAAT
64357588 AATATAAT
1 -ATATAAT
64357596 A-AGTAAT
1 ATA-TAAT
64357603 ATATAAT
1 ATATAAT
64357610 A
1 A
64357611 AAATAAAAAT
Statistics
Matches: 61, Mismatches: 9, Indels: 17
0.70 0.10 0.20
Matches are distributed among these distances:
6 11 0.18
7 37 0.61
8 8 0.13
9 5 0.08
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (7 bp):
ATATAAT
Found at i:64357594 original size:14 final size:14
Alignment explanation
Indices: 64357575--64357665 Score: 77
Period size: 14 Copynumber: 6.7 Consensus size: 14
64357565 TATACGATAT
64357575 ATATAATAAAAATA
1 ATATAATAAAAATA
*
64357589 ATATAATAAGTAAT-
1 ATATAATAA-AAATA
64357603 ATATAAT-AAAATA
1 ATATAATAAAAATA
64357616 A-A-AAT-AAAA-A
1 ATATAATAAAAATA
** *
64357626 ATATAATAAATGTT
1 ATATAATAAAAATA
64357640 ATATAATAAAATATA
1 ATATAATAAAA-ATA
64357655 ATATAAATAAA
1 ATAT-AATAAA
64357666 TAGGAAAATA
Statistics
Matches: 61, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
10 2 0.03
11 8 0.13
12 7 0.11
13 4 0.07
14 26 0.43
15 8 0.13
16 6 0.10
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (14 bp):
ATATAATAAAAATA
Found at i:64357603 original size:37 final size:35
Alignment explanation
Indices: 64357548--64357660 Score: 98
Period size: 33 Copynumber: 3.3 Consensus size: 35
64357538 TATAAAACAT
64357548 AAAT-ATATAATAGATAATATACGATATATATAATAA
1 AAATAATATAATAG-TAATATA-GATATATATAATAA
*
64357584 AAATAATATAATAAGTAATAT--ATA-ATAAAATAA
1 AAATAATATAAT-AGTAATATAGATATATATAATAA
* *
64357617 AAATAA-AAAATA-TAATA-A-ATGTTATATAATAA
1 AAATAATATAATAGTAATATAGAT-ATATATAATAA
64357649 AATATAATATAA
1 AA-ATAATATAA
64357661 ATAAATAGGA
Statistics
Matches: 65, Mismatches: 5, Indels: 16
0.76 0.06 0.19
Matches are distributed among these distances:
30 7 0.11
31 1 0.02
32 14 0.22
33 18 0.28
34 6 0.09
36 4 0.06
37 13 0.20
38 2 0.03
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.32
Consensus pattern (35 bp):
AAATAATATAATAGTAATATAGATATATATAATAA
Found at i:64357613 original size:28 final size:24
Alignment explanation
Indices: 64357573--64357635 Score: 74
Period size: 23 Copynumber: 2.5 Consensus size: 24
64357563 AATATACGAT
64357573 ATATATAATAAAAATAATATAATAAGTA
1 ATATATAATAAAAATAA-A-AATAA--A
64357601 ATATATAAT-AAAATAAAAATAAA
1 ATATATAATAAAAATAAAAATAAA
*
64357624 AAATATAATAAA
1 ATATATAATAAA
64357636 TGTTATATAA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
23 9 0.27
24 2 0.06
25 5 0.15
26 1 0.03
27 7 0.21
28 9 0.27
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.29
Consensus pattern (24 bp):
ATATATAATAAAAATAAAAATAAA
Found at i:64357681 original size:23 final size:22
Alignment explanation
Indices: 64357647--64357689 Score: 52
Period size: 23 Copynumber: 1.9 Consensus size: 22
64357637 GTTATATAAT
64357647 AAAATATAATATAAATAAATAGG
1 AAAATATAATAT-AATAAATAGG
*
64357670 AAAATA-ATATATGATAAATA
1 AAAATATA-ATATAATAAATA
64357690 AAATTTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.28
Consensus pattern (22 bp):
AAAATATAATATAATAAATAGG
Found at i:64357690 original size:14 final size:13
Alignment explanation
Indices: 64357517--64357690 Score: 72
Period size: 12 Copynumber: 13.7 Consensus size: 13
64357507 ATTTTAAAAT
64357517 TATAAATAATATA
1 TATAAATAATATA
*
64357530 -ATGAATAATATA
1 TATAAATAATATA
64357542 -A-AACATAA-ATA
1 TATAA-ATAATATA
64357553 TAT-AATAGATA-A
1 TATAAATA-ATATA
*
64357565 TATACGATATATATAA
1 TATA-AATA-ATAT-A
*
64357581 TAAAAATAATATA
1 TATAAATAATATA
*
64357594 -ATAAGTAATATA
1 TATAAATAATATA
64357606 TAATAAAATAA-A-A
1 T-AT-AAATAATATA
*
64357619 -ATAAAAAATATA
1 TATAAATAATATA
*
64357631 -ATAAAT-GT-TA
1 TATAAATAATATA
*
64357641 TATAATAAAATATAA
1 TATAA-ATAATAT-A
64357656 TATAAATAA-ATA
1 TATAAATAATATA
*
64357668 GGA-AAATAATATA
1 -TATAAATAATATA
64357681 TGATAAATAA
1 T-ATAAATAA
64357691 AATTTTTTAT
Statistics
Matches: 121, Mismatches: 17, Indels: 45
0.66 0.09 0.25
Matches are distributed among these distances:
10 7 0.06
11 15 0.12
12 47 0.39
13 11 0.09
14 23 0.19
15 14 0.12
16 4 0.03
ACGTcount: A:0.63, C:0.01, G:0.05, T:0.31
Consensus pattern (13 bp):
TATAAATAATATA
Found at i:64357721 original size:26 final size:26
Alignment explanation
Indices: 64357673--64357736 Score: 67
Period size: 26 Copynumber: 2.4 Consensus size: 26
64357663 AAATAGGAAA
*
64357673 ATAATATATGATAAATAAAATTTTTTAT
1 ATAA-ATAT-ATAAATAAAATTTTTAAT
**
64357701 ATAAATATATAAATAGTATTTTTAAT
1 ATAAATATATAAATAAAATTTTTAAT
64357727 A-ATAATATAT
1 ATA-AATATAT
64357737 GTATAGTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
25 1 0.03
26 23 0.72
27 4 0.12
28 4 0.12
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (26 bp):
ATAAATATATAAATAAAATTTTTAAT
Found at i:64357734 original size:24 final size:24
Alignment explanation
Indices: 64357694--64357760 Score: 61
Period size: 24 Copynumber: 2.8 Consensus size: 24
64357684 TAAATAAAAT
64357694 TTTTTATATAA-ATATATAAATAGTA-
1 TTTTTA-ATAATA-ATATAAATA-TAG
**
64357719 TTTTTAATAATAATATATGTATAG
1 TTTTTAATAATAATATAAATATAG
64357743 TTTTTAA-AATAA-ATAAAT
1 TTTTTAATAATAATATAAAT
64357761 TATATATAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
22 4 0.11
23 7 0.19
24 18 0.50
25 7 0.19
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (24 bp):
TTTTTAATAATAATATAAATATAG
Found at i:64357742 original size:26 final size:23
Alignment explanation
Indices: 64357704--64357754 Score: 57
Period size: 26 Copynumber: 2.1 Consensus size: 23
64357694 TTTTTATATA
64357704 AATATATAAATAGTATTTTTAATAAT
1 AATATATAAATAG--TTTTTAA-AAT
**
64357730 AATATATGTATAGTTTTTAAAAT
1 AATATATAAATAGTTTTTAAAAT
64357753 AA
1 AA
64357755 ATAAATTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 5 0.22
24 7 0.30
26 11 0.48
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.45
Consensus pattern (23 bp):
AATATATAAATAGTTTTTAAAAT
Found at i:64359152 original size:21 final size:21
Alignment explanation
Indices: 64359107--64359152 Score: 51
Period size: 21 Copynumber: 2.1 Consensus size: 21
64359097 TTTTTATTGA
64359107 AAAAAAGTAAAAAAAAATTCCT
1 AAAAAAGTAAAAAAAAATT-CT
64359129 AAAAAA-TAAAATAATAAATT-T
1 AAAAAAGTAAAA-AA-AAATTCT
64359150 AAA
1 AAA
64359153 GGGTTGATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
21 9 0.41
22 8 0.36
23 5 0.23
ACGTcount: A:0.72, C:0.04, G:0.02, T:0.22
Consensus pattern (21 bp):
AAAAAAGTAAAAAAAAATTCT
Found at i:64363363 original size:35 final size:35
Alignment explanation
Indices: 64363324--64363392 Score: 138
Period size: 35 Copynumber: 2.0 Consensus size: 35
64363314 ACTTGCCTCT
64363324 TCCCACTCTCCCATGCTGTCTGCCACCAGCACCAC
1 TCCCACTCTCCCATGCTGTCTGCCACCAGCACCAC
64363359 TCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
1 TCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
64363393 TCACACACCC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.17, C:0.51, G:0.12, T:0.20
Consensus pattern (35 bp):
TCCCACTCTCCCATGCTGTCTGCCACCAGCACCAC
Found at i:64364161 original size:3 final size:3
Alignment explanation
Indices: 64364140--64364200 Score: 61
Period size: 3 Copynumber: 19.3 Consensus size: 3
64364130 GTTATTTTCA
* *
64364140 TAT TAT TAA TAT TAA TAT TAT TATT TATT TATT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TA-T TA-T TA-T TAT TAT TAT TAT TAT
64364188 TA- TAGT TAT TAT T
1 TAT TA-T TAT TAT T
64364201 GTACATTAGT
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
2 2 0.04
3 36 0.71
4 13 0.25
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:64364179 original size:21 final size:21
Alignment explanation
Indices: 64364140--64364200 Score: 72
Period size: 21 Copynumber: 2.9 Consensus size: 21
64364130 GTTATTTTCA
*
64364140 TATTATTAATA-TTAATATTAT
1 TATTATT-ATAGTTATTATTAT
*
64364161 TATTTATT-TATTTATTATTAT
1 TA-TTATTATAGTTATTATTAT
64364182 TATTATTATAGTTATTATT
1 TATTATTATAGTTATTATT
64364201 GTACATTAGT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
20 7 0.20
21 23 0.66
22 5 0.14
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (21 bp):
TATTATTATAGTTATTATTAT
Found at i:64364303 original size:3 final size:3
Alignment explanation
Indices: 64364295--64364330 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
64364285 CTTTTGTGTT
*
64364295 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TCA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
64364331 ATGTTACTGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:64364492 original size:47 final size:47
Alignment explanation
Indices: 64364439--64364532 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
64364429 GTATTACATG
64364439 GTTATTATTATTATATTTATTAGTGTATGCCGCTTACCCCCGTATAT
1 GTTATTATTATTATATTTATTAGTGTATGCCGCTTACCCCCGTATAT
64364486 GTTATTATTATTATATTTATTAGTGTATGCCGCTTACCCCCGTATAT
1 GTTATTATTATTATATTTATTAGTGTATGCCGCTTACCCCCGTATAT
64364533 ATTTTTAGTA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.23, C:0.17, G:0.13, T:0.47
Consensus pattern (47 bp):
GTTATTATTATTATATTTATTAGTGTATGCCGCTTACCCCCGTATAT
Found at i:64364594 original size:22 final size:23
Alignment explanation
Indices: 64364566--64364620 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
64364556 AATTTTTTTA
64364566 ATATATATTATATGAATA-ATTT
1 ATATATATTATATGAATATATTT
* *
64364588 ATATATAATATTATGTATATATTT
1 ATATATATTA-TATGAATATATTT
64364612 -TA-ATATTAT
1 ATATATATTAT
64364621 CAGTTATATA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
21 1 0.04
22 14 0.50
23 9 0.32
24 4 0.14
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.53
Consensus pattern (23 bp):
ATATATATTATATGAATATATTT
Found at i:64368054 original size:33 final size:33
Alignment explanation
Indices: 64368017--64368081 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
64368007 AAATTTAATA
*
64368017 ATACGATAATTAATATTATACTTATCACAAATC
1 ATACGATAACTAATATTATACTTATCACAAATC
* *
64368050 ATACGATAACTAATATTATATTTATCATAAAT
1 ATACGATAACTAATATTATACTTATCACAAAT
64368082 TATTACATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.46, C:0.12, G:0.03, T:0.38
Consensus pattern (33 bp):
ATACGATAACTAATATTATACTTATCACAAATC
Found at i:64369319 original size:22 final size:22
Alignment explanation
Indices: 64369294--64369337 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
64369284 TGAATTTGAG
**
64369294 TCTAAAATCGATTTAACCCAAA
1 TCTAAAATAAATTTAACCCAAA
*
64369316 TCTAAAATAAATTTGACCCAAA
1 TCTAAAATAAATTTAACCCAAA
64369338 ATTTAAAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.48, C:0.20, G:0.05, T:0.27
Consensus pattern (22 bp):
TCTAAAATAAATTTAACCCAAA
Found at i:64370953 original size:19 final size:19
Alignment explanation
Indices: 64370929--64370968 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
64370919 CATACAAAGA
64370929 TATACAAAAGGATGTAAAC
1 TATACAAAAGGATGTAAAC
64370948 TATACAAAAGGATGTAAAC
1 TATACAAAAGGATGTAAAC
64370967 TA
1 TA
64370969 CTTTAGTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.53, C:0.10, G:0.15, T:0.23
Consensus pattern (19 bp):
TATACAAAAGGATGTAAAC
Found at i:64371805 original size:92 final size:92
Alignment explanation
Indices: 64371648--64371831 Score: 359
Period size: 92 Copynumber: 2.0 Consensus size: 92
64371638 CTTGTCAGAA
*
64371648 ACTGCTTTCAAATTATCCTTGATTATCTTCACTTTTTCTTCAATCTCTCAGATCAAGTTTGGGCC
1 ACTGCTTTCAAATTATCCTTGATTATCTTCACTTTTTCTTCAATCTCTCAAATCAAGTTTGGGCC
64371713 AACTATCTTGATTTCACTCAACTTTGT
66 AACTATCTTGATTTCACTCAACTTTGT
64371740 ACTGCTTTCAAATTATCCTTGATTATCTTCACTTTTTCTTCAATCTCTCAAATCAAGTTTGGGCC
1 ACTGCTTTCAAATTATCCTTGATTATCTTCACTTTTTCTTCAATCTCTCAAATCAAGTTTGGGCC
64371805 AACTATCTTGATTTCACTCAACTTTGT
66 AACTATCTTGATTTCACTCAACTTTGT
64371832 CCAACACAAG
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
92 91 1.00
ACGTcount: A:0.23, C:0.24, G:0.09, T:0.43
Consensus pattern (92 bp):
ACTGCTTTCAAATTATCCTTGATTATCTTCACTTTTTCTTCAATCTCTCAAATCAAGTTTGGGCC
AACTATCTTGATTTCACTCAACTTTGT
Found at i:64378099 original size:21 final size:21
Alignment explanation
Indices: 64378073--64378114 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
64378063 CACACTCACC
*
64378073 AACAAA-ATCAAAACAAGAAAA
1 AACAAACACCAAAA-AAGAAAA
64378094 AACAAACACCAAAAAAGAAAA
1 AACAAACACCAAAAAAGAAAA
64378115 GATTCGCATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.76, C:0.17, G:0.05, T:0.02
Consensus pattern (21 bp):
AACAAACACCAAAAAAGAAAA
Found at i:64380867 original size:14 final size:14
Alignment explanation
Indices: 64380841--64380881 Score: 50
Period size: 13 Copynumber: 3.0 Consensus size: 14
64380831 TTAAAAATTA
64380841 TTATAA-TATTTAAT
1 TTATAATTA-TTAAT
64380855 TTATAATTATTAA-
1 TTATAATTATTAAT
*
64380868 TTAAAATTATTAAT
1 TTATAATTATTAAT
64380882 ATAAAATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
13 12 0.50
14 10 0.42
15 2 0.08
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (14 bp):
TTATAATTATTAAT
Found at i:64380877 original size:13 final size:14
Alignment explanation
Indices: 64380859--64380888 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
64380849 TTTAATTTAT
64380859 AATTATTAAT-TAA
1 AATTATTAATATAA
64380872 AATTATTAATATAA
1 AATTATTAATATAA
64380886 AAT
1 AAT
64380889 AAAATTTGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.62
14 6 0.38
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
AATTATTAATATAA
Found at i:64383625 original size:17 final size:15
Alignment explanation
Indices: 64383577--64383625 Score: 55
Period size: 14 Copynumber: 3.2 Consensus size: 15
64383567 TTTTAACTTT
*
64383577 TTTTACTTTTTAA-A
1 TTTTAATTTTTAAGA
*
64383591 TTTTCATTTTTAAGA
1 TTTTAATTTTTAAGA
64383606 TTTTAATTTCTTATAGA
1 TTTTAATTT-TTA-AGA
64383623 TTT
1 TTT
64383626 AACCCTAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
14 11 0.38
15 9 0.31
16 3 0.10
17 6 0.21
ACGTcount: A:0.27, C:0.06, G:0.04, T:0.63
Consensus pattern (15 bp):
TTTTAATTTTTAAGA
Found at i:64385332 original size:17 final size:19
Alignment explanation
Indices: 64385296--64385334 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 19
64385286 ACTAAATGTG
64385296 AATTAATAATTTAAAATTA
1 AATTAATAATTTAAAATTA
*
64385315 AATT-ATAA-TTATAATTA
1 AATTAATAATTTAAAATTA
64385332 AAT
1 AAT
64385335 ATTAATAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 11 0.58
18 4 0.21
19 4 0.21
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
AATTAATAATTTAAAATTA
Found at i:64387652 original size:19 final size:19
Alignment explanation
Indices: 64387630--64387695 Score: 60
Period size: 19 Copynumber: 3.3 Consensus size: 19
64387620 ATGTGGTTTT
64387630 GATATAATTGATATATATA
1 GATATAATTGATATATATA
** * *
64387649 GATATAATTTTTTTAATATTTT
1 GATATAA--TTGAT-ATATATA
*
64387671 GATATAATTGGTATATATA
1 GATATAATTGATATATATA
64387690 GATATA
1 GATATA
64387696 TTTTTTAATA
Statistics
Matches: 36, Mismatches: 8, Indels: 6
0.72 0.16 0.12
Matches are distributed among these distances:
19 18 0.50
20 3 0.08
21 3 0.08
22 12 0.33
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.48
Consensus pattern (19 bp):
GATATAATTGATATATATA
Found at i:64387700 original size:39 final size:41
Alignment explanation
Indices: 64387626--64387709 Score: 145
Period size: 41 Copynumber: 2.1 Consensus size: 41
64387616 ATTTATGTGG
64387626 TTTTGATATAATTGATATATATAGATATAATTTTTTTAATA
1 TTTTGATATAATTGATATATATAGATATAATTTTTTTAATA
*
64387667 TTTTGATATAATTGGTATATATAGATAT-A-TTTTTTAATA
1 TTTTGATATAATTGATATATATAGATATAATTTTTTTAATA
64387706 TTTT
1 TTTT
64387710 AGTAGTTTTG
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
39 14 0.33
40 1 0.02
41 27 0.64
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (41 bp):
TTTTGATATAATTGATATATATAGATATAATTTTTTTAATA
Found at i:64389101 original size:56 final size:56
Alignment explanation
Indices: 64389015--64389150 Score: 227
Period size: 56 Copynumber: 2.4 Consensus size: 56
64389005 ACCATGGCAT
* *
64389015 CGATATATGTGTGCGAGTAAGACCGCGTTTTATACGTTGACATTGATATGTGACTC
1 CGATATATGTGTGCGAGTAAGACCACGTTTTATACGTTGACATCGATATGTGACTC
* *
64389071 CGATATATATGTGCGAGTAAGACCACGTTTTATACGTTGGCATCGATATGTGACTC
1 CGATATATGTGTGCGAGTAAGACCACGTTTTATACGTTGACATCGATATGTGACTC
*
64389127 CGATATATGTGTGAGAGTAAGACC
1 CGATATATGTGTGCGAGTAAGACC
64389151 CTGTCTGGGA
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
56 74 1.00
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (56 bp):
CGATATATGTGTGCGAGTAAGACCACGTTTTATACGTTGACATCGATATGTGACTC
Found at i:64389168 original size:56 final size:56
Alignment explanation
Indices: 64389015--64389179 Score: 172
Period size: 56 Copynumber: 2.9 Consensus size: 56
64389005 ACCATGGCAT
* * * * * * * *
64389015 CGATATATGTGTGCGAGTAAGACCGCGTTTTATACGTTGACATTGATATGTGACTC
1 CGATATATATGTGAGAGTAAGACCACGTCTGAGACGTTGGCATCGATATGTGACTC
* * * *
64389071 CGATATATATGTGCGAGTAAGACCACGTTTTATACGTTGGCATCGATATGTGACTC
1 CGATATATATGTGAGAGTAAGACCACGTCTGAGACGTTGGCATCGATATGTGACTC
* *
64389127 CGATATATGTGTGAGAGTAAGACC-CTGTCTGGGACAG-TGGCATCGATATGTGA
1 CGATATATATGTGAGAGTAAGACCAC-GTCTGAGAC-GTTGGCATCGATATGTGA
64389180 TTACATGTAA
Statistics
Matches: 97, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
55 1 0.01
56 95 0.98
57 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (56 bp):
CGATATATATGTGAGAGTAAGACCACGTCTGAGACGTTGGCATCGATATGTGACTC
Found at i:64390561 original size:18 final size:19
Alignment explanation
Indices: 64390527--64390569 Score: 70
Period size: 18 Copynumber: 2.3 Consensus size: 19
64390517 TGATGGGGTG
*
64390527 ATATGATATATATATATGT
1 ATATGATATAGATATATGT
64390546 ATATGATA-AGATATATGT
1 ATATGATATAGATATATGT
64390564 ATATGA
1 ATATGA
64390570 AGTGATAGAG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 15 0.65
19 8 0.35
ACGTcount: A:0.44, C:0.00, G:0.14, T:0.42
Consensus pattern (19 bp):
ATATGATATAGATATATGT
Found at i:64392758 original size:21 final size:21
Alignment explanation
Indices: 64392732--64392773 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
64392722 GTTTATCATT
64392732 TGTCTCGAGACATCAAGAACA
1 TGTCTCGAGACATCAAGAACA
*
64392753 TGTCTCGAGACCTCAAGAACA
1 TGTCTCGAGACATCAAGAACA
64392774 AATTTAAGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.36, C:0.26, G:0.19, T:0.19
Consensus pattern (21 bp):
TGTCTCGAGACATCAAGAACA
Found at i:64393520 original size:28 final size:29
Alignment explanation
Indices: 64393485--64393577 Score: 68
Period size: 28 Copynumber: 3.3 Consensus size: 29
64393475 AAATTCAAAT
* *
64393485 ATTA-AAAATTTATTAAAGATTAGAAAAA
1 ATTATAAAATTTATAAAAGAATAGAAAAA
* * *
64393513 A-TATAAAAATCATAAAAGAATATAAAAA
1 ATTATAAAATTTATAAAAGAATAGAAAAA
* * *
64393541 ATTGTAAAATTT-T-ACAGAAATTGTAAAAA
1 ATTATAAAATTTATAAAAG-AATAG-AAAAA
64393570 ATTATAAA
1 ATTATAAA
64393578 TATAAAAATA
Statistics
Matches: 49, Mismatches: 12, Indels: 7
0.72 0.18 0.10
Matches are distributed among these distances:
27 5 0.10
28 25 0.51
29 19 0.39
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.30
Consensus pattern (29 bp):
ATTATAAAATTTATAAAAGAATAGAAAAA
Found at i:64393883 original size:18 final size:18
Alignment explanation
Indices: 64393862--64393916 Score: 58
Period size: 18 Copynumber: 3.0 Consensus size: 18
64393852 AAAAAAATAT
*
64393862 AATTTTTAATAAATTTTA
1 AATTTTTAATAAAATTTA
*
64393880 AATTTTTATTAAAATTTAA
1 AATTTTTAATAAAATTT-A
*
64393899 TAATTTTT-CTAAAATTTA
1 -AATTTTTAATAAAATTTA
64393917 TTATTTATAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
18 16 0.50
19 9 0.28
20 7 0.22
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (18 bp):
AATTTTTAATAAAATTTA
Found at i:64393894 original size:19 final size:20
Alignment explanation
Indices: 64393860--64393916 Score: 66
Period size: 19 Copynumber: 3.0 Consensus size: 20
64393850 ATAAAAAAAT
*
64393860 ATAATTTTTAAT-AAATTTT
1 ATAATTTTTAATAAAATTTA
*
64393879 A-AATTTTTATTAAAATTTA
1 ATAATTTTTAATAAAATTTA
*
64393898 ATAATTTTT-CTAAAATTTA
1 ATAATTTTTAATAAAATTTA
64393917 TTATTTATAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
18 9 0.27
19 17 0.52
20 7 0.21
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (20 bp):
ATAATTTTTAATAAAATTTA
Found at i:64394916 original size:18 final size:18
Alignment explanation
Indices: 64394893--64394928 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
64394883 GCAGGTTTTG
64394893 CGGTTGACCATTTTACTA
1 CGGTTGACCATTTTACTA
64394911 CGGTTGACCATTTTACTA
1 CGGTTGACCATTTTACTA
64394929 TCTGTTTTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.22, G:0.17, T:0.39
Consensus pattern (18 bp):
CGGTTGACCATTTTACTA
Found at i:64401540 original size:16 final size:16
Alignment explanation
Indices: 64401519--64401550 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
64401509 TGCATCAGGC
64401519 GTGCATATTGTACCTT
1 GTGCATATTGTACCTT
64401535 GTGCATATTGTACCTT
1 GTGCATATTGTACCTT
64401551 ATCTCTTCGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.44
Consensus pattern (16 bp):
GTGCATATTGTACCTT
Found at i:64404014 original size:26 final size:26
Alignment explanation
Indices: 64403982--64404038 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 26
64403972 GTTAGAAAGC
64403982 ATTATTGTTCAATTTGGCGAAGCATG
1 ATTATTGTTCAATTTGGCGAAGCATG
* *
64404008 ATTATTGTTTAATTTTGCGAAGCATG
1 ATTATTGTTCAATTTGGCGAAGCATG
*
64404034 CTTAT
1 ATTAT
64404039 AAATAAATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.26, C:0.11, G:0.19, T:0.44
Consensus pattern (26 bp):
ATTATTGTTCAATTTGGCGAAGCATG
Found at i:64410763 original size:6 final size:6
Alignment explanation
Indices: 64410752--64410786 Score: 52
Period size: 6 Copynumber: 5.5 Consensus size: 6
64410742 GGTTTTCTCC
64410752 AAAATG AAAATG AAAATG AAAATGG AGAAATG AAA
1 AAAATG AAAATG AAAATG AAAAT-G A-AAATG AAA
64410787 TCATTTGGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 19 0.70
7 4 0.15
8 4 0.15
ACGTcount: A:0.66, C:0.00, G:0.20, T:0.14
Consensus pattern (6 bp):
AAAATG
Found at i:64410811 original size:63 final size:62
Alignment explanation
Indices: 64410690--64410819 Score: 156
Period size: 63 Copynumber: 2.1 Consensus size: 62
64410680 ATGTTGAATC
* * *
64410690 AAATGAAAATTAAATAAAAATAGAGAAATAGGAAACATTTGGAAATTATGAAGGTTTTCTCCA
1 AAATGAAAATAAAATAAAAATAGAGAAATA-GAAACATTTGGAAATAATGAAGATTTTCTCCA
* * *
64410753 AAATGAAAATGAAAATGAAAATGGAGAAAT-GAAATCATTTGGAAATGAATG-TGATTTTCTCCA
1 AAATGAAAAT-AAAATAAAAATAGAGAAATAGAAA-CATTTGGAAAT-AATGAAGATTTTCTCCA
64410816 AAAT
1 AAAT
64410820 ATGAAATGAA
Statistics
Matches: 58, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
62 4 0.07
63 35 0.60
64 19 0.33
ACGTcount: A:0.50, C:0.06, G:0.17, T:0.27
Consensus pattern (62 bp):
AAATGAAAATAAAATAAAAATAGAGAAATAGAAACATTTGGAAATAATGAAGATTTTCTCCA
Found at i:64410843 original size:16 final size:16
Alignment explanation
Indices: 64410822--64410862 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
64410812 TCCAAAATAT
*
64410822 GAAATGAATTCATTTA
1 GAAATGAACTCATTTA
64410838 GAAATGAACTCATTTA
1 GAAATGAACTCATTTA
64410854 GAAATGAAC
1 GAAATGAAC
64410863 AAGGATTTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.46, C:0.10, G:0.15, T:0.29
Consensus pattern (16 bp):
GAAATGAACTCATTTA
Found at i:64417348 original size:58 final size:56
Alignment explanation
Indices: 64417238--64417354 Score: 146
Period size: 58 Copynumber: 2.0 Consensus size: 56
64417228 TATCATTTTA
* * *
64417238 AATTTAATACTTATCTTGATAGTATTTTATTAATTTAATAGATTTAATATTAAATTT
1 AATTTAATACTTATCTTAATAGTATTATATTAATTTAATA-ATTAAATATTAAATTT
* *
64417295 AATTTAATATTTATCTTAATAAGTATTATATTAATTTAAT-ATTAAAGTGATTAAGTTT
1 AATTTAATACTTATCTTAAT-AGTATTATATTAATTTAATAATTAAA-T-ATTAAATTT
64417353 AA
1 AA
64417355 CTATAATTAA
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
56 5 0.10
57 19 0.37
58 28 0.54
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.50
Consensus pattern (56 bp):
AATTTAATACTTATCTTAATAGTATTATATTAATTTAATAATTAAATATTAAATTT
Found at i:64417424 original size:15 final size:16
Alignment explanation
Indices: 64417404--64417433 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
64417394 ATTATATTGA
64417404 TTTC-TTTTCCCAAAT
1 TTTCTTTTTCCCAAAT
64417419 TTTCTTTTTCCCAAA
1 TTTCTTTTTCCCAAA
64417434 AACAAATTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.20, C:0.27, G:0.00, T:0.53
Consensus pattern (16 bp):
TTTCTTTTTCCCAAAT
Found at i:64418548 original size:23 final size:23
Alignment explanation
Indices: 64418516--64418559 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
64418506 ATATCCCCAC
64418516 ATGGTATGTAG-GGCTAGATGGAA
1 ATGGTATGTAGAGGCT-GATGGAA
*
64418539 ATGGTGTGTAGAGGCTGATGG
1 ATGGTATGTAGAGGCTGATGG
64418560 GTAGAATTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.25, C:0.05, G:0.43, T:0.27
Consensus pattern (23 bp):
ATGGTATGTAGAGGCTGATGGAA
Found at i:64440962 original size:31 final size:31
Alignment explanation
Indices: 64440926--64440988 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
64440916 TTAAAGATAA
64440926 AATTATTAACAAAAAAAGAGAGAAAAGTTGT
1 AATTATTAACAAAAAAAGAGAGAAAAGTTGT
64440957 AATTATTAACAAAAAAAGAGAGAAAAGTTGT
1 AATTATTAACAAAAAAAGAGAGAAAAGTTGT
64440988 A
1 A
64440989 CTTTGAGGAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.59, C:0.03, G:0.16, T:0.22
Consensus pattern (31 bp):
AATTATTAACAAAAAAAGAGAGAAAAGTTGT
Found at i:64444466 original size:39 final size:39
Alignment explanation
Indices: 64444412--64444488 Score: 145
Period size: 39 Copynumber: 2.0 Consensus size: 39
64444402 ACTACAAAGG
64444412 GAGGATAATATATATATGTATGTATGTATACACACACAT
1 GAGGATAATATATATATGTATGTATGTATACACACACAT
*
64444451 GAGGATAATATATATATGTATGTATGTATATACACACA
1 GAGGATAATATATATATGTATGTATGTATACACACACA
64444489 CAGATATTTA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.42, C:0.09, G:0.16, T:0.34
Consensus pattern (39 bp):
GAGGATAATATATATATGTATGTATGTATACACACACAT
Found at i:64448462 original size:12 final size:12
Alignment explanation
Indices: 64448445--64448478 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
64448435 ATTATTTTAG
64448445 TATTATCATTAC
1 TATTATCATTAC
**
64448457 TATTATTTTTAC
1 TATTATCATTAC
64448469 TATTATCATT
1 TATTATCATT
64448479 TTTTCAAAAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.29, C:0.12, G:0.00, T:0.59
Consensus pattern (12 bp):
TATTATCATTAC
Found at i:64461417 original size:44 final size:44
Alignment explanation
Indices: 64461360--64461860 Score: 278
Period size: 44 Copynumber: 11.5 Consensus size: 44
64461350 TAGATCTTAC
* * *
64461360 CCCCCAAGCAGTAGGGAAACAGATCGAAGACGAAAGGCCTTAAA
1 CCCCTAAGCAGTAGGGTAACAGATCGAAGACGAAAGGTCTTAAA
* ** * * *
64461404 CCCCTAAGCAGTAGGGTAACAG-GCTGAATTTC--CAGATCTTAACC
1 CCCCTAAGCAGTAGGGTAACAGATC-GAA-GACGAAAGGTCTTAA-A
* * *
64461448 CCCCTAAGCAATAGGGAAACAGATCGAAGACGAAAGGCCTTAAA
1 CCCCTAAGCAGTAGGGTAACAGATCGAAGACGAAAGGTCTTAAA
* ** * * *
64461492 CCCCTAAGCAGTAGGGTAACAG-GCTGAATTTC--CAGATCTTAAT
1 CCCCTAAGCAGTAGGGTAACAGATC-GAA-GACGAAAGGTCTTAAA
* *
64461535 CCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGTCTTAAA
1 CCCCTAAGCAGTAGGGTAACAGATCGAAGACGAAAGGTCTTAAA
* * * ** * * *
64461579 CCCCTAAGTAGTAGGGTAACATACCGAA-TTG-CAGATCTT-AT
1 CCCCTAAGCAGTAGGGTAACAGATCGAAGACGAAAGGTCTTAAA
* * *
64461620 CTCCCTAAGCAGTAGTGG-AGCAGATCGAAGACGAAGGGCCTTAAA
1 C-CCCTAAGCAGTAG-GGTAACAGATCGAAGACGAAAGGTCTTAAA
* * **** * *
64461665 CCCCTAAGCAGTAGGGTAACAG-GCTAA-ATTTCCAGATCTTAACC
1 CCCCTAAGCAGTAGGGTAACAGATCGAAGA-CGAAAGGTCTTAA-A
* * * **
64461709 CCCCTAAGAAATAGGGAAACAGATCGAAGACGAGGGGTCTTAAA
1 CCCCTAAGCAGTAGGGTAACAGATCGAAGACGAAAGGTCTTAAA
* ** * * *
64461753 CCCCTAAGCAGTAGGGTAACAGACCGAA-TTG-CAGATCTT-AT
1 CCCCTAAGCAGTAGGGTAACAGATCGAAGACGAAAGGTCTTAAA
* * * * * *
64461794 CTTCCTAAGTAGTAGTGG-AGCAAATCGAAGACGAAGGGCCTTAAA
1 C-CCCTAAGCAGTAG-GGTAACAGATCGAAGACGAAAGGTCTTAAA
*
64461839 CCCCTAAGCAATAGGGTAACAG
1 CCCCTAAGCAGTAGGGTAACAG
64461861 GCTGAATTTA
Statistics
Matches: 324, Mismatches: 106, Indels: 54
0.67 0.22 0.11
Matches are distributed among these distances:
41 4 0.01
42 51 0.16
43 62 0.19
44 182 0.56
45 24 0.07
46 1 0.00
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (44 bp):
CCCCTAAGCAGTAGGGTAACAGATCGAAGACGAAAGGTCTTAAA
Found at i:64461655 original size:86 final size:87
Alignment explanation
Indices: 64461319--64461952 Score: 780
Period size: 86 Copynumber: 7.3 Consensus size: 87
64461309 AGCCTTATCT
* * * *
64461319 CCCTGAGCAGTAGGGTAACAGGTTGAATTTCTAGATCTTA-CCCCCCAAGCAGTAGGGAAACAGA
1 CCCTAAGCAGTAGGGTAACAGGCTGAATTTCCAGATCTTATCCCCCTAAGCAGTAGGGAAACAGA
*
64461383 TCGAAGACGAAAGGCCTTAAAC
66 TCGAAGACGAAGGGCCTTAAAC
* *
64461405 CCCTAAGCAGTAGGGTAACAGGCTGAATTTCCAGATCTTAACCCCCCTAAGCAATAGGGAAACAG
1 CCCTAAGCAGTAGGGTAACAGGCTGAATTTCCAGATCTT-ATCCCCCTAAGCAGTAGGGAAACAG
*
64461470 ATCGAAGACGAAAGGCCTTAAAC
65 ATCGAAGACGAAGGGCCTTAAAC
64461493 CCCTAAGCAGTAGGGTAACAGGCTGAATTTCCAGATCTTAAT-CCCCTAAGCAGTAGGGAAACAG
1 CCCTAAGCAGTAGGGTAACAGGCTGAATTTCCAGATCTT-ATCCCCCTAAGCAGTAGGGAAACAG
*
64461557 ATCGAAGACGAAGGGTCTTAAAC
65 ATCGAAGACGAAGGGCCTTAAAC
* ** * * * *
64461580 CCCTAAGTAGTAGGGTAACATACCGAA-TTGCAGATCTTATCTCCCTAAGCAGTAGTGG-AGCAG
1 CCCTAAGCAGTAGGGTAACAGGCTGAATTTCCAGATCTTATCCCCCTAAGCAGTAG-GGAAACAG
64461643 ATCGAAGACGAAGGGCCTTAAAC
65 ATCGAAGACGAAGGGCCTTAAAC
* * * *
64461666 CCCTAAGCAGTAGGGTAACAGGCTAAATTTCCAGATCTTAACCCCCCTAAGAAATAGGGAAACAG
1 CCCTAAGCAGTAGGGTAACAGGCTGAATTTCCAGATCTT-ATCCCCCTAAGCAGTAGGGAAACAG
* *
64461731 ATCGAAGACGAGGGGTCTTAAAC
65 ATCGAAGACGAAGGGCCTTAAAC
* * * ** * * *
64461754 CCCTAAGCAGTAGGGTAACAGACCGAA-TTGCAGATCTTATCTTCCTAAGTAGTAGTGG-AGCAA
1 CCCTAAGCAGTAGGGTAACAGGCTGAATTTCCAGATCTTATCCCCCTAAGCAGTAG-GGAAACAG
64461817 ATCGAAGACGAAGGGCCTTAAAC
65 ATCGAAGACGAAGGGCCTTAAAC
* * * * * * *
64461840 CCCTAAGCAATAGGGTAACAGGCTGAATTTACAGATCTTATCTCCCTAGGCAGCA-GTAGAGCAG
1 CCCTAAGCAGTAGGGTAACAGGCTGAATTTCCAGATCTTATCCCCCTAAGCAGTAGGGA-AACAG
* * ** *
64461904 ATCAAAGACGATGAACCTT-GAC
65 ATCGAAGACGAAGGGCCTTAAAC
64461926 CCCTAAGCAGTAGGGTAACAGGCTGAA
1 CCCTAAGCAGTAGGGTAACAGGCTGAA
64461953 AATTATAGAT
Statistics
Matches: 478, Mismatches: 59, Indels: 22
0.86 0.11 0.04
Matches are distributed among these distances:
85 3 0.01
86 195 0.41
87 133 0.28
88 147 0.31
ACGTcount: A:0.34, C:0.23, G:0.24, T:0.19
Consensus pattern (87 bp):
CCCTAAGCAGTAGGGTAACAGGCTGAATTTCCAGATCTTATCCCCCTAAGCAGTAGGGAAACAGA
TCGAAGACGAAGGGCCTTAAAC
Found at i:64461751 original size:174 final size:174
Alignment explanation
Indices: 64461319--64461879 Score: 842
Period size: 174 Copynumber: 3.2 Consensus size: 174
64461309 AGCCTTATCT
* * *
64461319 CCCTGAGCAGTAGGGTAACAGGTTGAATTTCTAGATCTT-ACCCCCC-AAGCAGTAGGGAAACAG
1 CCCTAAGCAGTAGGGTAACAGGCTGAATTTCCAGATCTTAACCCCCCTAAGCAGTAGGGAAACAG
* * * * * *
64461382 ATCGAAGACGAAAGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTCCAGATCTTAAC
66 ATCGAAGACGAAGGGTCTTAAACCCCTAAGCAGTAGGGTAACAGACCGAA-TTGCAGATCTT-AT
* * * *
64461447 CCCCCTAAGCAATAG-GGAAACAGATCGAAGACGAAAGGCCTTAAAC
129 CTCCCTAAGCAGTAGTGG-AGCAGATCGAAGACGAAGGGCCTTAAAC
*
64461493 CCCTAAGCAGTAGGGTAACAGGCTGAATTTCCAGATCTTAA-TCCCCTAAGCAGTAGGGAAACAG
1 CCCTAAGCAGTAGGGTAACAGGCTGAATTTCCAGATCTTAACCCCCCTAAGCAGTAGGGAAACAG
* *
64461557 ATCGAAGACGAAGGGTCTTAAACCCCTAAGTAGTAGGGTAACATACCGAATTGCAGATCTTATCT
66 ATCGAAGACGAAGGGTCTTAAACCCCTAAGCAGTAGGGTAACAGACCGAATTGCAGATCTTATCT
64461622 CCCTAAGCAGTAGTGGAGCAGATCGAAGACGAAGGGCCTTAAAC
131 CCCTAAGCAGTAGTGGAGCAGATCGAAGACGAAGGGCCTTAAAC
* * *
64461666 CCCTAAGCAGTAGGGTAACAGGCTAAATTTCCAGATCTTAACCCCCCTAAGAAATAGGGAAACAG
1 CCCTAAGCAGTAGGGTAACAGGCTGAATTTCCAGATCTTAACCCCCCTAAGCAGTAGGGAAACAG
*
64461731 ATCGAAGACGAGGGGTCTTAAACCCCTAAGCAGTAGGGTAACAGACCGAATTGCAGATCTTATCT
66 ATCGAAGACGAAGGGTCTTAAACCCCTAAGCAGTAGGGTAACAGACCGAATTGCAGATCTTATCT
* * *
64461796 TCCTAAGTAGTAGTGGAGCAAATCGAAGACGAAGGGCCTTAAAC
131 CCCTAAGCAGTAGTGGAGCAGATCGAAGACGAAGGGCCTTAAAC
* *
64461840 CCCTAAGCAATAGGGTAACAGGCTGAATTTACAGATCTTA
1 CCCTAAGCAGTAGGGTAACAGGCTGAATTTCCAGATCTTA
64461880 TCTCCCTAGG
Statistics
Matches: 354, Mismatches: 29, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
173 80 0.23
174 212 0.60
175 62 0.18
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (174 bp):
CCCTAAGCAGTAGGGTAACAGGCTGAATTTCCAGATCTTAACCCCCCTAAGCAGTAGGGAAACAG
ATCGAAGACGAAGGGTCTTAAACCCCTAAGCAGTAGGGTAACAGACCGAATTGCAGATCTTATCT
CCCTAAGCAGTAGTGGAGCAGATCGAAGACGAAGGGCCTTAAAC
Found at i:64461877 original size:261 final size:261
Alignment explanation
Indices: 64461319--64461949 Score: 878
Period size: 261 Copynumber: 2.4 Consensus size: 261
64461309 AGCCTTATCT
* * * * *
64461319 CCCTGAGCAGTAGGGTAACAGGTTGAATTTCTAGATCTTA-CCCCCCAAGCAGTAG-GGAAACAG
1 CCCTAAGCAGTAGGGTAACAGGCTGAATTTC-AGATCTTATCTCCCTAAGCAGTAGTGG-AGCAG
* *
64461382 ATCGAAGACGAAAGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTCCAGATCTTAAC
64 ATCGAAGACGAAGGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTAAATTTCCAGATCTTAAC
*
64461447 CCCCCTAAGCAATAGGGAAACAGATCGAAGACGAAAGGCCTTAAACCCCTAAGCAGTAGGGTAAC
129 CCCCCTAAGAAATAGGGAAACAGATCGAAGACGAAAGGCCTTAAACCCCTAAGCAGTAGGGTAAC
* * * *
64461512 AGGCTGAATTTCCAGATCTTAATCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGTCTTA
194 AGACCGAATTTCCAGATCTTAATCCCCTAAGCAGTAGGGAAACAAATCGAAGACGAAGGGCCTTA
64461577 AAC
259 AAC
* ** * *
64461580 CCCTAAGTAGTAGGGTAACATACCGAATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
1 CCCTAAGCAGTAGGGTAACAGGCTGAATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
64461645 CGAAGACGAAGGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTAAATTTCCAGATCTTAACCC
66 CGAAGACGAAGGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTAAATTTCCAGATCTTAACCC
** *
64461710 CCCTAAGAAATAGGGAAACAGATCGAAGACGAGGGGTCTTAAACCCCTAAGCAGTAGGGTAACAG
131 CCCTAAGAAATAGGGAAACAGATCGAAGACGAAAGGCCTTAAACCCCTAAGCAGTAGGGTAACAG
* * * *
64461775 ACCGAA-TTGCAGATCTT-ATCTTCCTAAGTAGTAGTGG-AGCAAATCGAAGACGAAGGGCCTTA
196 ACCGAATTTCCAGATCTTAATC-CCCTAAGCAGTAG-GGAAACAAATCGAAGACGAAGGGCCTTA
64461837 AAC
259 AAC
* * * *
64461840 CCCTAAGCAATAGGGTAACAGGCTGAATTTACAGATCTTATCTCCCTAGGCAGCAGTAGAGCAGA
1 CCCTAAGCAGTAGGGTAACAGGCTGAATTT-CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
* * ** *
64461905 TCAAAGACGATGAACCTT-GACCCCTAAGCAGTAGGGTAACAGGCT
65 TCGAAGACGAAGGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCT
64461950 GAAAATTATA
Statistics
Matches: 327, Mismatches: 38, Indels: 11
0.87 0.10 0.03
Matches are distributed among these distances:
259 3 0.01
260 104 0.32
261 218 0.67
262 2 0.01
ACGTcount: A:0.34, C:0.23, G:0.24, T:0.19
Consensus pattern (261 bp):
CCCTAAGCAGTAGGGTAACAGGCTGAATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
CGAAGACGAAGGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTAAATTTCCAGATCTTAACCC
CCCTAAGAAATAGGGAAACAGATCGAAGACGAAAGGCCTTAAACCCCTAAGCAGTAGGGTAACAG
ACCGAATTTCCAGATCTTAATCCCCTAAGCAGTAGGGAAACAAATCGAAGACGAAGGGCCTTAAA
C
Found at i:64461973 original size:174 final size:173
Alignment explanation
Indices: 64461319--64461946 Score: 816
Period size: 174 Copynumber: 3.6 Consensus size: 173
64461309 AGCCTTATCT
* * * * *
64461319 CCCTGAGCAGTAGGGTAACAGGTTGAATTTCTAGATCTT-ACCCCCCAAGCAGTAGGGAAACAGA
1 CCCTAAGCAGTAGGGTAACAGGCTGAATTTCCAGATCTTAATCCCCTAAGCAGTAGGGAAACAGA
* * * * * *
64461383 TCGAAGACGAAAGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTCCAGATCTTAACC
66 TCGAAGACGAAGGGTCTTAAACCCCTAAGCAGTAGGGTAACAGACCGAA-TTGCAGATCTT-ATC
** * * * *
64461448 CCCCTAAGCAATAG-GGAAACAGATCGAAGACGAAAGGCCTTAAAC
129 TTCCTAAGCAGTAGTGG-AGCAAATCGAAGACGAAGGGCCTTAAAC
64461493 CCCTAAGCAGTAGGGTAACAGGCTGAATTTCCAGATCTTAATCCCCTAAGCAGTAGGGAAACAGA
1 CCCTAAGCAGTAGGGTAACAGGCTGAATTTCCAGATCTTAATCCCCTAAGCAGTAGGGAAACAGA
* * *
64461558 TCGAAGACGAAGGGTCTTAAACCCCTAAGTAGTAGGGTAACATACCGAATTGCAGATCTTATCTC
66 TCGAAGACGAAGGGTCTTAAACCCCTAAGCAGTAGGGTAACAGACCGAATTGCAGATCTTATCTT
*
64461623 CCTAAGCAGTAGTGGAGCAGATCGAAGACGAAGGGCCTTAAAC
131 CCTAAGCAGTAGTGGAGCAAATCGAAGACGAAGGGCCTTAAAC
* * * *
64461666 CCCTAAGCAGTAGGGTAACAGGCTAAATTTCCAGATCTTAACCCCCCTAAGAAATAGGGAAACAG
1 CCCTAAGCAGTAGGGTAACAGGCTGAATTTCCAGATCTTAA-TCCCCTAAGCAGTAGGGAAACAG
*
64461731 ATCGAAGACGAGGGGTCTTAAACCCCTAAGCAGTAGGGTAACAGACCGAATTGCAGATCTTATCT
65 ATCGAAGACGAAGGGTCTTAAACCCCTAAGCAGTAGGGTAACAGACCGAATTGCAGATCTTATCT
*
64461796 TCCTAAGTAGTAGTGGAGCAAATCGAAGACGAAGGGCCTTAAAC
130 TCCTAAGCAGTAGTGGAGCAAATCGAAGACGAAGGGCCTTAAAC
* * * * * *
64461840 CCCTAAGCAATAGGGTAACAGGCTGAATTTACAGATCTT-ATCTCCCTAGGCAGCA-GTAGAGCA
1 CCCTAAGCAGTAGGGTAACAGGCTGAATTTCCAGATCTTAATC-CCCTAAGCAGTAGGGA-AACA
* * *** *
64461903 GATCAAAGACGATGAACCTT-GACCCCTAAGCAGTAGGGTAACAG
64 GATCGAAGACGAAGGGTCTTAAACCCCTAAGCAGTAGGGTAACAG
64461947 GCTGAAAATT
Statistics
Matches: 406, Mismatches: 43, Indels: 12
0.88 0.09 0.03
Matches are distributed among these distances:
172 26 0.06
173 107 0.26
174 207 0.51
175 66 0.16
ACGTcount: A:0.34, C:0.23, G:0.24, T:0.19
Consensus pattern (173 bp):
CCCTAAGCAGTAGGGTAACAGGCTGAATTTCCAGATCTTAATCCCCTAAGCAGTAGGGAAACAGA
TCGAAGACGAAGGGTCTTAAACCCCTAAGCAGTAGGGTAACAGACCGAATTGCAGATCTTATCTT
CCTAAGCAGTAGTGGAGCAAATCGAAGACGAAGGGCCTTAAAC
Found at i:64463399 original size:25 final size:26
Alignment explanation
Indices: 64463337--64463405 Score: 79
Period size: 25 Copynumber: 2.7 Consensus size: 26
64463327 ATTAGATCCT
*
64463337 TTTTTTACT-TTATTATTAAAATTAA
1 TTTTTTACTATTATCATTAAAATTAA
* **
64463362 TTATTTTAGTATTATCATTACTATT-A
1 TT-TTTTACTATTATCATTAAAATTAA
64463388 TTTTTTACTATTATCATT
1 TTTTTTACTATTATCATT
64463406 TTTTCAAAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
25 17 0.46
26 9 0.24
27 11 0.30
ACGTcount: A:0.30, C:0.07, G:0.01, T:0.61
Consensus pattern (26 bp):
TTTTTTACTATTATCATTAAAATTAA
Found at i:64464204 original size:47 final size:48
Alignment explanation
Indices: 64464140--64464253 Score: 137
Period size: 47 Copynumber: 2.4 Consensus size: 48
64464130 GTTCCTTTTT
*
64464140 ATTACTATTAC-TGTATTATTCCTATTTTTACTAC-TATTATTATTATC
1 ATTACTATCACAT-TATTATTCCTATTTTTACTACGTATTATTATTATC
* * *
64464187 ATTACTATCACATTATTA--GCTTTTTTTATTACTGTATTATTATTATC
1 ATTACTATCACATTATTATTCCTATTTTTACTAC-GTATTATTATTATC
*
64464234 ATTACTATCACATTACTATT
1 ATTACTATCACATTATTATT
64464254 AAAGTCTTTC
Statistics
Matches: 57, Mismatches: 5, Indels: 8
0.81 0.07 0.11
Matches are distributed among these distances:
45 11 0.19
47 45 0.79
48 1 0.02
ACGTcount: A:0.29, C:0.15, G:0.03, T:0.54
Consensus pattern (48 bp):
ATTACTATCACATTATTATTCCTATTTTTACTACGTATTATTATTATC
Found at i:64479291 original size:12 final size:13
Alignment explanation
Indices: 64479274--64479303 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
64479264 ATTTTCATTA
64479274 ATATAAA-ATGAT
1 ATATAAACATGAT
64479286 ATATAAACATGAT
1 ATATAAACATGAT
64479299 ATATA
1 ATATA
64479304 GTACAAACGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.41
13 10 0.59
ACGTcount: A:0.57, C:0.03, G:0.07, T:0.33
Consensus pattern (13 bp):
ATATAAACATGAT
Found at i:64486374 original size:29 final size:29
Alignment explanation
Indices: 64486341--64486410 Score: 86
Period size: 29 Copynumber: 2.4 Consensus size: 29
64486331 TAATAAATTA
**
64486341 AGGTACCAAATTGAACTTAAAAAAAGCTT
1 AGGTACCAAATTGAACCCAAAAAAAGCTT
** * *
64486370 AGGTACCAAATTGGGCCCCAAAAAAGTTT
1 AGGTACCAAATTGAACCCAAAAAAAGCTT
64486399 AGGTACCAAATT
1 AGGTACCAAATT
64486411 AAGAAAAAGT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.43, C:0.17, G:0.17, T:0.23
Consensus pattern (29 bp):
AGGTACCAAATTGAACCCAAAAAAAGCTT
Found at i:64486911 original size:10 final size:9
Alignment explanation
Indices: 64486885--64486922 Score: 58
Period size: 9 Copynumber: 4.1 Consensus size: 9
64486875 AAGTATAATT
64486885 TATTAAAAA
1 TATTAAAAA
64486894 TATTAAAATA
1 TATTAAAA-A
*
64486904 TGTTAAAAA
1 TATTAAAAA
64486913 TATTAAAAA
1 TATTAAAAA
64486922 T
1 T
64486923 TTTGTTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
9 18 0.69
10 8 0.31
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (9 bp):
TATTAAAAA
Found at i:64489533 original size:13 final size:13
Alignment explanation
Indices: 64489499--64489549 Score: 50
Period size: 13 Copynumber: 3.9 Consensus size: 13
64489489 TTTAAATCAA
*
64489499 ACTTTTCAAAAGC
1 ACTTTTTAAAAGC
* *
64489512 ACTTCTTAAAAGT
1 ACTTTTTAAAAGC
64489525 ACTTTTTAATAA-C
1 ACTTTTTAA-AAGC
*
64489538 ATTTTTTAAAAG
1 ACTTTTTAAAAG
64489550 TATTGCCATA
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
12 2 0.07
13 26 0.87
14 2 0.07
ACGTcount: A:0.39, C:0.14, G:0.06, T:0.41
Consensus pattern (13 bp):
ACTTTTTAAAAGC
Found at i:64489571 original size:23 final size:24
Alignment explanation
Indices: 64489541--64489585 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
64489531 TAATAACATT
64489541 TTTTAAAAGTA-TTG-CCATAATCA
1 TTTTAAAA-TATTTGACCATAATCA
64489564 TTTTAAAATATTTGACCATAAT
1 TTTTAAAATATTTGACCATAAT
64489586 TATAAATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 2 0.10
23 11 0.55
24 7 0.35
ACGTcount: A:0.40, C:0.11, G:0.07, T:0.42
Consensus pattern (24 bp):
TTTTAAAATATTTGACCATAATCA
Found at i:64493446 original size:16 final size:16
Alignment explanation
Indices: 64493413--64493446 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
64493403 TGTCTCTGTT
* *
64493413 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
64493429 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
64493445 AA
1 AA
64493447 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:64496269 original size:21 final size:21
Alignment explanation
Indices: 64496243--64496283 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
64496233 AGACGAGCAA
* *
64496243 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
64496264 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
64496284 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:64498219 original size:16 final size:16
Alignment explanation
Indices: 64498186--64498219 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
64498176 GGAGATTGTT
* *
64498186 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
64498202 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
64498218 AA
1 AA
64498220 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:64505540 original size:29 final size:29
Alignment explanation
Indices: 64505487--64505543 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
64505477 TTTTTAAATT
* *
64505487 AATTTTTTATTATTGTTTTTAATAATAGA
1 AATTTTTTATTACTGTTATTAATAATAGA
64505516 AATTTTTTATTACTGTTAATT-ATAATAG
1 AATTTTTTATTACTGTT-ATTAATAATAG
64505544 TTTTTCATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 23 0.92
30 2 0.08
ACGTcount: A:0.35, C:0.02, G:0.07, T:0.56
Consensus pattern (29 bp):
AATTTTTTATTACTGTTATTAATAATAGA
Found at i:64505739 original size:20 final size:20
Alignment explanation
Indices: 64505704--64505752 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
64505694 TAATGTTATT
* * *
64505704 ACTATTTATGATTTGATTCC
1 ACTATTCATGACTTGACTCC
*
64505724 ACTGTTCATGACTTGACTCC
1 ACTATTCATGACTTGACTCC
64505744 ACTATTCAT
1 ACTATTCAT
64505753 AAGACTGACA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.24, C:0.22, G:0.10, T:0.43
Consensus pattern (20 bp):
ACTATTCATGACTTGACTCC
Found at i:64510182 original size:9 final size:9
Alignment explanation
Indices: 64510168--64510212 Score: 54
Period size: 9 Copynumber: 4.8 Consensus size: 9
64510158 CAAAAATGGT
64510168 TTAAAAAAA
1 TTAAAAAAA
64510177 TTAAAAAATA
1 TTAAAAAA-A
**
64510187 CTTTTAAAAA
1 -TTAAAAAAA
64510197 TTAAAAAAA
1 TTAAAAAAA
64510206 TTAAAAA
1 TTAAAAA
64510213 TTTTAAAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
9 22 0.73
10 2 0.07
11 6 0.20
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (9 bp):
TTAAAAAAA
Found at i:64513084 original size:17 final size:17
Alignment explanation
Indices: 64513043--64513084 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
64513033 TAATTTTTTA
64513043 AAAATTA-TAAAAAAAT
1 AAAATTATTAAAAAAAT
* *
64513059 ATAAGTTATTAAAATAAT
1 A-AAATTATTAAAAAAAT
64513077 AAAATTAT
1 AAAATTAT
64513085 ATTTTTATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
16 1 0.05
17 11 0.52
18 9 0.43
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (17 bp):
AAAATTATTAAAAAAAT
Found at i:64513905 original size:26 final size:26
Alignment explanation
Indices: 64513876--64513983 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
64513866 TGGTACAAAT
64513876 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
64513902 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
64513928 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
64513954 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
64513980 TGAT
1 TGAT
64513984 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:64515490 original size:26 final size:26
Alignment explanation
Indices: 64515461--64515513 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
64515451 TTTACAGTTT
64515461 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
64515487 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
64515513 T
1 T
64515514 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:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:64517740 original size:13 final size:14
Alignment explanation
Indices: 64517719--64517748 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
64517709 TGTTATCAAT
64517719 TTTATATAAATTAA
1 TTTATATAAATTAA
64517733 TTTA-ATAAATTAA
1 TTTATATAAATTAA
64517746 TTT
1 TTT
64517749 TCAAGTTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TTTATATAAATTAA
Found at i:64523561 original size:28 final size:27
Alignment explanation
Indices: 64523529--64523599 Score: 74
Period size: 28 Copynumber: 2.7 Consensus size: 27
64523519 CTTTATATAT
64523529 TATTATTATATATATATTATTGTTCTCA
1 TATTATTATATATATATTATT-TTCTCA
* * * *
64523557 TATTATTTTATGTA-AGTATTTTCTTA
1 TATTATTATATATATATTATTTTCTCA
*
64523583 AATT-TTATATATATATT
1 TATTATTATATATATATT
64523600 TAAAATTATT
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
25 7 0.21
26 10 0.29
27 5 0.15
28 12 0.35
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.59
Consensus pattern (27 bp):
TATTATTATATATATATTATTTTCTCA
Found at i:64535572 original size:25 final size:25
Alignment explanation
Indices: 64535538--64535587 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
64535528 TGTGTCCTAA
64535538 CAGAGTGAAAAAGGAAGAAAACCTT
1 CAGAGTGAAAAAGGAAGAAAACCTT
64535563 CAGAGTGAAAAAGGAAGAAAACCTT
1 CAGAGTGAAAAAGGAAGAAAACCTT
64535588 TCTTTTTTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.52, C:0.12, G:0.24, T:0.12
Consensus pattern (25 bp):
CAGAGTGAAAAAGGAAGAAAACCTT
Found at i:64538648 original size:19 final size:19
Alignment explanation
Indices: 64538624--64538671 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
64538614 TGTTGTGTTA
*
64538624 TTTTGAAATCAATTACTGC
1 TTTTGAAAACAATTACTGC
*
64538643 TTTTGAAAACAATTACTGT
1 TTTTGAAAACAATTACTGC
64538662 TTTTGAAAAC
1 TTTTGAAAAC
64538672 GCGCCCTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.35, C:0.12, G:0.10, T:0.42
Consensus pattern (19 bp):
TTTTGAAAACAATTACTGC
Found at i:64539243 original size:28 final size:26
Alignment explanation
Indices: 64539189--64539274 Score: 127
Period size: 27 Copynumber: 3.2 Consensus size: 26
64539179 AGCATGGTTG
*
64539189 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGTCA
64539215 CCAGATACAGATAATCGTGGCAGAGTCA
1 CCAGA-ACAGATAAT-GTGGCAGAGTCA
*
64539243 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGTCA
64539270 CCAGA
1 CCAGA
64539275 TCAAATATTT
Statistics
Matches: 55, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
26 5 0.09
27 32 0.58
28 18 0.33
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.15
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGTCA
Found at i:64539282 original size:27 final size:27
Alignment explanation
Indices: 64539189--64539299 Score: 118
Period size: 27 Copynumber: 4.1 Consensus size: 27
64539179 AGCATGGTTG
* * *
64539189 CCAGAACAGATA-ATGTGACAGAGTCA
1 CCAGATCAGATATATGTGGCAGAGCCA
*
64539215 CCAGATACAGATA-ATCGTGGCAGAGTCA
1 CCAGAT-CAGATATAT-GTGGCAGAGCCA
*
64539243 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGATCAGATATATGTGGCAGAGCCA
* * *
64539270 CCAGATCAAATATTTGTGGCATAGCCA
1 CCAGATCAGATATATGTGGCAGAGCCA
64539297 CCA
1 CCA
64539300 TGACGCTTCC
Statistics
Matches: 74, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
26 5 0.07
27 51 0.69
28 18 0.24
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.18
Consensus pattern (27 bp):
CCAGATCAGATATATGTGGCAGAGCCA
Done.