Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11
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: 47972186
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2603476 characters in sequence are not A, C, G, or T
File 101 of 145
Found at i:34201536 original size:39 final size:38
Alignment explanation
Indices: 34201450--34201536 Score: 102
Period size: 39 Copynumber: 2.2 Consensus size: 38
34201440 NNNNNNNNGG
*** * *
34201450 TGATGGGGAGAGGGAGAGGGTCAGAGTAGGAGGAGGGA
1 TGATGGGGAGAGGGAGAAAATCAAAGTAGGAGGAGAGA
34201488 TGATAGGGGAGAGGGAGAAAATCAAAGTAGGAGGGAGAGA
1 TGAT-GGGGAGAGGGAGAAAATCAAAGTAGGA-GGAGAGA
*
34201528 TGGTGGGGA
1 TGATGGGGA
34201537 AGAATGAAAG
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
38 4 0.10
39 28 0.68
40 9 0.22
ACGTcount: A:0.33, C:0.02, G:0.53, T:0.11
Consensus pattern (38 bp):
TGATGGGGAGAGGGAGAAAATCAAAGTAGGAGGAGAGA
Found at i:34201673 original size:17 final size:16
Alignment explanation
Indices: 34201648--34201689 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
34201638 TCGCCAGTAC
*
34201648 TTCGGCAAACTGTGGAG
1 TTCGCCAAACTG-GGAG
*
34201665 TTCGCCAAAGTGGGAG
1 TTCGCCAAACTGGGAG
34201681 TTCGCCAAA
1 TTCGCCAAA
34201690 AGAGTATTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 13 0.57
17 10 0.43
ACGTcount: A:0.26, C:0.21, G:0.31, T:0.21
Consensus pattern (16 bp):
TTCGCCAAACTGGGAG
Found at i:34202967 original size:44 final size:43
Alignment explanation
Indices: 34202902--34203087 Score: 219
Period size: 44 Copynumber: 4.2 Consensus size: 43
34202892 CGAGACAAAT
* *
34202902 TTCTGACAAGTGTGGGCTTGAACATATCTTGTGTTCCTCAGCCA
1 TTCTGATAAGTGT-GGCTTGAACATATCTTGTGTTCCTCAACCA
* * *
34202946 TTTTGATAAGTGTAGGATTGAACATATCTTGTGTTCCTCAACTA
1 TTCTGATAAGTGT-GGCTTGAACATATCTTGTGTTCCTCAACCA
**
34202990 TTCTGATAAGTGTGGTCTTGAACATATCTTGTGTTCCTCAACTG
1 TTCTGATAAGTGTGG-CTTGAACATATCTTGTGTTCCTCAACCA
* * * * *
34203034 TTCTGATAAGTGTGGGTGAGAACATATCTTATGTTCCTCAGCCT
1 TTCTGATAAGTGTGGCT-TGAACATATCTTGTGTTCCTCAACCA
*
34203078 TTCTGGTAAG
1 TTCTGATAAG
34203088 ACAAGTTTGT
Statistics
Matches: 124, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
43 3 0.02
44 121 0.98
ACGTcount: A:0.23, C:0.18, G:0.22, T:0.38
Consensus pattern (43 bp):
TTCTGATAAGTGTGGCTTGAACATATCTTGTGTTCCTCAACCA
Found at i:34203057 original size:88 final size:88
Alignment explanation
Indices: 34202902--34203073 Score: 247
Period size: 88 Copynumber: 2.0 Consensus size: 88
34202892 CGAGACAAAT
* * *
34202902 TTCTGACAAGTGTGGGCTTGAACATATCTTGTGTTCCTCAGCCATTTTGATAAGTGTAGGATTGA
1 TTCTGACAAGTGTGGGCTTGAACATATCTTGTGTTCCTCAACCATTCTGATAAGTGTAGGATAGA
*
34202967 ACATATCTTGTGTTCCTCAACTA
66 ACATATCTTATGTTCCTCAACTA
* * ** *
34202990 TTCTGATAAGTGTGGTCTTGAACATATCTTGTGTTCCTCAACTGTTCTGATAAGTGT-GGGTGAG
1 TTCTGACAAGTGTGGGCTTGAACATATCTTGTGTTCCTCAACCATTCTGATAAGTGTAGGAT-AG
34203054 AACATATCTTATGTTCCTCA
65 AACATATCTTATGTTCCTCA
34203074 GCCTTTCTGG
Statistics
Matches: 74, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
87 3 0.04
88 71 0.96
ACGTcount: A:0.23, C:0.17, G:0.21, T:0.38
Consensus pattern (88 bp):
TTCTGACAAGTGTGGGCTTGAACATATCTTGTGTTCCTCAACCATTCTGATAAGTGTAGGATAGA
ACATATCTTATGTTCCTCAACTA
Found at i:34203767 original size:27 final size:27
Alignment explanation
Indices: 34203729--34203784 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
34203719 ATAATTATAA
34203729 AAATTTTCAAATTTGGTATCGATACCG
1 AAATTTTCAAATTTGGTATCGATACCG
34203756 AAATTTTCAAATTTGGTATCGATACCG
1 AAATTTTCAAATTTGGTATCGATACCG
34203783 AA
1 AA
34203785 TCAATACCCC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (27 bp):
AAATTTTCAAATTTGGTATCGATACCG
Found at i:34203905 original size:20 final size:21
Alignment explanation
Indices: 34203865--34203906 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
34203855 TAATATATGG
34203865 TATCGATACCTTATTAGAAAA
1 TATCGATACCTTATTAGAAAA
34203886 TATCGATA-CTTAGTTA-AAAA
1 TATCGATACCTTA-TTAGAAAA
34203906 T
1 T
34203907 CAATACAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.36
Consensus pattern (21 bp):
TATCGATACCTTATTAGAAAA
Found at i:34206063 original size:20 final size:19
Alignment explanation
Indices: 34206040--34206081 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
34206030 ATCCTGCCCC
34206040 ATAACCAAATAT-AGACATTA
1 ATAA-CAAATATGAGA-ATTA
*
34206060 ATAACAGATATGAGAATTA
1 ATAACAAATATGAGAATTA
34206079 ATA
1 ATA
34206082 TATCATGCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.55, C:0.10, G:0.10, T:0.26
Consensus pattern (19 bp):
ATAACAAATATGAGAATTA
Found at i:34210502 original size:14 final size:14
Alignment explanation
Indices: 34210485--34210514 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
34210475 GCCTCATACA
*
34210485 AACAGTTCGCATAT
1 AACAATTCGCATAT
34210499 AACAATTCGCATAT
1 AACAATTCGCATAT
34210513 AA
1 AA
34210515 ATGGGTTTGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.20, G:0.10, T:0.27
Consensus pattern (14 bp):
AACAATTCGCATAT
Found at i:34214045 original size:3 final size:3
Alignment explanation
Indices: 34214039--34214064 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
34214029 TTATTATTGT
34214039 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
34214065 TTTATTATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:34214072 original size:3 final size:3
Alignment explanation
Indices: 34214066--34214142 Score: 76
Period size: 3 Copynumber: 27.7 Consensus size: 3
34214056 ATAATAATAT
* **
34214066 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TGA CGA -TA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
34214113 TTA TT- TTA -TA TTA -CA TTA -TA TTA TT- TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
34214143 TTTCCTTTAA
Statistics
Matches: 63, Mismatches: 5, Indels: 12
0.79 0.06 0.15
Matches are distributed among these distances:
2 10 0.16
3 53 0.84
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:34215056 original size:18 final size:18
Alignment explanation
Indices: 34215029--34215065 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
34215019 GTAGGAGTGC
*
34215029 GAAGCTAGTCCTTCGTGA
1 GAAGCAAGTCCTTCGTGA
34215047 GAAGCAAGTCCTTCGTGA
1 GAAGCAAGTCCTTCGTGA
34215065 G
1 G
34215066 GTTTTCACCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.24, C:0.22, G:0.30, T:0.24
Consensus pattern (18 bp):
GAAGCAAGTCCTTCGTGA
Found at i:34223894 original size:12 final size:12
Alignment explanation
Indices: 34223877--34223901 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
34223867 AAGTTGAGAC
34223877 TATCCCTTCAGA
1 TATCCCTTCAGA
34223889 TATCCCTTCAGA
1 TATCCCTTCAGA
34223901 T
1 T
34223902 TTTGTTGTCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.32, G:0.08, T:0.36
Consensus pattern (12 bp):
TATCCCTTCAGA
Found at i:34224692 original size:132 final size:132
Alignment explanation
Indices: 34224479--34225041 Score: 841
Period size: 132 Copynumber: 4.3 Consensus size: 132
34224469 GAATAGACCA
*
34224479 TTGAAGATTGCAGATCCTGTCTCCCTAAGCAGTAGCGGAG--CA--G-AGACGGCGAATCTTATC
1 TTGAAGATTGCAGATCCTGTCTCCCTAAGCAGTAGCGGAGTAGATCGAAGACGGCGAATCTTATC
*
34224539 TTCCCAAGATAGTGGAGAAGCAGAATTAAGCCATTAGTCTTATCTCCCTGAGCAGCAGTGGAGTA
66 TTCCCAAGATAGTGGAGAAGCAGAATTAAGCCATTAGTCCTATCTCCCTGAGCAGCAGTGGAGTA
34224604 GG
131 GG
*
34224606 TTGAAGATTGCAGATCATGTCTCCCTAAGCAGTAGCGGAGTAGATCGAAGACGGCGAATCTTATC
1 TTGAAGATTGCAGATCCTGTCTCCCTAAGCAGTAGCGGAGTAGATCGAAGACGGCGAATCTTATC
* * * *
34224671 TTCCCAAGATAGTGGAGAAGCAGATTTAAGACATTAGTCCTATCTCCCCGAGCAGCAGTGGAATA
66 TTCCCAAGATAGTGGAGAAGCAGAATTAAGCCATTAGTCCTATCTCCCTGAGCAGCAGTGGAGTA
34224736 GG
131 GG
34224738 TTGAAGATTGCAGATCCTGTCTCCCTAAGCAGTAGCGGAGTAGATCGAAGACGGCGAATCTTATC
1 TTGAAGATTGCAGATCCTGTCTCCCTAAGCAGTAGCGGAGTAGATCGAAGACGGCGAATCTTATC
34224803 TTCCCAAGATAGTGGAGAAGCAG-ATTAAAGCCATTAGTCCTATCTCCCTGAGCAGCAGTGGAGT
66 TTCCCAAGATAGTGGAGAAGCAGAATT-AAGCCATTAGTCCTATCTCCCTGAGCAGCAGTGGAGT
34224867 AGG
130 AGG
* * * * *
34224870 TTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGCGGAGCAGGTCGAGGACGGCAAATCTTATC
1 TTGAAGATTGCAGATCCTGTCTCCCTAAGCAGTAGCGGAGTAGATCGAAGACGGCGAATCTTATC
* * * * *** **
34224935 TTCCTAAGATAGTAGTGAAGCAGATTTAAGCCACCGGTCCTATCTCCCTGAATAGCAGTGGAGTA
66 TTCCCAAGATAGTGGAGAAGCAGAATTAAGCCATTAGTCCTATCTCCCTGAGCAGCAGTGGAGTA
34225000 GG
131 GG
* * ** *
34225002 TTGAAGAATGTAGATATTGTCTCCCTAAGCAGTAGTGGAG
1 TTGAAGATTGCAGATCCTGTCTCCCTAAGCAGTAGCGGAG
34225042 CAAATCATGG
Statistics
Matches: 399, Mismatches: 30, Indels: 9
0.91 0.07 0.02
Matches are distributed among these distances:
127 39 0.10
129 1 0.00
131 3 0.01
132 354 0.89
133 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.24
Consensus pattern (132 bp):
TTGAAGATTGCAGATCCTGTCTCCCTAAGCAGTAGCGGAGTAGATCGAAGACGGCGAATCTTATC
TTCCCAAGATAGTGGAGAAGCAGAATTAAGCCATTAGTCCTATCTCCCTGAGCAGCAGTGGAGTA
GG
Found at i:34224769 original size:44 final size:44
Alignment explanation
Indices: 34224579--34224901 Score: 111
Period size: 44 Copynumber: 7.3 Consensus size: 44
34224569 CCATTAGTCT
* * *
34224579 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCAGATCA
1 TATCTCCCTAAGCAGCAGTGGAATAGGTTGAAGATTGCAGATCC
* * * * * * ** *
34224623 TGTCTCCCTAAGCAGTAGCGGAGTAGATCGAAGACGGC-GAATCT
1 TATCTCCCTAAGCAGCAGTGGAATAGGTTGAAGATTGCAG-ATCC
* *
34224667 TATCTTCCC-AAG-A-TAGTGGAGA-AGCAGATTTAAGACATT--AG-TCC
1 TATC-TCCCTAAGCAGCAGTGGA-ATAG--G-TTGAAG--ATTGCAGATCC
**
34224711 TATCTCCCCGAGCAGCAGTGGAATAGGTTGAAGATTGCAGATCC
1 TATCTCCCTAAGCAGCAGTGGAATAGGTTGAAGATTGCAGATCC
* * * * * * ** *
34224755 TGTCTCCCTAAGCAGTAGCGGAGTAGATCGAAGACGGC-GAATCT
1 TATCTCCCTAAGCAGCAGTGGAATAGGTTGAAGATTGCAG-ATCC
* *
34224799 TATCTTCCC-AAG-A-TAGTGGAGA-AGCAGATTAAAGCCATT--AG-TCC
1 TATC-TCCCTAAGCAGCAGTGGA-ATAG--G-TTGAAG--ATTGCAGATCC
* * *
34224843 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCC
1 TATCTCCCTAAGCAGCAGTGGAATAGGTTGAAGATTGCAGATCC
*
34224887 TGTCTCCCTAAGCAG
1 TATCTCCCTAAGCAG
34224902 TAGCGGAGCA
Statistics
Matches: 200, Mismatches: 47, Indels: 64
0.64 0.15 0.21
Matches are distributed among these distances:
41 6 0.03
42 16 0.08
43 26 0.13
44 113 0.56
45 19 0.09
46 18 0.09
47 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.24
Consensus pattern (44 bp):
TATCTCCCTAAGCAGCAGTGGAATAGGTTGAAGATTGCAGATCC
Found at i:34226654 original size:3 final size:3
Alignment explanation
Indices: 34226641--34226680 Score: 62
Period size: 3 Copynumber: 13.0 Consensus size: 3
34226631 ATAATAATAA
*
34226641 TAT TAT CAT TAT TAT TAT TAT TAAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT
34226681 ATTTTTATGA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
3 31 0.91
4 3 0.09
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:34226669 original size:16 final size:16
Alignment explanation
Indices: 34226648--34226679 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
34226638 TAATATTATC
34226648 ATTATTATTATTATTA
1 ATTATTATTATTATTA
34226664 ATTATTATTATTATTA
1 ATTATTATTATTATTA
34226680 TATTTTTATG
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:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
ATTATTATTATTATTA
Found at i:34226688 original size:8 final size:8
Alignment explanation
Indices: 34226641--34226688 Score: 53
Period size: 9 Copynumber: 5.8 Consensus size: 8
34226631 ATAATAATAA
34226641 TATTATCAT
1 TATTAT-AT
34226650 TATTATTAT
1 TATTA-TAT
34226659 TATTA-AT
1 TATTATAT
34226666 TATTATTAT
1 TATTA-TAT
34226675 TATTATAT
1 TATTATAT
*
34226683 TTTTAT
1 TATTAT
34226689 GACGATTTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
7 7 0.20
8 8 0.23
9 19 0.54
10 1 0.03
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (8 bp):
TATTATAT
Found at i:34227995 original size:10 final size:10
Alignment explanation
Indices: 34227964--34228012 Score: 57
Period size: 10 Copynumber: 5.0 Consensus size: 10
34227954 AGAAATTTAT
34227964 TTAAAAATTA
1 TTAAAAATTA
34227974 -TAAAGAATTA
1 TTAAA-AATTA
34227984 TTAAAAATTA
1 TTAAAAATTA
*
34227994 TT-AAATTTA
1 TTAAAAATTA
*
34228003 TTAAGAATTA
1 TTAAAAATTA
34228013 ATGAATATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
9 12 0.36
10 17 0.52
11 4 0.12
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (10 bp):
TTAAAAATTA
Found at i:34228005 original size:9 final size:9
Alignment explanation
Indices: 34227940--34228012 Score: 51
Period size: 10 Copynumber: 7.6 Consensus size: 9
34227930 GTTTTTTTTT
34227940 AATTATTAA
1 AATTATTAA
34227949 AA-TA-TAGA
1 AATTATTA-A
34227957 AATTTATTTAAA
1 AA-TTA-TT-AA
*
34227969 AATTATAAA
1 AATTATTAA
34227978 GAATTATTAAA
1 -AATTATT-AA
34227989 AATTATTAA
1 AATTATTAA
*
34227998 ATTTATTAA
1 AATTATTAA
34228007 GAATTA
1 -AATTA
34228013 ATGAATATTT
Statistics
Matches: 51, Mismatches: 4, Indels: 17
0.71 0.06 0.24
Matches are distributed among these distances:
7 2 0.04
8 5 0.10
9 14 0.27
10 20 0.39
11 5 0.10
12 4 0.08
13 1 0.02
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (9 bp):
AATTATTAA
Found at i:34228583 original size:19 final size:19
Alignment explanation
Indices: 34228559--34228597 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
34228549 GTTGCATTTA
*
34228559 ATAATTTTTAATGATTTTT
1 ATAATTTTTAATAATTTTT
34228578 ATAATTTTTAATAATTTTT
1 ATAATTTTTAATAATTTTT
34228597 A
1 A
34228598 AATAATTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (19 bp):
ATAATTTTTAATAATTTTT
Found at i:34228594 original size:29 final size:31
Alignment explanation
Indices: 34228555--34228614 Score: 97
Period size: 29 Copynumber: 2.0 Consensus size: 31
34228545 GGACGTTGCA
*
34228555 TTTAATAATTTTT-AATGATTTT-TATAATT
1 TTTAATAATTTTTAAATAATTTTCTATAATT
34228584 TTTAATAATTTTTAAATAATTTTCTATAATT
1 TTTAATAATTTTTAAATAATTTTCTATAATT
34228615 ATTTTAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 13 0.46
30 8 0.29
31 7 0.25
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.60
Consensus pattern (31 bp):
TTTAATAATTTTTAAATAATTTTCTATAATT
Found at i:34228614 original size:10 final size:10
Alignment explanation
Indices: 34228555--34228606 Score: 79
Period size: 10 Copynumber: 5.2 Consensus size: 10
34228545 GGACGTTGCA
34228555 TTTAATAATT
1 TTTAATAATT
*
34228565 TTTAATGATT
1 TTTAATAATT
34228575 TTT-ATAATT
1 TTTAATAATT
34228584 TTTAATAATT
1 TTTAATAATT
34228594 TTTAAATAATT
1 TTT-AATAATT
34228605 TT
1 TT
34228607 CTATAATTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
9 8 0.21
10 21 0.55
11 9 0.24
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (10 bp):
TTTAATAATT
Found at i:34246265 original size:3 final size:3
Alignment explanation
Indices: 34246257--34246283 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
34246247 CATGGATGGG
34246257 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
34246284 TAAGATCAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:34246790 original size:31 final size:29
Alignment explanation
Indices: 34246722--34246793 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 29
34246712 CTCAGGTTAG
*
34246722 ATTTTAGTCACTTATATTTGAAATGTTAT
1 ATTTTAGTCACTTATATTTGAAATGTAAT
* ***
34246751 GTTTTAGTCACTTATATTATCGTGTTGTAAT
1 ATTTTAGTCACTTATATT-T-GAAATGTAAT
34246782 ATTTTAGTCACT
1 ATTTTAGTCACT
34246794 GAGTCGTTAA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
29 17 0.49
30 1 0.03
31 17 0.49
ACGTcount: A:0.26, C:0.10, G:0.12, T:0.51
Consensus pattern (29 bp):
ATTTTAGTCACTTATATTTGAAATGTAAT
Found at i:34246995 original size:14 final size:14
Alignment explanation
Indices: 34246976--34247006 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
34246966 CTTCTTTTTA
34246976 TTATTCAAAAATGC
1 TTATTCAAAAATGC
34246990 TTATTCAAAAATGC
1 TTATTCAAAAATGC
34247004 TTA
1 TTA
34247007 GTTTTAACCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.42, C:0.13, G:0.06, T:0.39
Consensus pattern (14 bp):
TTATTCAAAAATGC
Found at i:34252137 original size:14 final size:14
Alignment explanation
Indices: 34252118--34252148 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
34252108 CTTCTTTTTA
34252118 TTATTCAAAAATGC
1 TTATTCAAAAATGC
34252132 TTATTCAAAAATGC
1 TTATTCAAAAATGC
34252146 TTA
1 TTA
34252149 GTTTTAACCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.42, C:0.13, G:0.06, T:0.39
Consensus pattern (14 bp):
TTATTCAAAAATGC
Found at i:34253030 original size:23 final size:23
Alignment explanation
Indices: 34253004--34253049 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
34252994 AAAGAATTCA
34253004 ATTTATGTTTAGATTTGATTAAG
1 ATTTATGTTTAGATTTGATTAAG
34253027 ATTTATGTTTAGATTTGATTAAG
1 ATTTATGTTTAGATTTGATTAAG
34253050 CATATGATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.00, G:0.17, T:0.52
Consensus pattern (23 bp):
ATTTATGTTTAGATTTGATTAAG
Found at i:34255284 original size:33 final size:36
Alignment explanation
Indices: 34255207--34255282 Score: 125
Period size: 36 Copynumber: 2.1 Consensus size: 36
34255197 TCTGTAAGAA
* *
34255207 ATTATTAATAATATTTTTAAATTATAATATATTAAT
1 ATTATTAATAATAGTTTTAAACTATAATATATTAAT
*
34255243 ATTATTAATAATAGTTTTAAACTATAATGTATTAAT
1 ATTATTAATAATAGTTTTAAACTATAATATATTAAT
34255279 ATTA
1 ATTA
34255283 ATATTTATAC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.50
Consensus pattern (36 bp):
ATTATTAATAATAGTTTTAAACTATAATATATTAAT
Found at i:34256438 original size:16 final size:15
Alignment explanation
Indices: 34256389--34256440 Score: 50
Period size: 16 Copynumber: 3.3 Consensus size: 15
34256379 AATTACATAT
* *
34256389 ATTTTTTATCTTTTT
1 ATTTTTCATCTTTTA
* *
34256404 ATTTTTCCATCCTTCA
1 ATTTTT-CATCTTTTA
34256420 ATTTTTCATCATTTTA
1 ATTTTTCATC-TTTTA
34256436 ATTTT
1 ATTTT
34256441 CTTTTCACTC
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
15 10 0.34
16 19 0.66
ACGTcount: A:0.19, C:0.15, G:0.00, T:0.65
Consensus pattern (15 bp):
ATTTTTCATCTTTTA
Found at i:34265099 original size:6 final size:6
Alignment explanation
Indices: 34265088--34265129 Score: 84
Period size: 6 Copynumber: 7.0 Consensus size: 6
34265078 GTAGGTTAGT
34265088 TGTAAA TGTAAA TGTAAA TGTAAA TGTAAA TGTAAA TGTAAA
1 TGTAAA TGTAAA TGTAAA TGTAAA TGTAAA TGTAAA TGTAAA
34265130 AATAAAAATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.17, T:0.33
Consensus pattern (6 bp):
TGTAAA
Found at i:34265135 original size:18 final size:18
Alignment explanation
Indices: 34265096--34265135 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
34265086 GTTGTAAATG
**
34265096 TAAATGTAAATGTAAATG
1 TAAATGTAAATGTAAAAA
34265114 TAAATGTAAATGTAAAAA
1 TAAATGTAAATGTAAAAA
34265132 TAAA
1 TAAA
34265136 AATAAAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.57, C:0.00, G:0.12, T:0.30
Consensus pattern (18 bp):
TAAATGTAAATGTAAAAA
Found at i:34268783 original size:105 final size:105
Alignment explanation
Indices: 34268610--34269283 Score: 751
Period size: 105 Copynumber: 6.4 Consensus size: 105
34268600 GTCAGTTAAT
* * * * * *
34268610 TGTTTAAGAATTGCGATCTTGAATCAGCTAACTCAAAGAAATTTAGGTTGCGATCTTAAATCAAC
1 TGTTTAGGAGTTGCGATATTAAATCAGCTAACTCAAAGAAATTTAGGTTACGATATTAAATCAAC
* * *
34268675 TAACCTTTATAATTCCAACTGTGAACGTAGGTCAGGGAGC
66 TAACCTTTATAATTCCAGCTGTGAATGTAGGTCAGCGAGC
* * * *
34268715 TGTTTAGGAGTTGCAATATTAAATCAGCTAACTCAAAGAAATTTAGGTTATGATCTTAAATCAGC
1 TGTTTAGGAGTTGCGATATTAAATCAGCTAACTCAAAGAAATTTAGGTTACGATATTAAATCAAC
* * *
34268780 TAACCTTTATAATTCCAGCAGTGAATGTAGGTTAGCGAGT
66 TAACCTTTATAATTCCAGCTGTGAATGTAGGTCAGCGAGC
* * * ** * * *
34268820 TGTTTAAGAGTTGCGATATTAAATCAGCTAACTTAACGAAATTTAGGTTGTGATCTTAAATTAGC
1 TGTTTAGGAGTTGCGATATTAAATCAGCTAACTCAAAGAAATTTAGGTTACGATATTAAATCAAC
* * *** *
34268885 TAACTTTTATAATTCCAGTTGTGAAAACAGGTTAGCGAGC
66 TAACCTTTATAATTCCAGCTGTGAATGTAGGTCAGCGAGC
* * * * *
34268925 TGTTTAGAAGTTGCGATCTTAAA-CTAGCTAACTCAAAGAAAATTGGGTTGCGATATTAAATCAA
1 TGTTTAGGAGTTGCGATATTAAATC-AGCTAACTCAAAGAAATTTAGGTTACGATATTAAATCAA
* * * *
34268989 CTAACTTTTATAATTCCAGTTGTGAACGTAGGTCTGCGAGC
65 CTAACCTTTATAATTCCAGCTGTGAATGTAGGTCAGCGAGC
* * * * * *
34269030 TGTTTAGGAGTTGTGATATTAAATTAGCTAACTCAAAGAAATTTAGGCTATGATATTAAATGAAT
1 TGTTTAGGAGTTGCGATATTAAATCAGCTAACTCAAAGAAATTTAGGTTACGATATTAAATCAAC
* * * *
34269095 TAACCTTTATAATTCCAACTGTAAATATAGGTCAGCAAGC
66 TAACCTTTATAATTCCAGCTGTGAATGTAGGTCAGCGAGC
* * * * * **
34269135 TATTTAGGAGTTGTGATCTTAAATCAACTAACTC--TGAAATTTAGGTTACGATATTAAATCAGG
1 TGTTTAGGAGTTGCGATATTAAATCAGCTAACTCAAAGAAATTTAGGTTACGATATTAAATCAAC
* * *
34269198 TAACCTTTATAATTCTAGTTGTGAATGTAGGTCAGTGAGC
66 TAACCTTTATAATTCCAGCTGTGAATGTAGGTCAGCGAGC
* ** *
34269238 TGTTTAGAAGTTATGATCTTAAATCAGCTAACTCAAAGAAATTTAG
1 TGTTTAGGAGTTGCGATATTAAATCAGCTAACTCAAAGAAATTTAG
34269284 ACATGAAAAT
Statistics
Matches: 481, Mismatches: 84, Indels: 8
0.84 0.15 0.01
Matches are distributed among these distances:
103 86 0.18
104 1 0.00
105 394 0.82
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.34
Consensus pattern (105 bp):
TGTTTAGGAGTTGCGATATTAAATCAGCTAACTCAAAGAAATTTAGGTTACGATATTAAATCAAC
TAACCTTTATAATTCCAGCTGTGAATGTAGGTCAGCGAGC
Found at i:34283235 original size:2 final size:2
Alignment explanation
Indices: 34283228--34283260 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
34283218 AATAATACTA
*
34283228 AT AT AT AT AT AT AT AT AT AT GT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
34283261 GGATTTGGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:34293386 original size:20 final size:20
Alignment explanation
Indices: 34293336--34293387 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
34293326 CATATTAGTG
*
34293336 CCCCTGTTTGTACTTCAGTA
1 CCCCTATTTGTACTTCAGTA
* *
34293356 CCCC-AGCTTGTACTTCGGTA
1 CCCCTA-TTTGTACTTCAGTA
34293376 CCCCTATTTGTA
1 CCCCTATTTGTA
34293388 ACAGCCCATT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
20 25 0.96
21 1 0.04
ACGTcount: A:0.15, C:0.33, G:0.15, T:0.37
Consensus pattern (20 bp):
CCCCTATTTGTACTTCAGTA
Found at i:34294716 original size:25 final size:25
Alignment explanation
Indices: 34294686--34294779 Score: 86
Period size: 25 Copynumber: 3.8 Consensus size: 25
34294676 GTCCCGACCC
34294686 ACAGCTCGTATGAGCATACTGATTT
1 ACAGCTCGTATGAGCATACTGATTT
* *
34294711 ATAGCTCGTGA-GAGCATATTGATCTT
1 ACAGCTCGT-ATGAGCATACTGAT-TT
* * *
34294737 -CAGCTCG-AGTGAGCATACCGGTTC
1 ACAGCTCGTA-TGAGCATACTGATTT
*
34294761 ACAGCTCATATGAGCATAC
1 ACAGCTCGTATGAGCATAC
34294780 ATGTACATAA
Statistics
Matches: 55, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
23 1 0.02
24 1 0.02
25 49 0.89
26 4 0.07
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (25 bp):
ACAGCTCGTATGAGCATACTGATTT
Found at i:34301173 original size:25 final size:25
Alignment explanation
Indices: 34301147--34301238 Score: 100
Period size: 25 Copynumber: 3.7 Consensus size: 25
34301137 CCCGACCCAT
*
34301147 AGCTCGTATGAGCATACCGATTTAT
1 AGCTCGTATGAGCATACCGATTTAC
* *
34301172 AGCTCATGA-GAGCATATCGATCTT-C
1 AGCTCGT-ATGAGCATACCGAT-TTAC
*
34301197 AGCTCG-AGTGAGCATACCGATTCAC
1 AGCTCGTA-TGAGCATACCGATTTAC
34301222 AGCTCGTATGAGCATAC
1 AGCTCGTATGAGCATAC
34301239 ATGTACATAA
Statistics
Matches: 55, Mismatches: 6, Indels: 12
0.75 0.08 0.16
Matches are distributed among these distances:
23 1 0.02
24 1 0.02
25 49 0.89
26 4 0.07
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (25 bp):
AGCTCGTATGAGCATACCGATTTAC
Found at i:34302912 original size:20 final size:20
Alignment explanation
Indices: 34302872--34302956 Score: 125
Period size: 20 Copynumber: 4.2 Consensus size: 20
34302862 TGTTACACTG
34302872 TTTGTACTTCGGTACCCCCTA
1 TTTGTACTTCGGTA-CCCCTA
* *
34302893 TTTGTTCTTCGATACCCCTA
1 TTTGTACTTCGGTACCCCTA
*
34302913 ATTGTACTTCGGTACCCCTA
1 TTTGTACTTCGGTACCCCTA
*
34302933 TTTGTACTTCGGTACCCCTG
1 TTTGTACTTCGGTACCCCTA
34302953 TTTG
1 TTTG
34302957 CACATTCGTG
Statistics
Matches: 57, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
20 45 0.79
21 12 0.21
ACGTcount: A:0.14, C:0.29, G:0.15, T:0.41
Consensus pattern (20 bp):
TTTGTACTTCGGTACCCCTA
Found at i:34311938 original size:15 final size:15
Alignment explanation
Indices: 34311918--34311949 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
34311908 AATAATTTCT
34311918 AAAAAAATGTATATG
1 AAAAAAATGTATATG
34311933 AAAAAAATGTATATG
1 AAAAAAATGTATATG
34311948 AA
1 AA
34311950 TTAGAAAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.62, C:0.00, G:0.12, T:0.25
Consensus pattern (15 bp):
AAAAAAATGTATATG
Found at i:34332057 original size:12 final size:12
Alignment explanation
Indices: 34332040--34332065 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
34332030 TTTTTTATCC
34332040 AAACGCCGCTAA
1 AAACGCCGCTAA
34332052 AAACGCCGCTAA
1 AAACGCCGCTAA
34332064 AA
1 AA
34332066 GCCTGTTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.31, G:0.15, T:0.08
Consensus pattern (12 bp):
AAACGCCGCTAA
Found at i:34333514 original size:44 final size:44
Alignment explanation
Indices: 34333457--34334002 Score: 280
Period size: 44 Copynumber: 12.3 Consensus size: 44
34333447 GAAAGATAAT
* *
34333457 AGATCTTGTCTTCATGTATTGGCGTAAAGTAGATCAAGGAAAGC
1 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGAAAGC
**
34333501 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGAAAAT
1 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGAAAGC
* * * *
34333545 AGATATTATCTTCATGTACTGGCGTGAAGTAGATCAAAGATAGC
1 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGAAAGC
* * * * * * * * * * *
34333589 AGGTCCTGTCTTCCTATATCGGTAGCGAAGTGGATCGAATATA-C
1 AGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCAAAGAAAGC
* * * *** * * *
34333633 AAATTTTATCTTCCCATACTGGTGGTGAAGTAGATCGGAA-AAAGC
1 AGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATC-AAAGAAAGC
** *
34333678 AGATAGTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAA-C
1 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGA-AAGC
* * * *** * * * * *
34333722 AAATCTCGCCTTCCCATACTGGTGGCGAAGCAGATCGAAGGAATA-C
1 AGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATC-AAAGAA-AGC
* * * *
34333768 AGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCGAATATA-C
1 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGAAAGC
* * *** * * *
34333811 AGATCTCGCCTTCCCATACTGGTG-GCAAAGTAGATCGAAAGAAAAAC
1 AGATCTTGTCTTCATGTATTGGCGTG--AAGTAGATC-AAAG-AAAGC
* *
34333858 AGATCTTGTCTTCATGTACTGGTGTGAAGTAGATCAAAGAAA-C
1 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGAAAGC
* *** * * * **
34333901 AGATCTTGTCTCCCCATACTGGTGGTGGAA-TAGATCGAAGAAAAT
1 AGATCTTGTCTTCATGTATTGG-CGT-GAAGTAGATCAAAGAAAGC
* * * *
34333946 AGATATTATCTTCATGTACTGGCGTGAAGTAGATCAAAGATAGC
1 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGAAAGC
* *
34333990 AGGTCCTGTCTTC
1 AGATCTTGTCTTC
34334003 CTATATCGGT
Statistics
Matches: 379, Mismatches: 105, Indels: 36
0.73 0.20 0.07
Matches are distributed among these distances:
42 1 0.00
43 44 0.12
44 198 0.52
45 82 0.22
46 33 0.09
47 20 0.05
48 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (44 bp):
AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGAAAGC
Found at i:34333694 original size:133 final size:132
Alignment explanation
Indices: 34333524--34334034 Score: 437
Period size: 133 Copynumber: 3.8 Consensus size: 132
34333514 ATGTATTGGC
* * * * *
34333524 GTGAAGTAGATCAAAGAAAATAGATATTATCTTCATGTACTGGCGTGAAGTAGATCAAAGATAGC
1 GTGAAGTAGATCGAAG-AAACAGATACTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAAC
* * * * *
34333589 AGGTCCTGTCTTCCTATA-TCGGTAGCGAAGTGGATCGAATATACAAATTTTATCTTCCCATACT
65 AGATCCTGTCTTCCTATACT-GGTAGCGAAGTAGATCGAATATACAGATCTTGTCTTCCCATACT
34333653 GGTG
129 GGTG
*
34333657 GTGAAGTAGATCGGAA-AAAGCAGATAGTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAA
1 GTGAAGTAGATC-GAAGAAA-CAGATACTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAA
* * * * * * ***
34333721 CAAAT-CTCGCCTTCCCATACTGGTGGCGAAGCAGATCGAAGGAATACAGATCTTGTCTTCATGT
64 CAGATCCT-GTCTTCCTATACTGGTAGCGAAGTAGATCGAA--TATACAGATCTTGTCTTCCCAT
*
34333785 ACTGG-C
126 ACTGGTG
* * * *** *
34333791 GTGAAGTAGATCGAATATACAGAT-CTCGCCTTCCCATACTGGTG-GCAAAGTAGATCGAAAGAA
1 GTGAAGTAGATCGAAGAAACAGATACT-GTCTTCATGTACTGGCGTG--AAGTAGATC-AAAG-A
* * * * * * * * *
34333854 AAACAGATCTTGTCTTCATGTACTGGT-GTGAAGTAGATCAAAGAAACAGATCTTGTCTCCCCAT
61 TAACAGATCCTGTCTTCCTATACTGGTAGCGAAGTAGATCGAATATACAGATCTTGTCTTCCCAT
34333918 ACTGGTG
126 ACTGGTG
* * * *
34333925 GTGGAA-TAGATCGAAGAAAATAGATATTATCTTCATGTACTGGCGTGAAGTAGATCAAAGATAG
1 GT-GAAGTAGATCGAAG-AAACAGATACTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAA
* *
34333989 CAGGTCCTGTCTTCCTATA-TCGGTAGCGAAGTGGATCGAATATACA
64 CAGATCCTGTCTTCCTATACT-GGTAGCGAAGTAGATCGAATATACA
34334035 NNNNNNNNNN
Statistics
Matches: 293, Mismatches: 65, Indels: 40
0.74 0.16 0.10
Matches are distributed among these distances:
131 1 0.00
132 27 0.09
133 141 0.48
134 46 0.16
135 56 0.19
136 21 0.07
137 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.27
Consensus pattern (132 bp):
GTGAAGTAGATCGAAGAAACAGATACTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACA
GATCCTGTCTTCCTATACTGGTAGCGAAGTAGATCGAATATACAGATCTTGTCTTCCCATACTGG
TG
Found at i:34333796 original size:90 final size:89
Alignment explanation
Indices: 34333642--34333987 Score: 457
Period size: 90 Copynumber: 3.9 Consensus size: 89
34333632 CAAATTTTAT
* * *
34333642 CTTCCCATACTGGTGGTGAAGTAGATCGGAA-AAAGCAGATAGTGTCTTCATGTACTGGCGTGAA
1 CTTCCCATACTGGTGGCGAAGTAGATC-GAAGAAAACAGATATTGTCTTCATGTACTGGCGTGAA
*
34333706 GTAGATCAAAGATAACAAATCTCGC
65 GTAGATCAAAGATAACAGATCTCGC
* * *
34333731 CTTCCCATACTGGTGGCGAAGCAGATCGAAGGAATACAGATCTTGTCTTCATGTACTGGCGTGAA
1 CTTCCCATACTGGTGGCGAAGTAGATCGAA-GAAAACAGATATTGTCTTCATGTACTGGCGTGAA
* *
34333796 GTAGATCGAATAT-ACAGATCTCGC
65 GTAGATCAAAGATAACAGATCTCGC
* * *
34333820 CTTCCCATACTGGTGGCAAAGTAGATCGAAAGAAAAACAGATCTTGTCTTCATGTACTGGTGTGA
1 CTTCCCATACTGGTGGCGAAGTAGATCG-AAG-AAAACAGATATTGTCTTCATGTACTGGCGTGA
* *
34333885 AGTAGATCAAAGA-AACAGATCTTGT
64 AGTAGATCAAAGATAACAGATCTCGC
* * * *
34333910 CTCCCCATACTGGTGGTGGAA-TAGATCGAAGAAAATAGATATTATCTTCATGTACTGGCGTGAA
1 CTTCCCATACTGGTGG-CGAAGTAGATCGAAGAAAACAGATATTGTCTTCATGTACTGGCGTGAA
34333974 GTAGATCAAAGATA
65 GTAGATCAAAGATA
34333988 GCAGGTCCTG
Statistics
Matches: 226, Mismatches: 24, Indels: 14
0.86 0.09 0.05
Matches are distributed among these distances:
88 44 0.19
89 66 0.29
90 114 0.50
91 2 0.01
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (89 bp):
CTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAACAGATATTGTCTTCATGTACTGGCGTGAAG
TAGATCAAAGATAACAGATCTCGC
Found at i:34333960 original size:178 final size:178
Alignment explanation
Indices: 34333615--34333980 Score: 479
Period size: 178 Copynumber: 2.1 Consensus size: 178
34333605 TATCGGTAGC
* * * * **
34333615 GAAGTGGATCGAATATACAAATTTTATCTTCCCATACTGGTGGTGAAGTAGATCGGAAAAAGCAG
1 GAAGTAGATCGAATATACAAATCTCACCTTCCCATACTGGTGGCAAAGTAGATCGGAAAAAGCAG
*
34333680 ATAGTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAAATCTCGCCTTCCCATACTGGT
66 ATAGTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAAATCTCGCCTCCCCATACTGGT
* * *
34333745 GGCGAAGCAGATCGAAGGAATACAGATCTTGTCTTCATGTACTGGCGT
131 GGCGAAGCAGATCGAAGGAAAACAGATATTATCTTCATGTACTGGCGT
* *
34333793 GAAGTAGATCGAATATACAGATCTCGCCTTCCCATACTGGTGGCAAAGTAGATCGAAAGAAAAA-
1 GAAGTAGATCGAATATACAAATCTCACCTTCCCATACTGGTGGCAAAGTAGATCG---GAAAAAG
** * * * *
34333857 CAGATCTTGTCTTCATGTACTGGTGTGAAGTAGATCAAAGA-AACAGATCTTGTCTCCCCATACT
63 CAGATAGTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAAATCTCGCCTCCCCATACT
* * *
34333921 GGTGGTGGAA-TAGATCGAA-GAAAATAGATATTATCTTCATGTACTGGCGT
128 GGTGG-CGAAGCAGATCGAAGGAAAACAGATATTATCTTCATGTACTGGCGT
34333971 GAAGTAGATC
1 GAAGTAGATC
34333981 AAAGATAGCA
Statistics
Matches: 163, Mismatches: 21, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
178 84 0.52
179 32 0.20
180 41 0.25
181 6 0.04
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.27
Consensus pattern (178 bp):
GAAGTAGATCGAATATACAAATCTCACCTTCCCATACTGGTGGCAAAGTAGATCGGAAAAAGCAG
ATAGTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAAATCTCGCCTCCCCATACTGGT
GGCGAAGCAGATCGAAGGAAAACAGATATTATCTTCATGTACTGGCGT
Found at i:34340837 original size:29 final size:29
Alignment explanation
Indices: 34340800--34340879 Score: 90
Period size: 29 Copynumber: 2.8 Consensus size: 29
34340790 TCAGAGTCTC
* *
34340800 ACCACAAAGGCATTCTTTTAATAAAGATA
1 ACCACAAAGGCATCCTTTTAACAAAGATA
* * *
34340829 ACCATAAAGGTATCCTTTTAACAGAGATA
1 ACCACAAAGGCATCCTTTTAACAAAGATA
* *
34340858 GCCACAAAGGC-TCCATTTAACA
1 ACCACAAAGGCATCCTTTTAACA
34340880 GAGTTAGCCA
Statistics
Matches: 42, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
28 10 0.24
29 32 0.76
ACGTcount: A:0.41, C:0.21, G:0.12, T:0.25
Consensus pattern (29 bp):
ACCACAAAGGCATCCTTTTAACAAAGATA
Found at i:34340882 original size:28 final size:28
Alignment explanation
Indices: 34340805--34340982 Score: 155
Period size: 28 Copynumber: 6.2 Consensus size: 28
34340795 GTCTCACCAC
* * * *
34340805 AAAGGCATTCTTTTAATAAAGATAACCAT
1 AAAGGC-TTCCTTTAACAGAGATAGCCAT
*
34340834 AAAGG-TATCCTTTTAACAGAGATAGCCAC
1 AAAGGCT-TCC-TTTAACAGAGATAGCCAT
*
34340863 AAAGGC-TCCATTTAACAGAGTTAGCCAT
1 AAAGGCTTCC-TTTAACAGAGATAGCCAT
* * * **
34340891 AAATGCTTCCTTTAACAGAAATCGTTAT
1 AAAGGCTTCCTTTAACAGAGATAGCCAT
* * *
34340919 AAAGGCTTTCTTTTAACAGAAACAGCCAT
1 AAAGGC-TTCCTTTAACAGAGATAGCCAT
34340948 AAAGGCTTCCTTTAACA-AGGATAGCCAT
1 AAAGGCTTCCTTTAACAGA-GATAGCCAT
34340976 AAAGGCT
1 AAAGGCT
34340983 CACATTTAGG
Statistics
Matches: 120, Mismatches: 23, Indels: 13
0.77 0.15 0.08
Matches are distributed among these distances:
27 2 0.02
28 68 0.57
29 50 0.42
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.28
Consensus pattern (28 bp):
AAAGGCTTCCTTTAACAGAGATAGCCAT
Found at i:34340891 original size:57 final size:55
Alignment explanation
Indices: 34340830--34340990 Score: 153
Period size: 57 Copynumber: 2.8 Consensus size: 55
34340820 ATAAAGATAA
* ***
34340830 CCATAAAGGTATCCTTTTAACAGAGATAGCCACAAAGGCTCCATTTAACAGAGTTAG
1 CCATAAAGGT-TCC-TTTAACAGAGATAGCCATAAAGGCTCCATTTAACAGAAACAG
* * * ** * *
34340887 CCATAAATGCTTCCTTTAACAGAAATCGTTATAAAGGCTTTCTTTTAACAGAAACAG
1 CCATAAA-GGTTCCTTTAACAGAGATAGCCATAAAGGC-TCCATTTAACAGAAACAG
34340944 CCATAAAGGCTTCCTTTAACA-AGGATAGCCATAAAGGCTCACATTTA
1 CCATAAAGG-TTCCTTTAACAGA-GATAGCCATAAAGGCTC-CATTTA
34340991 GGGAAATTGC
Statistics
Matches: 81, Mismatches: 18, Indels: 10
0.74 0.17 0.09
Matches are distributed among these distances:
56 22 0.27
57 57 0.70
58 2 0.02
ACGTcount: A:0.37, C:0.21, G:0.15, T:0.27
Consensus pattern (55 bp):
CCATAAAGGTTCCTTTAACAGAGATAGCCATAAAGGCTCCATTTAACAGAAACAG
Found at i:34343471 original size:9 final size:8
Alignment explanation
Indices: 34343455--34343480 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
34343445 TTTTAATTTC
34343455 TATTTTTT
1 TATTTTTT
34343463 TATTTTTT
1 TATTTTTT
34343471 TATTTTTT
1 TATTTTTT
34343479 TA
1 TA
34343481 GAGTAAGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (8 bp):
TATTTTTT
Found at i:34352886 original size:145 final size:145
Alignment explanation
Indices: 34352623--34352912 Score: 580
Period size: 145 Copynumber: 2.0 Consensus size: 145
34352613 ATCCCTCGAT
34352623 TATTGTGAGAATCGTAACAGAAGAGAGATTGCTCTTTTTGCAGGTGCCTAAGAAGGTAAATGGCG
1 TATTGTGAGAATCGTAACAGAAGAGAGATTGCTCTTTTTGCAGGTGCCTAAGAAGGTAAATGGCG
34352688 ATGCGGACACTCTAGCCAAGGCCGGTAGTTCTGTTGGTCAAGATATTATTTTGATTCTGTAATCC
66 ATGCGGACACTCTAGCCAAGGCCGGTAGTTCTGTTGGTCAAGATATTATTTTGATTCTGTAATCC
34352753 TTTTTTGTTGTCCGA
131 TTTTTTGTTGTCCGA
34352768 TATTGTGAGAATCGTAACAGAAGAGAGATTGCTCTTTTTGCAGGTGCCTAAGAAGGTAAATGGCG
1 TATTGTGAGAATCGTAACAGAAGAGAGATTGCTCTTTTTGCAGGTGCCTAAGAAGGTAAATGGCG
34352833 ATGCGGACACTCTAGCCAAGGCCGGTAGTTCTGTTGGTCAAGATATTATTTTGATTCTGTAATCC
66 ATGCGGACACTCTAGCCAAGGCCGGTAGTTCTGTTGGTCAAGATATTATTTTGATTCTGTAATCC
34352898 TTTTTTGTTGTCCGA
131 TTTTTTGTTGTCCGA
34352913 AACTCATTGT
Statistics
Matches: 145, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
145 145 1.00
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.34
Consensus pattern (145 bp):
TATTGTGAGAATCGTAACAGAAGAGAGATTGCTCTTTTTGCAGGTGCCTAAGAAGGTAAATGGCG
ATGCGGACACTCTAGCCAAGGCCGGTAGTTCTGTTGGTCAAGATATTATTTTGATTCTGTAATCC
TTTTTTGTTGTCCGA
Found at i:34352973 original size:36 final size:36
Alignment explanation
Indices: 34352926--34353087 Score: 306
Period size: 36 Copynumber: 4.5 Consensus size: 36
34352916 TCATTGTTTT
34352926 GTGCATGAGGGACTGTTTCGCTACTTTGGTAGTTGG
1 GTGCATGAGGGACTGTTTCGCTACTTTGGTAGTTGG
34352962 GTGCATGAGGGACTGTTTCGCTACTTTGGTAGTTGG
1 GTGCATGAGGGACTGTTTCGCTACTTTGGTAGTTGG
34352998 GTGCATGAGGGACTGTTTCGCTACTTTGGTAGTTGG
1 GTGCATGAGGGACTGTTTCGCTACTTTGGTAGTTGG
34353034 GTGCATGAGGGACTGTTTCGCTACTTTGGTAGTTGG
1 GTGCATGAGGGACTGTTTCGCTACTTTGGTAGTTGG
* *
34353070 GTGCATGAAGAACTGTTT
1 GTGCATGAGGGACTGTTT
34353088 TACTATTTTT
Statistics
Matches: 124, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 124 1.00
ACGTcount: A:0.15, C:0.14, G:0.35, T:0.36
Consensus pattern (36 bp):
GTGCATGAGGGACTGTTTCGCTACTTTGGTAGTTGG
Found at i:34355668 original size:136 final size:137
Alignment explanation
Indices: 34355506--34355778 Score: 539
Period size: 136 Copynumber: 2.0 Consensus size: 137
34355496 GGCATTGTGT
34355506 CAAAAAAATATTTTAAAAAATATAGATAATATATTATTTAACAAAAATATAATTTTAATAAATGT
1 CAAAAAAATATTTTAAAAAATATAGATAATATATTATTTAACAAAAATATAATTTTAATAAATGT
34355571 TTTAAATGGTTATTTTATACTTTCACCTCGTCATTCTGCTGTAATTTTTTTTTTTTTTGGA-AAG
66 TTTAAATGGTTATTTTATACTTTCACCTCGTCATTCTGCTGTAATTTTTTTTTTTTTTGGATAAG
34355635 TTGATAA
131 TTGATAA
34355642 CAAAAAAATATTTTAAAAAATATAGATAATATATTATTTAACAAAAATATAATTTTAATAAATGT
1 CAAAAAAATATTTTAAAAAATATAGATAATATATTATTTAACAAAAATATAATTTTAATAAATGT
34355707 TTTAAATGGTTATTTTATACTTTCACCTCGTCATTCTGCTGTAATTTTTTTTTTTTTTGGATAAG
66 TTTAAATGGTTATTTTATACTTTCACCTCGTCATTCTGCTGTAATTTTTTTTTTTTTTGGATAAG
34355772 TTGATAA
131 TTGATAA
34355779 AAACATAATA
Statistics
Matches: 136, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
136 126 0.93
137 10 0.07
ACGTcount: A:0.39, C:0.07, G:0.08, T:0.46
Consensus pattern (137 bp):
CAAAAAAATATTTTAAAAAATATAGATAATATATTATTTAACAAAAATATAATTTTAATAAATGT
TTTAAATGGTTATTTTATACTTTCACCTCGTCATTCTGCTGTAATTTTTTTTTTTTTTGGATAAG
TTGATAA
Found at i:34356889 original size:19 final size:21
Alignment explanation
Indices: 34356867--34356909 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
34356857 ATAATTTCAA
34356867 AAATA-AC-AATATATTTTTT
1 AAATAGACTAATATATTTTTT
**
34356886 AAATAGACTCCTATATTTTTT
1 AAATAGACTAATATATTTTTT
34356907 AAA
1 AAA
34356910 AACTTTTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 5 0.25
20 2 0.10
21 13 0.65
ACGTcount: A:0.44, C:0.09, G:0.02, T:0.44
Consensus pattern (21 bp):
AAATAGACTAATATATTTTTT
Found at i:34359858 original size:2 final size:2
Alignment explanation
Indices: 34359851--34359875 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
34359841 AAAATTACAA
34359851 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
34359876 CTTTGGTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:34360140 original size:12 final size:12
Alignment explanation
Indices: 34360123--34360147 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
34360113 GGCTATGTTT
34360123 ATTTTTTTTTCA
1 ATTTTTTTTTCA
34360135 ATTTTTTTTTCA
1 ATTTTTTTTTCA
34360147 A
1 A
34360148 AGTTGACAAT
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:0.20, C:0.08, G:0.00, T:0.72
Consensus pattern (12 bp):
ATTTTTTTTTCA
Found at i:34365119 original size:24 final size:24
Alignment explanation
Indices: 34365090--34365142 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
34365080 ATTAGTAAGT
* * *
34365090 TAAATAAACTATGCTAGTAAATGC
1 TAAATAAACTATACTAATAAATAC
* *
34365114 TAAATATATTATACTAATAAATAC
1 TAAATAAACTATACTAATAAATAC
34365138 TAAAT
1 TAAAT
34365143 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.51, C:0.09, G:0.06, T:0.34
Consensus pattern (24 bp):
TAAATAAACTATACTAATAAATAC
Found at i:34368690 original size:18 final size:18
Alignment explanation
Indices: 34368651--34368692 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
34368641 ATTCCAAATT
*
34368651 TTTTATAATTATTAAGTA
1 TTTTATAATTATTAAGAA
*
34368669 TTTTA-AATTATTTAGAA
1 TTTTATAATTATTAAGAA
34368686 GTTTTAT
1 -TTTTAT
34368693 GTTAACAAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (18 bp):
TTTTATAATTATTAAGAA
Found at i:34369144 original size:18 final size:18
Alignment explanation
Indices: 34369105--34369145 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
34369095 TTAATCTTTG
*
34369105 ATTTA-TTATTTTATTTT
1 ATTTATTTATTTTATTGT
34369122 ATTTATTTATTTTAATTGT
1 ATTTATTTATTTT-ATTGT
34369141 -TTTAT
1 ATTTAT
34369146 CTGACTTGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 5 0.24
18 12 0.57
19 4 0.19
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (18 bp):
ATTTATTTATTTTATTGT
Found at i:34377772 original size:18 final size:18
Alignment explanation
Indices: 34377745--34377787 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
34377735 GCTCATAAGG
*
34377745 TTATATAATGACATTTAA
1 TTATAGAATGACATTTAA
*
34377763 TTATAGAATGCCATTTAA
1 TTATAGAATGACATTTAA
34377781 TTATAGA
1 TTATAGA
34377788 GTAATTAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.42, C:0.07, G:0.09, T:0.42
Consensus pattern (18 bp):
TTATAGAATGACATTTAA
Found at i:34378300 original size:16 final size:16
Alignment explanation
Indices: 34378279--34378315 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
34378269 AGTTTTGTAA
34378279 AAGAATTTTACGGTTC
1 AAGAATTTTACGGTTC
34378295 AAGAATTTTACGGTTC
1 AAGAATTTTACGGTTC
34378311 AAGAA
1 AAGAA
34378316 AATTTTTTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.32
Consensus pattern (16 bp):
AAGAATTTTACGGTTC
Found at i:34380456 original size:16 final size:16
Alignment explanation
Indices: 34380435--34380466 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
34380425 ATTATTGAGA
34380435 GGTGTGTTTTCTTTGT
1 GGTGTGTTTTCTTTGT
34380451 GGTGTGTTTTCTTTGT
1 GGTGTGTTTTCTTTGT
34380467 TCGTAGAAGT
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:0.00, C:0.06, G:0.31, T:0.62
Consensus pattern (16 bp):
GGTGTGTTTTCTTTGT
Found at i:34385028 original size:29 final size:29
Alignment explanation
Indices: 34384986--34385065 Score: 74
Period size: 29 Copynumber: 2.8 Consensus size: 29
34384976 AGTCTTATAC
**
34384986 ATTTTGTACA-TTTAAAATTTAAGTTTTCT
1 ATTTT-TACATTTTAAAATTTAAGTCCTCT
* *
34385015 ATTTTTACTTTTTAAGAATAT-AGTCCTCT
1 ATTTTTACATTTTAA-AATTTAAGTCCTCT
* *
34385044 ATTTTTAGATTTAAAAATTTAA
1 ATTTTTACATTTTAAAATTTAA
34385066 ATTCAGTTAT
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
28 7 0.17
29 29 0.73
30 4 0.10
ACGTcount: A:0.34, C:0.07, G:0.06, T:0.53
Consensus pattern (29 bp):
ATTTTTACATTTTAAAATTTAAGTCCTCT
Found at i:34387861 original size:7 final size:7
Alignment explanation
Indices: 34387849--34387874 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
34387839 TCTCTTGATA
34387849 AATTATT
1 AATTATT
34387856 AATTATT
1 AATTATT
34387863 AATTATT
1 AATTATT
34387870 AATTA
1 AATTA
34387875 ATCTATAATC
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:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (7 bp):
AATTATT
Found at i:34388707 original size:21 final size:21
Alignment explanation
Indices: 34388691--34388770 Score: 58
Period size: 21 Copynumber: 3.7 Consensus size: 21
34388681 AGATAATTTT
34388691 TAAATATAATAATATAATTGA
1 TAAATATAATAATATAATTGA
* *
34388712 TAAA-AGT-AT-AGATAATCGTGT
1 TAAATA-TAATAATATAAT--TGA
* *
34388733 TAAGTATAATAATATATATTTA
1 TAAATATAATAATATA-ATTGA
34388755 TAAATATATATAATAT
1 TAAATATA-ATAATAT
34388771 TACTTCACTA
Statistics
Matches: 44, Mismatches: 7, Indels: 14
0.68 0.11 0.22
Matches are distributed among these distances:
19 6 0.14
20 3 0.07
21 11 0.25
22 11 0.25
23 11 0.25
24 2 0.05
ACGTcount: A:0.51, C:0.01, G:0.07, T:0.40
Consensus pattern (21 bp):
TAAATATAATAATATAATTGA
Found at i:34388708 original size:40 final size:41
Alignment explanation
Indices: 34388680--34388758 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 41
34388670 TATCAAGATT
* *
34388680 TAGATAAT-TTTTAAATATAATAATATAATTGATAAAAGTA
1 TAGATAATCTGTTAAATATAATAATATAATTTATAAAAGTA
*
34388720 TAGATAATCGTGTTAAGTATAATAATATATATTTATAAA
1 TAGATAATC-TGTTAAATATAATAATATA-ATTTATAAA
34388759 TATATATAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
40 8 0.24
42 17 0.52
43 8 0.24
ACGTcount: A:0.49, C:0.01, G:0.09, T:0.41
Consensus pattern (41 bp):
TAGATAATCTGTTAAATATAATAATATAATTTATAAAAGTA
Found at i:34389445 original size:16 final size:17
Alignment explanation
Indices: 34389419--34389453 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
34389409 TACGTACTTC
34389419 ATAATTATATTAATAAT
1 ATAATTATATTAATAAT
*
34389436 ATAA-TATATTTATAAT
1 ATAATTATATTAATAAT
34389452 AT
1 AT
34389454 TTCAAGTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
ATAATTATATTAATAAT
Found at i:34389981 original size:22 final size:22
Alignment explanation
Indices: 34389953--34390003 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
34389943 TTCTCTTAAA
* *
34389953 CTCTCAATTTCCTTTC-AAAAT
1 CTCTCAATTTCATTCCAAAAAT
34389974 CCTCTCAATTTCATTCCAAAAAT
1 -CTCTCAATTTCATTCCAAAAAT
34389997 CTCTCAA
1 CTCTCAA
34390004 ATCCATATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 21 0.81
23 5 0.19
ACGTcount: A:0.31, C:0.31, G:0.00, T:0.37
Consensus pattern (22 bp):
CTCTCAATTTCATTCCAAAAAT
Found at i:34390080 original size:31 final size:30
Alignment explanation
Indices: 34390037--34390102 Score: 98
Period size: 32 Copynumber: 2.2 Consensus size: 30
34390027 CCTCAATTTC
34390037 ATTTTTTTAATAATTTCAAA-TTTTTTTAT
1 ATTTTTTTAATAATTTCAAATTTTTTTTAT
*
34390066 ATTTTTTTAAAATAATTTTAAATTTTTTTTAT
1 ATTTTTTT--AATAATTTCAAATTTTTTTTAT
34390098 ATTTT
1 ATTTT
34390103 CATCAATGGC
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
29 8 0.24
31 11 0.33
32 14 0.42
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.67
Consensus pattern (30 bp):
ATTTTTTTAATAATTTCAAATTTTTTTTAT
Found at i:34392146 original size:28 final size:28
Alignment explanation
Indices: 34392114--34392894 Score: 1370
Period size: 28 Copynumber: 27.8 Consensus size: 28
34392104 ATTTGATATA
34392114 CTTAACCTAATTTAATTAAAACCCTAAC
1 CTTAACCTAATTTAATTAAAACCCTAAC
34392142 CTTAACCTAATTTAATTAAAACCCTAAC
1 CTTAACCTAATTTAATTAAAACCCTAAC
34392170 CTTAACCTAATTTAATTAAAACCCTAAC
1 CTTAACCTAATTTAATTAAAACCCTAAC
34392198 CTTAACCTAATTTAATTAAAACCCTAAC
1 CTTAACCTAATTTAATTAAAACCCTAAC
34392226 CTTAACCTAATTTAATTAAAACCCTAAC
1 CTTAACCTAATTTAATTAAAACCCTAAC
34392254 CTTAACCTAATTTAATTAAAACCCTAAC
1 CTTAACCTAATTTAATTAAAACCCTAAC
34392282 CTTAACCTAATTTAATTAAAACCCTAAC
1 CTTAACCTAATTTAATTAAAACCCTAAC
34392310 CTTAACCTAATTTAATTAAAACCCTAAC
1 CTTAACCTAATTTAATTAAAACCCTAAC
34392338 CTTAACCTAATTTAATTAAAACCCTAAC
1 CTTAACCTAATTTAATTAAAACCCTAAC
34392366 CTTAACCTAATTTAATTAAAACCCTAAC
1 CTTAACCTAATTTAATTAAAACCCTAAC
34392394 CTTAACCTAATTTAATTAAAACCCTAAC
1 CTTAACCTAATTTAATTAAAACCCTAAC
34392422 CTTAACCTAATTTAATTAAAACCCTAAC
1 CTTAACCTAATTTAATTAAAACCCTAAC
34392450 CTTAACCTAATTTAATTAAAACCCTAAC
1 CTTAACCTAATTTAATTAAAACCCTAAC
34392478 CTTAACCTAATTTAATTAAAACCCTAAC
1 CTTAACCTAATTTAATTAAAACCCTAAC
34392506 CTTAACCTAATTTAATTAAAACCCTAAC
1 CTTAACCTAATTTAATTAAAACCCTAAC
34392534 CTTAACCTAATTTAATTAAAACCCTAAC
1 CTTAACCTAATTTAATTAAAACCCTAAC
34392562 CTTAACCTAATTTAATTAAAACCCTAAC
1 CTTAACCTAATTTAATTAAAACCCTAAC
34392590 CTTAACCTAATTTAATTAAAACCCTAAC
1 CTTAACCTAATTTAATTAAAACCCTAAC
34392618 CTTAACCTAATTTAATTAAAACCCTAAC
1 CTTAACCTAATTTAATTAAAACCCTAAC
34392646 CTTAACCTAATTTAATTAAAACCCTAAC
1 CTTAACCTAATTTAATTAAAACCCTAAC
34392674 CTTAACCTAATTTAATTAAAAACCCTAAC
1 CTTAACCTAATTTAATT-AAAACCCTAAC
* *
34392703 ATTAACCTAATTTAATTAAAAACTCTAAC
1 CTTAACCTAATTTAATT-AAAACCCTAAC
*
34392732 CTTAACCTAATTTAATTAAAAACCTTAAC
1 CTTAACCTAATTTAATT-AAAACCCTAAC
* *
34392761 CCTACCCTAATTTAATTAAAAACCCTAAC
1 CTTAACCTAATTTAATT-AAAACCCTAAC
* *
34392790 CCTACCCTAATTTAATTAAAAACCCTAAC
1 CTTAACCTAATTTAATT-AAAACCCTAAC
* *
34392819 CCTACCCTAATTTAATTAAAAACCCTAAC
1 CTTAACCTAATTTAATT-AAAACCCTAAC
* *
34392848 CCTACCCTAATTTAATTAAAAACCCTAA-
1 CTTAACCTAATTTAATT-AAAACCCTAAC
*
34392876 --TAACCTAATTTATTTAAAA
1 CTTAACCTAATTTAATTAAAA
34392895 ACCATAACAT
Statistics
Matches: 742, Mismatches: 10, Indels: 5
0.98 0.01 0.01
Matches are distributed among these distances:
25 4 0.01
26 13 0.02
28 549 0.74
29 176 0.24
ACGTcount: A:0.43, C:0.25, G:0.00, T:0.32
Consensus pattern (28 bp):
CTTAACCTAATTTAATTAAAACCCTAAC
Found at i:34392966 original size:56 final size:56
Alignment explanation
Indices: 34392903--34393027 Score: 198
Period size: 56 Copynumber: 2.2 Consensus size: 56
34392893 AAACCATAAC
* * * *
34392903 ATAATTTTACCTAATTTGAT-AATCTTACTAACCATTAACACAATTTTTTGGGCTTA
1 ATAATTTTACATAATTTGATAAAT-TTACTAACCATTAACAAAAGTTATTGGGCTTA
34392959 ATAATTTTACATAATTTGATAAATTTACTAACCATTAACAAAAGTTATTGGGCTTA
1 ATAATTTTACATAATTTGATAAATTTACTAACCATTAACAAAAGTTATTGGGCTTA
34393015 ATAATTTTACATA
1 ATAATTTTACATA
34393028 GTTTTTACAT
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
56 61 0.95
57 3 0.05
ACGTcount: A:0.38, C:0.13, G:0.07, T:0.42
Consensus pattern (56 bp):
ATAATTTTACATAATTTGATAAATTTACTAACCATTAACAAAAGTTATTGGGCTTA
Found at i:34397270 original size:47 final size:47
Alignment explanation
Indices: 34397201--34397311 Score: 177
Period size: 47 Copynumber: 2.4 Consensus size: 47
34397191 GGTTTAACCA
* * * * *
34397201 CATATCTGTTCTAGTAGTTTGACTGCAATTATGGTGGCTCGACCACT
1 CATATCTATTCTGGCAGCTTGACTGCAATTATGGTGGCTCGACCACC
34397248 CATATCTATTCTGGCAGCTTGACTGCAATTATGGTGGCTCGACCACC
1 CATATCTATTCTGGCAGCTTGACTGCAATTATGGTGGCTCGACCACC
34397295 CATATCTATTCTGGCAG
1 CATATCTATTCTGGCAG
34397312 TTTATTTGCG
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 59 1.00
ACGTcount: A:0.22, C:0.24, G:0.21, T:0.33
Consensus pattern (47 bp):
CATATCTATTCTGGCAGCTTGACTGCAATTATGGTGGCTCGACCACC
Found at i:34402949 original size:42 final size:42
Alignment explanation
Indices: 34402903--34403026 Score: 140
Period size: 42 Copynumber: 3.0 Consensus size: 42
34402893 CTGTATGAGC
* * *
34402903 TACACGAGCAAAGTCATGAGCGTGTGTCCAGGCCGTGTAAGA
1 TACACGAGCAAAGACATGGGTGTGTGTCCAGGCCGTGTAAGA
* * * * *
34402945 TACACGAGCAACGACATGGGTGTATGCCCAGGCCGTGTGAGC
1 TACACGAGCAAAGACATGGGTGTGTGTCCAGGCCGTGTAAGA
* * * *
34402987 CACACGGGCAAAGGCATGGGTGTGTGTCCAGGACGTGTAA
1 TACACGAGCAAAGACATGGGTGTGTGTCCAGGCCGTGTAA
34403027 CTCATTGTTT
Statistics
Matches: 66, Mismatches: 16, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
42 66 1.00
ACGTcount: A:0.26, C:0.23, G:0.34, T:0.18
Consensus pattern (42 bp):
TACACGAGCAAAGACATGGGTGTGTGTCCAGGCCGTGTAAGA
Found at i:34404046 original size:20 final size:20
Alignment explanation
Indices: 34404001--34404073 Score: 60
Period size: 20 Copynumber: 3.6 Consensus size: 20
34403991 GCTTTATCCC
34404001 GTTCTGTTCTATTCAGCA-T-T
1 GTTCTGTTCTATTC--CATTCT
*
34404021 GCTCTGTTCTATTCCATTCT
1 GTTCTGTTCTATTCCATTCT
** * *
34404041 GTTCTGTTCTGCTCTATTCG
1 GTTCTGTTCTATTCCATTCT
*
34404061 GTTTTGTTCTATT
1 GTTCTGTTCTATT
34404074 TGAATTGTGT
Statistics
Matches: 42, Mismatches: 9, Indels: 4
0.76 0.16 0.07
Matches are distributed among these distances:
18 2 0.05
19 1 0.02
20 39 0.93
ACGTcount: A:0.10, C:0.22, G:0.15, T:0.53
Consensus pattern (20 bp):
GTTCTGTTCTATTCCATTCT
Found at i:34405380 original size:3 final size:3
Alignment explanation
Indices: 34405372--34405409 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
34405362 AAGAAAAAAG
34405372 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
34405410 AGAAAATCTA
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:34407217 original size:21 final size:23
Alignment explanation
Indices: 34407193--34407250 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 23
34407183 CTAGTGTATC
*
34407193 AATAATTTTTT-CAA-TAATTGT
1 AATAATTTTTTAAAAGTAATTGT
*
34407214 AATATTTTTTTAAAAGTAATTGT
1 AATAATTTTTTAAAAGTAATTGT
34407237 AAT-ATTATTTTAAA
1 AATAATT-TTTTAAA
34407251 TCTAAGACTT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
21 10 0.32
22 4 0.13
23 17 0.55
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (23 bp):
AATAATTTTTTAAAAGTAATTGT
Found at i:34407233 original size:23 final size:23
Alignment explanation
Indices: 34407207--34407250 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
34407197 ATTTTTTCAA
*
34407207 TAATTGTAATATTTTTTTAAAAG
1 TAATTGTAATATTATTTTAAAAG
34407230 TAATTGTAATATTATTTTAAA
1 TAATTGTAATATTATTTTAAA
34407251 TCTAAGACTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (23 bp):
TAATTGTAATATTATTTTAAAAG
Found at i:34410808 original size:15 final size:15
Alignment explanation
Indices: 34410767--34410809 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
34410757 AAGTATATAT
34410767 TTAAGTGTTGAAAAAA
1 TTAAGTGTT-AAAAAA
* * *
34410783 ATAAATATTAAAAAA
1 TTAAGTGTTAAAAAA
34410798 TTAAGTGTTAAA
1 TTAAGTGTTAAA
34410810 TTTAAGTTAT
Statistics
Matches: 21, Mismatches: 6, Indels: 1
0.75 0.21 0.04
Matches are distributed among these distances:
15 15 0.71
16 6 0.29
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.33
Consensus pattern (15 bp):
TTAAGTGTTAAAAAA
Found at i:34413770 original size:14 final size:14
Alignment explanation
Indices: 34413737--34413769 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
34413727 CAATACTTAA
*
34413737 ATTTTTAATACTTC
1 ATTTTTAACACTTC
34413751 ATTTTTAACACTT-
1 ATTTTTAACACTTC
34413764 ATTTTT
1 ATTTTT
34413770 TTTTAGTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 6 0.33
14 12 0.67
ACGTcount: A:0.27, C:0.12, G:0.00, T:0.61
Consensus pattern (14 bp):
ATTTTTAACACTTC
Found at i:34414057 original size:21 final size:21
Alignment explanation
Indices: 34414032--34414072 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
34414022 ATGATTAAAC
34414032 TGAAATTATGTTTAA-ATTAAT
1 TGAAA-TATGTTTAAGATTAAT
*
34414053 TGAAATCTGTTTAAGATTAA
1 TGAAATATGTTTAAGATTAA
34414073 AATTAGATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.41, C:0.02, G:0.12, T:0.44
Consensus pattern (21 bp):
TGAAATATGTTTAAGATTAAT
Found at i:34414947 original size:13 final size:13
Alignment explanation
Indices: 34414929--34414965 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
34414919 AGAACGAAAC
34414929 AGAGAAGAAAAAG
1 AGAGAAGAAAAAG
34414942 AGAGAAAGAAAAAG
1 AGAG-AAGAAAAAG
34414956 -GAGAA-AAAAA
1 AGAGAAGAAAAA
34414966 ATTAGGGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 5 0.22
12 2 0.09
13 7 0.30
14 9 0.39
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (13 bp):
AGAGAAGAAAAAG
Found at i:34414952 original size:14 final size:14
Alignment explanation
Indices: 34414929--34414966 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
34414919 AGAACGAAAC
34414929 AGAG-AAGAAAAAG
1 AGAGAAAGAAAAAG
34414942 AGAGAAAGAAAAAG
1 AGAGAAAGAAAAAG
34414956 -GAGAAA-AAAAA
1 AGAGAAAGAAAAA
34414967 TTAGGGTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 5 0.21
13 10 0.42
14 9 0.38
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (14 bp):
AGAGAAAGAAAAAG
Found at i:34419684 original size:7 final size:7
Alignment explanation
Indices: 34419672--34419700 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
34419662 TTGCTCTCTG
34419672 TTTCTTT
1 TTTCTTT
34419679 TTTCTTT
1 TTTCTTT
34419686 TTTCTTT
1 TTTCTTT
34419693 TTT-TTT
1 TTTCTTT
34419699 TT
1 TT
34419701 GTTTCTTTCC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 5 0.23
7 17 0.77
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (7 bp):
TTTCTTT
Found at i:34419697 original size:16 final size:16
Alignment explanation
Indices: 34419670--34419708 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
34419660 GTTTGCTCTC
*
34419670 TGTTTC-TTTTTTCTT
1 TGTTTCTTTTTTTTTT
34419685 T-TTTCTTTTTTTTTT
1 TGTTTCTTTTTTTTTT
34419700 TGTTTCTTT
1 TGTTTCTTT
34419709 CCTTTCTCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 4 0.19
15 10 0.48
16 7 0.33
ACGTcount: A:0.00, C:0.10, G:0.05, T:0.85
Consensus pattern (16 bp):
TGTTTCTTTTTTTTTT
Found at i:34420827 original size:98 final size:99
Alignment explanation
Indices: 34420658--34420856 Score: 391
Period size: 98 Copynumber: 2.0 Consensus size: 99
34420648 AGGTTTAATA
34420658 TGAAATGTTTAAGTTGATGCATAAGTTAGAGTGATATAGTCAAATTTGGGTTGAAATTGGTATGA
1 TGAAATGTTTAAGTTGATGCATAAGTTAGAGTGATATAGTCAAATTTGGGTTGAAATTGGTATGA
34420723 ATTTAGAATTGGCTTAAATGGTC-TTTATTTGAT
66 ATTTAGAATTGGCTTAAATGGTCTTTTATTTGAT
34420756 TGAAATGTTTAAGTTGATGCATAAGTTAGAGTGATATAGTCAAATTTGGGTTGAAATTGGTATGA
1 TGAAATGTTTAAGTTGATGCATAAGTTAGAGTGATATAGTCAAATTTGGGTTGAAATTGGTATGA
34420821 ATTTAGAATTGGCTTAAATGGTCTTTTATTTGAT
66 ATTTAGAATTGGCTTAAATGGTCTTTTATTTGAT
34420855 TG
1 TG
34420857 TTTTGATAAT
Statistics
Matches: 100, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
98 88 0.88
99 12 0.12
ACGTcount: A:0.31, C:0.04, G:0.24, T:0.41
Consensus pattern (99 bp):
TGAAATGTTTAAGTTGATGCATAAGTTAGAGTGATATAGTCAAATTTGGGTTGAAATTGGTATGA
ATTTAGAATTGGCTTAAATGGTCTTTTATTTGAT
Found at i:34427010 original size:24 final size:24
Alignment explanation
Indices: 34426960--34427011 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
34426950 AATCAAAGTC
* **
34426960 AAATATATTATGCTAATAAATGTT
1 AAATATATTATACTAATAAATACT
*
34426984 AAATATATTATACTCATAAATACT
1 AAATATATTATACTAATAAATACT
34427008 AAAT
1 AAAT
34427012 CTTTTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.50, C:0.08, G:0.04, T:0.38
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:34431278 original size:24 final size:24
Alignment explanation
Indices: 34431251--34431326 Score: 107
Period size: 24 Copynumber: 3.2 Consensus size: 24
34431241 AATCAAAGTC
34431251 AAATATATTATGCTAATAAATGCT
1 AAATATATTATGCTAATAAATGCT
* *
34431275 AAATATATTATGCAAATAAAGGCT
1 AAATATATTATGCTAATAAATGCT
* * *
34431299 AAATATATTATACTCATAAATACT
1 AAATATATTATGCTAATAAATGCT
34431323 AAAT
1 AAAT
34431327 CTTTTCGAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.50, C:0.09, G:0.07, T:0.34
Consensus pattern (24 bp):
AAATATATTATGCTAATAAATGCT
Found at i:34436239 original size:2 final size:2
Alignment explanation
Indices: 34436232--34436266 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
34436222 CATACGGTGT
34436232 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
34436267 ATATTAGAGG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:34449032 original size:21 final size:20
Alignment explanation
Indices: 34449007--34449046 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
34448997 GATGTCTTCA
34449007 ATTCTATCATTGGTTGGCTTG
1 ATTCTATCA-TGGTTGGCTTG
* *
34449028 ATTCTTTCATGTTTGGCTT
1 ATTCTATCATGGTTGGCTT
34449047 TAGAGTCCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.12, C:0.15, G:0.20, T:0.53
Consensus pattern (20 bp):
ATTCTATCATGGTTGGCTTG
Found at i:34453036 original size:12 final size:12
Alignment explanation
Indices: 34453019--34453044 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
34453009 ATCGAATGAG
34453019 TATGCTTTCCTT
1 TATGCTTTCCTT
34453031 TATGCTTTCCTT
1 TATGCTTTCCTT
34453043 TA
1 TA
34453045 GTATTATATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.12, C:0.23, G:0.08, T:0.58
Consensus pattern (12 bp):
TATGCTTTCCTT
Found at i:34461486 original size:29 final size:29
Alignment explanation
Indices: 34461409--34461502 Score: 127
Period size: 29 Copynumber: 3.2 Consensus size: 29
34461399 ACCGTGTATC
* * *
34461409 ACACATGGTCTGTCACAC-GACTATGTGTA
1 ACACATGGTCTGTCACACGGTC-GTGTGTG
*
34461438 ACACATGGTTTGTCACACGGTCGTGTGTG
1 ACACATGGTCTGTCACACGGTCGTGTGTG
*
34461467 ACACATGGTCTGTCACACGGTTGTGTGTG
1 ACACATGGTCTGTCACACGGTCGTGTGTG
34461496 ACACATG
1 ACACATG
34461503 ACCTACCACA
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
29 56 0.97
30 2 0.03
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.29
Consensus pattern (29 bp):
ACACATGGTCTGTCACACGGTCGTGTGTG
Found at i:34461512 original size:29 final size:29
Alignment explanation
Indices: 34461451--34461512 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
34461441 CATGGTTTGT
** **
34461451 CACACGGTCGTGTGTGACACATGGTCTGT
1 CACACGGTCGTGTGTGACACATGACCTAC
*
34461480 CACACGGTTGTGTGTGACACATGACCTAC
1 CACACGGTCGTGTGTGACACATGACCTAC
34461509 CACA
1 CACA
34461513 TGGCCCTACA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.23, C:0.27, G:0.26, T:0.24
Consensus pattern (29 bp):
CACACGGTCGTGTGTGACACATGACCTAC
Found at i:34464932 original size:11 final size:11
Alignment explanation
Indices: 34464914--34464956 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
34464904 GAACAAACAA
34464914 AAAG-AAAAAG
1 AAAGAAAAAAG
*
34464924 AACGAAAAAAG
1 AAAGAAAAAAG
*
34464935 AAGGAAAAAGAG
1 AAAGAAAAA-AG
34464947 AAAGAAAAAA
1 AAAGAAAAAA
34464957 ACAAATCAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
10 3 0.11
11 15 0.54
12 10 0.36
ACGTcount: A:0.77, C:0.02, G:0.21, T:0.00
Consensus pattern (11 bp):
AAAGAAAAAAG
Found at i:34465067 original size:9 final size:9
Alignment explanation
Indices: 34465053--34465091 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
34465043 GCAGTTTTTT
34465053 TAATAAAAA
1 TAATAAAAA
*
34465062 TAATAATAA
1 TAATAAAAA
34465071 TAA-AAGAAA
1 TAATAA-AAA
34465080 TAATAAAAA
1 TAATAAAAA
34465089 TAA
1 TAA
34465092 AAATACTATC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
8 2 0.08
9 22 0.85
10 2 0.08
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (9 bp):
TAATAAAAA
Found at i:34465073 original size:15 final size:15
Alignment explanation
Indices: 34465053--34465096 Score: 52
Period size: 18 Copynumber: 2.7 Consensus size: 15
34465043 GCAGTTTTTT
34465053 TAATAAAAATAATAA
1 TAATAAAAATAATAA
34465068 TAATAAAAGAAATAATAA
1 TAAT--AA-AAATAATAA
*
34465086 AAATAAAAATA
1 TAATAAAAATA
34465097 CTATCCCTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
15 9 0.36
16 2 0.08
17 2 0.08
18 12 0.48
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (15 bp):
TAATAAAAATAATAA
Found at i:34465082 original size:18 final size:18
Alignment explanation
Indices: 34465059--34465093 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
34465049 TTTTTAATAA
*
34465059 AAATAATAATAATAAAAG
1 AAATAATAAAAATAAAAG
34465077 AAATAATAAAAATAAAA
1 AAATAATAAAAATAAAA
34465094 ATACTATCCC
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:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (18 bp):
AAATAATAAAAATAAAAG
Found at i:34465753 original size:13 final size:13
Alignment explanation
Indices: 34465735--34465765 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
34465725 TTTTTTTTCC
34465735 ATTATCAATGTCT
1 ATTATCAATGTCT
34465748 ATTATCAATGTCT
1 ATTATCAATGTCT
34465761 ATTAT
1 ATTAT
34465766 AAAAGTTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.32, C:0.13, G:0.06, T:0.48
Consensus pattern (13 bp):
ATTATCAATGTCT
Found at i:34473267 original size:27 final size:27
Alignment explanation
Indices: 34473225--34473280 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
34473215 GAGCTCAATC
34473225 ACAATACTATAATGGAATGACTTCGTG
1 ACAATACTATAATGGAATGACTTCGTG
* *
34473252 ACAATACTATAGTGGAATGACTTTGTG
1 ACAATACTATAATGGAATGACTTCGTG
34473279 AC
1 AC
34473281 TAAGTAAGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.30
Consensus pattern (27 bp):
ACAATACTATAATGGAATGACTTCGTG
Found at i:34473516 original size:27 final size:27
Alignment explanation
Indices: 34473478--34473533 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
34473468 GGGCTCAATC
**
34473478 ACAATACTATAGTGGAATGGTTTCGTG
1 ACAATACTATAGTGGAATGACTTCGTG
34473505 ACAATACTATAGTGGAATGACTTCGTG
1 ACAATACTATAGTGGAATGACTTCGTG
34473532 AC
1 AC
34473534 TAAGTAAGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.30
Consensus pattern (27 bp):
ACAATACTATAGTGGAATGACTTCGTG
Found at i:34473585 original size:253 final size:252
Alignment explanation
Indices: 34473138--34473646 Score: 928
Period size: 253 Copynumber: 2.0 Consensus size: 252
34473128 AGGACATCCT
34473138 ATGAGGGTAACACATTTATGACAAGGCCATTGACGAGCACTTACTGAGTAAATTTCACAATGGTA
1 ATGAGGGTAACACATTTATGACAAGGCCATTGACGAGCACTTACTGAGTAAATTTCACAATGGTA
34473203 GATTATTAGGGAGAGCTCAATCACAATACTATAATGGAATGACTTCGTGACAATACTATAGTGGA
66 GATTATTAGGGAGAGCTCAATCACAATACTATAATGGAATGACTTCGTGACAATACTATAGTGGA
*
34473268 ATGACTTTGTGACTAAGTAAGTTTATAATTAATAGGTGAAAAGCTAGAACTTAATTATAAATTAT
131 ATGACTTCGTGACTAAGTAAGTTTATAATTAATAGGTGAAAAGCTAGAACTTAATTATAAATTAT
*
34473333 TTGAACTCTAATTATATATGTTCAATCGGTCCTTCCGTTAGCTGATTGATACCATAA
196 TTGAACTCTAATTATATATGTCCAATCGGTCCTTCCGTTAGCTGATTGATACCATAA
*
34473390 ATGAGGGTAACACATTTATGACAAGGCCATTGGACGAGCACTTACTGAGTAACTTTCACAATGGT
1 ATGAGGGTAACACATTTATGACAAGGCCATT-GACGAGCACTTACTGAGTAAATTTCACAATGGT
* * **
34473455 AGATTATTAGGGAGGGCTCAATCACAATACTATAGTGGAATGGTTTCGTGACAATACTATAGTGG
65 AGATTATTAGGGAGAGCTCAATCACAATACTATAATGGAATGACTTCGTGACAATACTATAGTGG
*
34473520 AATGACTTCGTGACTAAGTAAGTTTATAATTAATAGGTGAAAAGCTGGAACTTAATTATAAATTA
130 AATGACTTCGTGACTAAGTAAGTTTATAATTAATAGGTGAAAAGCTAGAACTTAATTATAAATTA
*
34473585 TTTGAACTCTAATTATATATGTCCAATCGGTCCTTTCGTTAGCTGATTGATACCATAA
195 TTTGAACTCTAATTATATATGTCCAATCGGTCCTTCCGTTAGCTGATTGATACCATAA
34473643 ATGA
1 ATGA
34473647 ATTATAAATG
Statistics
Matches: 247, Mismatches: 9, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
252 31 0.13
253 216 0.87
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.32
Consensus pattern (252 bp):
ATGAGGGTAACACATTTATGACAAGGCCATTGACGAGCACTTACTGAGTAAATTTCACAATGGTA
GATTATTAGGGAGAGCTCAATCACAATACTATAATGGAATGACTTCGTGACAATACTATAGTGGA
ATGACTTCGTGACTAAGTAAGTTTATAATTAATAGGTGAAAAGCTAGAACTTAATTATAAATTAT
TTGAACTCTAATTATATATGTCCAATCGGTCCTTCCGTTAGCTGATTGATACCATAA
Found at i:34473655 original size:11 final size:11
Alignment explanation
Indices: 34473639--34473669 Score: 55
Period size: 10 Copynumber: 2.9 Consensus size: 11
34473629 GATTGATACC
34473639 ATAAATGAATT
1 ATAAATGAATT
34473650 ATAAATGAA-T
1 ATAAATGAATT
34473660 ATAAATGAAT
1 ATAAATGAAT
34473670 GGAAATGATG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.53
11 9 0.47
ACGTcount: A:0.58, C:0.00, G:0.10, T:0.32
Consensus pattern (11 bp):
ATAAATGAATT
Found at i:34473950 original size:16 final size:18
Alignment explanation
Indices: 34473924--34473956 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
34473914 TTGAATTGGG
34473924 TTGAGAAAATT-ATTTAA
1 TTGAGAAAATTAATTTAA
34473941 TTGA-AAAATTAATTTA
1 TTGAGAAAATTAATTTA
34473957 GTTAACTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.42
Consensus pattern (18 bp):
TTGAGAAAATTAATTTAA
Found at i:34475388 original size:19 final size:20
Alignment explanation
Indices: 34475348--34475390 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
34475338 TCATTAAATA
*
34475348 AAAAGTATCTAAAAATTACT
1 AAAAGTAGCTAAAAATTACT
*
34475368 AAAAGTAGCTTAAAA-TACT
1 AAAAGTAGCTAAAAATTACT
34475387 AAAA
1 AAAA
34475391 TATGAAAAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.58, C:0.09, G:0.07, T:0.26
Consensus pattern (20 bp):
AAAAGTAGCTAAAAATTACT
Found at i:34477249 original size:241 final size:241
Alignment explanation
Indices: 34476822--34477264 Score: 706
Period size: 241 Copynumber: 1.8 Consensus size: 241
34476812 GGTCTTTATA
* *
34476822 TTTGTGATATAAGCATTCAACTATATTTCTTTTTCATGGATTAGATCGTATGGGTGGTATAGTCC
1 TTTGTGATATAAGCATTCAACTATATTCCTTTTTCATGGATTAGATCGTATGGGTGGTAGAGTCC
* *
34476887 CTAATATTCCTTTACTCTTGCCATGATATCTCTTTGCAAACTATTTAAGGGAGTGTAATGGTGGA
66 CTAATATTCCTTTACTCTTACCAAGATATCTCTTTGCAAACTATTTAAGGGAGTGTAATGGTGGA
* * * * * **
34476952 TAGCATTGGCGATATTCTCTTTAGGTGTTTCAGTTGTCAACAATTTTGACGCCTTATCACAGTTT
131 CAGCATGGGCGATACTCTCTTTAAGTGTTTCAGTTATCAACAATTTTGACGCCTTATCACAGCCT
34477017 TATTATTTAAGGGATTGTAATGGTGGATAGCTTGGGCGATACTCTC
196 TATTATTTAAGGGATTGTAATGGTGGATAGCTTGGGCGATACTCTC
*
34477063 TTTGTGATATAAGCATTCAACTATATTCCTTTTTCATGGATTGGATCGTATGGGTGGTAGAGTCC
1 TTTGTGATATAAGCATTCAACTATATTCCTTTTTCATGGATTAGATCGTATGGGTGGTAGAGTCC
* *
34477128 CTAATATTCCTTTACTCTTACTAAGATATCTCTTTGCAAAGTATTTAAGGGAGTGTAATGGTGGA
66 CTAATATTCCTTTACTCTTACCAAGATATCTCTTTGCAAACTATTTAAGGGAGTGTAATGGTGGA
* ** * * *
34477193 CAGCATGGGCGATACTCTTTTTAAGTGTTTTGGTTATCGATAATTTTGATGCCTTATCACAGCCT
131 CAGCATGGGCGATACTCTCTTTAAGTGTTTCAGTTATCAACAATTTTGACGCCTTATCACAGCCT
34477258 TATTATT
196 TATTATT
34477265 CATCCTTTTG
Statistics
Matches: 182, Mismatches: 20, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
241 182 1.00
ACGTcount: A:0.24, C:0.15, G:0.20, T:0.40
Consensus pattern (241 bp):
TTTGTGATATAAGCATTCAACTATATTCCTTTTTCATGGATTAGATCGTATGGGTGGTAGAGTCC
CTAATATTCCTTTACTCTTACCAAGATATCTCTTTGCAAACTATTTAAGGGAGTGTAATGGTGGA
CAGCATGGGCGATACTCTCTTTAAGTGTTTCAGTTATCAACAATTTTGACGCCTTATCACAGCCT
TATTATTTAAGGGATTGTAATGGTGGATAGCTTGGGCGATACTCTC
Found at i:34478261 original size:2 final size:2
Alignment explanation
Indices: 34478254--34478280 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
34478244 AAATGTATGC
34478254 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
34478281 AAATTTTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:34478692 original size:5 final size:5
Alignment explanation
Indices: 34478682--34478706 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
34478672 ATGAATACCC
34478682 TTTAT TTTAT TTTAT TTTAT TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT
34478707 ATCCATTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTAT
Found at i:34479572 original size:232 final size:233
Alignment explanation
Indices: 34479166--34479635 Score: 926
Period size: 232 Copynumber: 2.0 Consensus size: 233
34479156 ATATATAGAG
34479166 TGAAAAATGAGTTTCTTTGTTAAGTTTGAATTGAATGGTTTCGGGTAGACTTGTTCACGGTCGTT
1 TGAAAAATGAGTTTCTTTGTTAAGTTTGAATTGAATGGTTTCGGGTAGACTTGTTCACGGTCGTT
34479231 TCGGGTTCAGGTTGAGCCCTAATAAAATTGTAGGCTCGATTGATAGGTCCAGGTCCGACTCAATC
66 TCGGGTTCAGGTTGAGCCCTAATAAAATTGTAGGCTCGATTGATAGGTCCAGGTCCGACTCAATC
34479296 CAAAAAATGAGTTTAAATTTTTGTTCAAGTTAAGTCTAGATAAAAATGCTAAAACCCAGGTCCAA
131 CAAAAAATGAGTTTAAATTTTTGTTCAAGTTAAGTCTAGATAAAAATGCTAAAACCCAGGTCCAA
34479361 CCCTGCCGTATTAAATTTATTTTA-TTTATTTTTTATA
196 CCCTGCCGTATTAAATTTATTTTATTTTATTTTTTATA
34479398 TGAAAAATGAGTTTCTTTGTTAAGTTTGAATTGAATGGTTTCGGGTAGACTTGTTCACGGTCGTT
1 TGAAAAATGAGTTTCTTTGTTAAGTTTGAATTGAATGGTTTCGGGTAGACTTGTTCACGGTCGTT
34479463 TCGGGTTCAGGTTGAGCCCTAATAAAATTGTAGGCTCGATTGATAGGTCCAGGTCCGACTCAATC
66 TCGGGTTCAGGTTGAGCCCTAATAAAATTGTAGGCTCGATTGATAGGTCCAGGTCCGACTCAATC
34479528 CAAAAAATGAGTTTAAATTTTTGTTCAAGTTAAGTCTAGATAAAAATGCTAAAACCCAGGTCCAA
131 CAAAAAATGAGTTTAAATTTTTGTTCAAGTTAAGTCTAGATAAAAATGCTAAAACCCAGGTCCAA
34479593 CCCTGCCGTATTAAATTTATTTTATTTTATTTTTTATA
196 CCCTGCCGTATTAAATTTATTTTATTTTATTTTTTATA
34479631 T-AAAA
1 TGAAAA
34479636 TTTTTAAAAA
Statistics
Matches: 237, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
232 223 0.94
233 14 0.06
ACGTcount: A:0.30, C:0.14, G:0.19, T:0.37
Consensus pattern (233 bp):
TGAAAAATGAGTTTCTTTGTTAAGTTTGAATTGAATGGTTTCGGGTAGACTTGTTCACGGTCGTT
TCGGGTTCAGGTTGAGCCCTAATAAAATTGTAGGCTCGATTGATAGGTCCAGGTCCGACTCAATC
CAAAAAATGAGTTTAAATTTTTGTTCAAGTTAAGTCTAGATAAAAATGCTAAAACCCAGGTCCAA
CCCTGCCGTATTAAATTTATTTTATTTTATTTTTTATA
Found at i:34486322 original size:16 final size:15
Alignment explanation
Indices: 34486301--34486330 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
34486291 GCAAAAAAAT
34486301 TTGGCCCGGGCCCGGC
1 TTGGCCC-GGCCCGGC
34486317 TTGGCCCGGCCCGG
1 TTGGCCCGGCCCGG
34486331 ATATAATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.00, C:0.43, G:0.43, T:0.13
Consensus pattern (15 bp):
TTGGCCCGGCCCGGC
Found at i:34487748 original size:18 final size:18
Alignment explanation
Indices: 34487725--34487764 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
34487715 ACTAGTATAG
34487725 TATTCTTTGCAACATTTT
1 TATTCTTTGCAACATTTT
34487743 TATTCTTTGCAACATTTT
1 TATTCTTTGCAACATTTT
34487761 TATT
1 TATT
34487765 TACTTAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.23, C:0.15, G:0.05, T:0.57
Consensus pattern (18 bp):
TATTCTTTGCAACATTTT
Found at i:34488991 original size:75 final size:75
Alignment explanation
Indices: 34488829--34488991 Score: 204
Period size: 75 Copynumber: 2.2 Consensus size: 75
34488819 GCTTTGTAAG
* * *
34488829 AAACGCCG-TAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTAATGTATATTAGAATTAGTGG
1 AAACGCCGCT-AAATATCTTAACCAAAACACAGCGTTTGGTCTTAAGGTATATAAGAATTAGTGG
**
34488893 CGCTTGTGCAA
65 CGCTTACGCAA
* * * *
34488904 AAACGTCACTAAATATCTTAACCAAAACACATCGTTTGGTCTTGAGGTATATAAGAATTAGTGGC
1 AAACGCCGCTAAATATCTTAACCAAAACACAGCGTTTGGTCTTAAGGTATATAAGAATTAGTGGC
*
34488969 AG-TTACGGAA
66 -GCTTACGCAA
34488979 AAACGCCGCTAAA
1 AAACGCCGCTAAA
34488992 GGAGAGTATT
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
75 72 0.97
76 2 0.03
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (75 bp):
AAACGCCGCTAAATATCTTAACCAAAACACAGCGTTTGGTCTTAAGGTATATAAGAATTAGTGGC
GCTTACGCAA
Found at i:34489178 original size:84 final size:84
Alignment explanation
Indices: 34489022--34489187 Score: 251
Period size: 84 Copynumber: 2.0 Consensus size: 84
34489012 TGTAAGAAAC
* *
34489022 GCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTAATGTATATTAGAATTAGTGGCACTT
1 GCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTAAGGTATATAAGAATTAGTGGCACTT
***
34489087 GTGGAAAAACGCCGCTATA
66 ACAGAAAAACGCCGCTATA
* * **
34489106 GCCGCAAAATATCTTAACCAAAACGCATCGTTTGGTCTTGAGGTATATAAGAATTAGTGGCGGTT
1 GCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTAAGGTATATAAGAATTAGTGGCACTT
34489171 ACAGAAAAACGCCGCTA
66 ACAGAAAAACGCCGCTA
34489188 AAGGAGAGTA
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
84 73 1.00
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (84 bp):
GCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTAAGGTATATAAGAATTAGTGGCACTT
ACAGAAAAACGCCGCTATA
Found at i:34489200 original size:198 final size:197
Alignment explanation
Indices: 34488720--34489305 Score: 850
Period size: 198 Copynumber: 3.0 Consensus size: 197
34488710 ATTTTTAAGC
* * * * ** * * *
34488720 GCCGCAAAAAATGTTAGCCAAAACGCATCGTTTGTTCCCGAGGTATATTAA-ACTTGGTGGCGTT
1 GCCGCAAAATATCTTAACCAAAACGCATCGTTTGGTCTTGAGGTATA-TAAGAATTAGTGGCGGT
* * * * * *
34488784 TA-TGGAAAACGCCGCTAAATGTGAGTATTAGAGGTGCTTTGTAAGAAACGCCGTAAAATATCTT
65 TACAGAAAAACGCCGCTAAAGGAGAGTATTAGAGGCGCTTTGTAAGAAACGCCGCAAAATATCTT
*
34488848 AACCAAAACGCAGCGTTTGGTCTTAATGTATATTAGAATTAGTGGCGCTTGTGCAAAAA--CG--
130 AACCAAAACGCAGCGTTTGGTCTTAATGTATATTAGAATTAGTGGCGCTTGTGGAAAAAGCCGCT
34488909 -T-
195 ATA
* * * *
34488910 --CACTAAATATCTTAACCAAAACACATCGTTTGGTCTTGAGGTATATAAGAATTAGTGGCAGTT
1 GCCGCAAAATATCTTAACCAAAACGCATCGTTTGGTCTTGAGGTATATAAGAATTAGTGGCGGTT
*
34488973 ACGGAAAAACGCCGCTAAAGGAGAGTATTAGAGGCGCTTTGTAAGAAACGCCGCAAAATATCTTA
66 ACAGAAAAACGCCGCTAAAGGAGAGTATTAGAGGCGCTTTGTAAGAAACGCCGCAAAATATCTTA
*
34489038 ACCAAAACGCAGCGTTTGGTCTTAATGTATATTAGAATTAGTGGCACTTGTGGAAAAACGCCGCT
131 ACCAAAACGCAGCGTTTGGTCTTAATGTATATTAGAATTAGTGGCGCTTGTGGAAAAA-GCCGCT
34489103 ATA
195 ATA
34489106 GCCGCAAAATATCTTAACCAAAACGCATCGTTTGGTCTTGAGGTATATAAGAATTAGTGGCGGTT
1 GCCGCAAAATATCTTAACCAAAACGCATCGTTTGGTCTTGAGGTATATAAGAATTAGTGGCGGTT
* *
34489171 ACAGAAAAACGCCGCTAAAGGAGAGTATTAGAGGCACTTTGTAAGAAACGCCGCAAAATATCCTA
66 ACAGAAAAACGCCGCTAAAGGAGAGTATTAGAGGCGCTTTGTAAGAAACGCCGCAAAATATCTTA
*
34489236 ACCAAAACGCAGCGTTTGGTCTTAATGTATATTAGAATTAGTGGTGCTTGTGGAAAAATGCCGCT
131 ACCAAAACGCAGCGTTTGGTCTTAATGTATATTAGAATTAGTGGCGCTTGTGGAAAAA-GCCGCT
34489301 ATA
195 ATA
34489304 GC
1 GC
34489306 ACAGTATTAG
Statistics
Matches: 354, Mismatches: 31, Indels: 14
0.89 0.08 0.04
Matches are distributed among these distances:
187 3 0.01
188 47 0.13
189 113 0.32
192 2 0.01
195 1 0.00
198 188 0.53
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.27
Consensus pattern (197 bp):
GCCGCAAAATATCTTAACCAAAACGCATCGTTTGGTCTTGAGGTATATAAGAATTAGTGGCGGTT
ACAGAAAAACGCCGCTAAAGGAGAGTATTAGAGGCGCTTTGTAAGAAACGCCGCAAAATATCTTA
ACCAAAACGCAGCGTTTGGTCTTAATGTATATTAGAATTAGTGGCGCTTGTGGAAAAAGCCGCTA
TA
Found at i:34489312 original size:114 final size:113
Alignment explanation
Indices: 34489106--34489752 Score: 785
Period size: 114 Copynumber: 5.7 Consensus size: 113
34489096 CGCCGCTATA
* * *
34489106 GCCGCAAAATATCTTAACCAAAACGCATCGTTTGGTCTTGAGGTATATAAGAATTAGTGGCGGTT
1 GCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGATGTATATAAGAATTAGTGGCGCTT
** *
34489171 ACAGAAAAACGCCGCTAAAGGAGAGTATTAGAGGCACTTTGTAAGAAAC
66 ATGGAAAAACGCCGCTAAAGCAGAGTATTAGAGGC-CTTTGTAAGAAAC
* * * *
34489220 GCCGCAAAATATCCTAACCAAAACGCAGCGTTTGGTCTTAATGTATATTAGAATTAGTGGTGCTT
1 GCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGATGTATATAAGAATTAGTGGCGCTT
* * * * * *
34489285 GTGGAAAAATGCCGCTATAGCACAGTATTAGCGGCGTTT-TATAGAAAAC
66 ATGGAAAAACGCCGCTAAAGCAGAGTATTAGAGGCCTTTGTA-AG-AAAC
* * ** * *
34489334 GCCGTAAAATATCTTAACCAAAACACATTGTTTGGTCTTGAGGTATATAAGAATTAGTGGCGGTT
1 GCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGATGTATATAAGAATTAGTGGCGCTT
*
34489399 ATGGAAAAACGCCGCTAAAGGAGAGTATTAGAGGCGCTTTGTAAGAAAC
66 ATGGAAAAACGCCGCTAAAGCAGAGTATTAGAGGC-CTTTGTAAGAAAC
* * * *
34489448 GCCACGAAATATCTTAACCAAAACGCAGCGTTTGGTCTTAATGTATATTAGAATTAGTGGCGCTT
1 GCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGATGTATATAAGAATTAGTGGCGCTT
* * * * * * *
34489513 GTGGAAAAACGCCGCTATAGCATAGTATTGGCGGCGTTTGGTATGAAAC
66 ATGGAAAAACGCCGCTAAAGCAGAGTATTAGAGGCCTTT-GTAAGAAAC
** * * * *
34489562 GCCATAAGATATCTTAACCAAAACGCATCGTTTGGTCTTGATGAATATAAAAATTAGTGGCAG-T
1 GCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGATGTATATAAGAATTAGTGGC-GCT
* * * *
34489626 TACGGAAAAAGGCCGCTAAAGCAGAGTATTAGAGGCGCTTTTTAAGAATC
65 TATGGAAAAACGCCGCTAAAGCAGAGTATTAGAGGC-CTTTGTAAGAAAC
* * *
34489676 GCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGATGTATATTAGAACTAGTGGCGCTC
1 GCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGATGTATATAAGAATTAGTGGCGCTT
*
34489741 ATGTAAAAACGC
66 ATGGAAAAACGC
34489753 ATGTAGGTTT
Statistics
Matches: 443, Mismatches: 82, Indels: 16
0.82 0.15 0.03
Matches are distributed among these distances:
112 2 0.00
113 9 0.02
114 421 0.95
115 9 0.02
116 2 0.00
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.26
Consensus pattern (113 bp):
GCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGATGTATATAAGAATTAGTGGCGCTT
ATGGAAAAACGCCGCTAAAGCAGAGTATTAGAGGCCTTTGTAAGAAAC
Found at i:34489752 original size:228 final size:228
Alignment explanation
Indices: 34489111--34489739 Score: 1010
Period size: 228 Copynumber: 2.8 Consensus size: 228
34489101 CTATAGCCGC
*
34489111 AAAATATCTTAACCAAAACGCATCGTTTGGTCTTGAGGTATATAAGAATTAGTGGCGGTTACAGA
1 AAAATATCTTAACCAAAACGCATCGTTTGGTCTTGAGGTATATAAGAATTAGTGGCGGTTACGGA
* *
34489176 AAAACGCCGCTAAAGGAGAGTATTAGAGGCACTTTGTAAGAAACGCCGCAAAATATCCTAACCAA
66 AAAACGCCGCTAAAGGAGAGTATTAGAGGCGCTTTGTAAGAAACGCCGCAAAATATCTTAACCAA
* *
34489241 AACGCAGCGTTTGGTCTTAATGTATATTAGAATTAGTGGTGCTTGTGGAAAAATGCCGCTATAGC
131 AACGCAGCGTTTGGTCTTAATGTATATTAGAATTAGTGGCGCTTGTGGAAAAACGCCGCTATAGC
*
34489306 ACAGTATTAGCGGCGTTTTATAGAAAACGCCGT
196 ACAGTATTAGCGGCGTTTTATAGAAAACGCCAT
* * *
34489339 AAAATATCTTAACCAAAACACATTGTTTGGTCTTGAGGTATATAAGAATTAGTGGCGGTTATGGA
1 AAAATATCTTAACCAAAACGCATCGTTTGGTCTTGAGGTATATAAGAATTAGTGGCGGTTACGGA
* *
34489404 AAAACGCCGCTAAAGGAGAGTATTAGAGGCGCTTTGTAAGAAACGCCACGAAATATCTTAACCAA
66 AAAACGCCGCTAAAGGAGAGTATTAGAGGCGCTTTGTAAGAAACGCCGCAAAATATCTTAACCAA
34489469 AACGCAGCGTTTGGTCTTAATGTATATTAGAATTAGTGGCGCTTGTGGAAAAACGCCGCTATAGC
131 AACGCAGCGTTTGGTCTTAATGTATATTAGAATTAGTGGCGCTTGTGGAAAAACGCCGCTATAGC
* *
34489534 ATAGTATTGGCGGCGTTTGGTAT-G-AAACGCCAT
196 ACAGTATTAGCGGCGTTT--TATAGAAAACGCCAT
* * * * *
34489567 AAGATATCTTAACCAAAACGCATCGTTTGGTCTTGATGAATATAAAAATTAGTGGCAGTTACGGA
1 AAAATATCTTAACCAAAACGCATCGTTTGGTCTTGAGGTATATAAGAATTAGTGGCGGTTACGGA
* * * *
34489632 AAAAGGCCGCTAAAGCAGAGTATTAGAGGCGCTTTTTAAGAATCGCCGCAAAATATCTTAACCAA
66 AAAACGCCGCTAAAGGAGAGTATTAGAGGCGCTTTGTAAGAAACGCCGCAAAATATCTTAACCAA
* *
34489697 AACGCAGCGTTTGGTCTTGATGTATATTAGAACTAGTGGCGCT
131 AACGCAGCGTTTGGTCTTAATGTATATTAGAATTAGTGGCGCT
34489740 CATGTAAAAA
Statistics
Matches: 370, Mismatches: 29, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
228 366 0.99
229 1 0.00
230 3 0.01
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.27
Consensus pattern (228 bp):
AAAATATCTTAACCAAAACGCATCGTTTGGTCTTGAGGTATATAAGAATTAGTGGCGGTTACGGA
AAAACGCCGCTAAAGGAGAGTATTAGAGGCGCTTTGTAAGAAACGCCGCAAAATATCTTAACCAA
AACGCAGCGTTTGGTCTTAATGTATATTAGAATTAGTGGCGCTTGTGGAAAAACGCCGCTATAGC
ACAGTATTAGCGGCGTTTTATAGAAAACGCCAT
Found at i:34490064 original size:13 final size:13
Alignment explanation
Indices: 34490046--34490113 Score: 65
Period size: 13 Copynumber: 5.5 Consensus size: 13
34490036 AGTTTAGTGC
34490046 TTTGGGTTTAGGG
1 TTTGGGTTTAGGG
*
34490059 TTTGGG---A-GT
1 TTTGGGTTTAGGG
*
34490068 TTTGGGTTTAAGG
1 TTTGGGTTTAGGG
34490081 TTTGGGGTTT-GGG
1 TTT-GGGTTTAGGG
*
34490094 TTTGGGTTTGGGG
1 TTTGGGTTTAGGG
34490107 TTTGGGT
1 TTTGGGT
34490114 CGCTTTAGTT
Statistics
Matches: 46, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
9 7 0.15
10 1 0.02
12 7 0.15
13 25 0.54
14 6 0.13
ACGTcount: A:0.06, C:0.00, G:0.47, T:0.47
Consensus pattern (13 bp):
TTTGGGTTTAGGG
Found at i:34490113 original size:6 final size:7
Alignment explanation
Indices: 34490049--34490112 Score: 69
Period size: 7 Copynumber: 9.3 Consensus size: 7
34490039 TTAGTGCTTT
*
34490049 GGGTTTA
1 GGGTTTG
34490056 GGGTTTG
1 GGGTTTG
*
34490063 GGAGTTTT
1 GG-GTTTG
*
34490071 GGGTTTA
1 GGGTTTG
*
34490078 AGGTTTG
1 GGGTTTG
34490085 GGGTTT-
1 GGGTTTG
34490091 GGGTTT-
1 GGGTTTG
34490097 GGGTTTG
1 GGGTTTG
34490104 GGGTTTG
1 GGGTTTG
34490111 GG
1 GG
34490113 TCGCTTTAGT
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
6 12 0.24
7 31 0.63
8 6 0.12
ACGTcount: A:0.06, C:0.00, G:0.50, T:0.44
Consensus pattern (7 bp):
GGGTTTG
Found at i:34490383 original size:12 final size:12
Alignment explanation
Indices: 34490366--34490392 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
34490356 AATTGACAGA
34490366 AATAATATTAAT
1 AATAATATTAAT
34490378 AATAATATTAAT
1 AATAATATTAAT
34490390 AAT
1 AAT
34490393 GTCATAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
AATAATATTAAT
Found at i:34490478 original size:18 final size:18
Alignment explanation
Indices: 34490455--34490490 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
34490445 TATATATAAA
34490455 AAAACTAAATATTAGCGG
1 AAAACTAAATATTAGCGG
34490473 AAAACTAAATATTAGCGG
1 AAAACTAAATATTAGCGG
34490491 TGCTTGTTCA
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:0.50, C:0.11, G:0.17, T:0.22
Consensus pattern (18 bp):
AAAACTAAATATTAGCGG
Found at i:34491804 original size:39 final size:39
Alignment explanation
Indices: 34491734--34491812 Score: 115
Period size: 39 Copynumber: 2.0 Consensus size: 39
34491724 GACTTTGTGG
34491734 ATTACTTGGTATTCTATTTTGGTAGGATTGTTTTGGCAC
1 ATTACTTGGTATTCTATTTTGGTAGGATTGTTTTGGCAC
* **
34491773 ATTACTTGGTATTCTTTTTTTGGTA-TTTTGTTTTGGCAC
1 ATTACTTGGTATTC-TATTTTGGTAGGATTGTTTTGGCAC
34491812 A
1 A
34491813 GTTTCTCCAA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
39 27 0.75
40 9 0.25
ACGTcount: A:0.16, C:0.10, G:0.20, T:0.53
Consensus pattern (39 bp):
ATTACTTGGTATTCTATTTTGGTAGGATTGTTTTGGCAC
Found at i:34492488 original size:37 final size:37
Alignment explanation
Indices: 34492435--34492508 Score: 112
Period size: 37 Copynumber: 2.0 Consensus size: 37
34492425 TAATCCGCAG
*
34492435 TAATTTTCATAATACATAACTTACTTAAATTTCATAA
1 TAATTTTCATAATACATAACTTACATAAATTTCATAA
* * *
34492472 TAATTTTCATAGTACATACCTTACATAATTTTCATAA
1 TAATTTTCATAATACATAACTTACATAAATTTCATAA
34492509 CCTACATAAC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.41, C:0.15, G:0.01, T:0.43
Consensus pattern (37 bp):
TAATTTTCATAATACATAACTTACATAAATTTCATAA
Found at i:34492568 original size:16 final size:16
Alignment explanation
Indices: 34492547--34492584 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
34492537 ACTTAAATTT
34492547 CATAATACAT-AACTTA
1 CATAATA-ATGAACTTA
*
34492563 CATAATATTGAACTTA
1 CATAATAATGAACTTA
34492579 CATAAT
1 CATAAT
34492585 TTTCATAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 1 0.05
16 19 0.95
ACGTcount: A:0.47, C:0.16, G:0.03, T:0.34
Consensus pattern (16 bp):
CATAATAATGAACTTA
Found at i:34492580 original size:25 final size:24
Alignment explanation
Indices: 34492552--34492637 Score: 73
Period size: 25 Copynumber: 3.5 Consensus size: 24
34492542 AATTTCATAA
34492552 TACATAACTTACATAATATTGAACT
1 TACATAACTTACATAATATT-AACT
* * *
34492577 TACATAATTTTCATAATACATAACT
1 TACATAACTTACATAATA-TTAACT
** * * *
34492602 TATTTAATTTTCATAATATAAAACT
1 TACATAACTTACATAATAT-TAACT
34492627 TACATAACTTA
1 TACATAACTTA
34492638 TACAGTACAC
Statistics
Matches: 48, Mismatches: 11, Indels: 4
0.76 0.17 0.06
Matches are distributed among these distances:
25 47 0.98
26 1 0.02
ACGTcount: A:0.44, C:0.14, G:0.01, T:0.41
Consensus pattern (24 bp):
TACATAACTTACATAATATTAACT
Found at i:34492617 original size:50 final size:49
Alignment explanation
Indices: 34492552--34492711 Score: 137
Period size: 50 Copynumber: 3.2 Consensus size: 49
34492542 AATTTCATAA
* * *
34492552 TACATAACTTACATAATATTGAACTTACATAATTTTCATAATACATAACT
1 TACATAATTTTCATAATATT-AACTTACATAATTTTCATAATACACAACT
** * * *
34492602 TATTTAATTTTCATAATATAAAACTTACATAA-CTT-ATACAGTACACAGCT
1 TACATAATTTTCATAATAT-TAACTTACATAATTTTCATA-A-TACACAACT
* * *
34492652 TACATAATTTTCATAATACATAACTAACATAATTTTTCATAATACAGC-AGT
1 TACATAATTTTCATAATA-TTAACTTACATAA-TTTTCATAATACA-CAACT
34492703 TACATAATT
1 TACATAATT
34492712 CTTAAAGAAT
Statistics
Matches: 86, Mismatches: 16, Indels: 15
0.74 0.14 0.13
Matches are distributed among these distances:
48 3 0.03
49 3 0.03
50 59 0.69
51 14 0.16
52 4 0.05
53 3 0.03
ACGTcount: A:0.43, C:0.16, G:0.03, T:0.38
Consensus pattern (49 bp):
TACATAATTTTCATAATATTAACTTACATAATTTTCATAATACACAACT
Done.