Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 49 of 410
Found at i:12564713 original size:54 final size:54
Alignment explanation
Indices: 12564631--12564774 Score: 236
Period size: 54 Copynumber: 2.7 Consensus size: 54
12564621 TGGAGGAAGC
* *
12564631 GTCCTAGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTACCACATATATCT
12564685 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTACCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTACCACATATATCT
* *
12564739 GTTCTGGTGGCTCTGCCACAA-TATCTGTATCTGGTG
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTG
12564775 ACTTCGTCAC
Statistics
Matches: 85, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
53 6 0.07
54 79 0.93
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTACCACATATATCT
Found at i:12564785 original size:27 final size:26
Alignment explanation
Indices: 12564644--12564792 Score: 147
Period size: 27 Copynumber: 5.5 Consensus size: 26
12564634 CTAGTGGCTA
* *
12564644 TGCCACAATTATCTGATCTGGTGGCTC
1 TGCCACAA-TATCTGTTCTGGTGACTC
* * *
12564671 TGCCACATATATCTGTCCTGGTGGCTA
1 TGCCACA-ATATCTGTTCTGGTGACTC
* *
12564698 TGCCACAATTATCTGATCTGGTGGCTC
1 TGCCACAA-TATCTGTTCTGGTGACTC
* *
12564725 TACCACATATATCTGTTCTGGTGGCTC
1 TGCCACA-ATATCTGTTCTGGTGACTC
12564752 TGCCACAATATCTGTATCTGGTGACT-
1 TGCCACAATATCTGT-TCTGGTGACTC
*
12564778 TCGTCACAATATCTG
1 T-GCCACAATATCTG
12564793 GTAGCCTCGC
Statistics
Matches: 106, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
26 10 0.09
27 94 0.89
28 2 0.02
ACGTcount: A:0.20, C:0.26, G:0.20, T:0.34
Consensus pattern (26 bp):
TGCCACAATATCTGTTCTGGTGACTC
Found at i:12567028 original size:25 final size:25
Alignment explanation
Indices: 12567000--12567048 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
12566990 TAGCGCGCTA
* *
12567000 TCTGATTATTAGTACGTTAGTGCTC
1 TCTGATTATTAGCACATTAGTGCTC
12567025 TCTGATTATTAGCACATTAGTGCT
1 TCTGATTATTAGCACATTAGTGCT
12567049 ATCCGTTTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.22, C:0.16, G:0.18, T:0.43
Consensus pattern (25 bp):
TCTGATTATTAGCACATTAGTGCTC
Found at i:12567304 original size:2 final size:2
Alignment explanation
Indices: 12567297--12567327 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
12567287 GATAAATTAG
12567297 AT AT 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 AT AT A
12567328 CAGAAAGGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:12572830 original size:35 final size:35
Alignment explanation
Indices: 12572652--12572830 Score: 218
Period size: 35 Copynumber: 5.1 Consensus size: 35
12572642 TCCATGGCAA
* *
12572652 AGTTATGACACATAGGTATGGTATTATCCATACTG
1 AGTTATGATACGTAGGTATGGTATTATCCATACTG
*
12572687 AGATATGATACGTAGGTATGGTATTATCCATACTG
1 AGTTATGATACGTAGGTATGGTATTATCCATACTG
* *
12572722 AGCTATGATACGTAGGTATGGTATTTTCCATACTG
1 AGTTATGATACGTAGGTATGGTATTATCCATACTG
* * *
12572757 AGCTATGCTATGTAGGTATGGTATT-TCCCATA-TCG
1 AGTTATGATACGTAGGTATGGTATTAT-CCATACT-G
* * * *
12572792 AGTTGTGAAACATAGGTATGGTATTAACCATACTG
1 AGTTATGATACGTAGGTATGGTATTATCCATACTG
12572827 AGTT
1 AGTT
12572831 TTGAATCATG
Statistics
Matches: 126, Mismatches: 14, Indels: 8
0.85 0.09 0.05
Matches are distributed among these distances:
34 2 0.02
35 123 0.98
36 1 0.01
ACGTcount: A:0.29, C:0.13, G:0.22, T:0.35
Consensus pattern (35 bp):
AGTTATGATACGTAGGTATGGTATTATCCATACTG
Found at i:12577775 original size:53 final size:53
Alignment explanation
Indices: 12577709--12577814 Score: 194
Period size: 53 Copynumber: 2.0 Consensus size: 53
12577699 ATATATTAAG
*
12577709 CTCACATCTCATACATTTCAAATAGGTACCTATACCACTCATAACATGGTTAT
1 CTCACATCTCATACATTTCAAATAGGTACCTATACCACTCAAAACATGGTTAT
*
12577762 CTCACATCTCATACATTTCAAATAGGTACCTGTACCACTCAAAACATGGTTAT
1 CTCACATCTCATACATTTCAAATAGGTACCTATACCACTCAAAACATGGTTAT
12577815 ACTTTTCTCG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.34, C:0.26, G:0.08, T:0.31
Consensus pattern (53 bp):
CTCACATCTCATACATTTCAAATAGGTACCTATACCACTCAAAACATGGTTAT
Found at i:12578155 original size:47 final size:47
Alignment explanation
Indices: 12577904--12578229 Score: 232
Period size: 47 Copynumber: 6.8 Consensus size: 47
12577894 CATAGGGTAT
* *
12577904 AATGTCGATGCCATGTCCCAGACATGGTCTTACACTGGCT-TATCCATC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTAT-C-TC
** ** * **
12577952 AA-GTTGACACCATGTCCCAGACATGGTCTTACACT-G-ACTATCGA
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTATCTC
12577996 AATTGAGGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCA-CAT-
1 AA-T---GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCT-ATC-TC
* *
12578047 ATATGTGCCGATGCCATGTCCCCA-ACATGGTCTTACACTGACACCTCTATACGC
1 A-A--TGCCGATGCCATGT-CCCAGACATGGTCTTACACT---AGCTCTAT-CTC
*
12578101 ---GCTGATGCCATGTCCCAGACAT-GTCTTACACTAGCTCTAGTCTC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTA-TCTC
* *
12578145 AATGCCGATGCCATGTACCAGACATGGTCTTACACTAGCTC--TCATA
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTATC-TC
*
12578191 ATATGGCTGATG-CATGTCCCAGACAT-GTCTTACACTAGC
1 A-AT-GCCGATGCCATGTCCCAGACATGGTCTTACACTAGC
12578230 ACACAAATAA
Statistics
Matches: 227, Mismatches: 23, Indels: 58
0.74 0.07 0.19
Matches are distributed among these distances:
44 10 0.04
45 4 0.02
46 19 0.08
47 79 0.35
48 39 0.17
49 29 0.13
50 29 0.13
51 8 0.04
52 3 0.01
53 6 0.03
54 1 0.00
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.27
Consensus pattern (47 bp):
AATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTATCTC
Found at i:12585870 original size:92 final size:93
Alignment explanation
Indices: 12585591--12585904 Score: 259
Period size: 92 Copynumber: 3.3 Consensus size: 93
12585581 GTATAATGTC
* * * *
12585591 GATGCCATGTCCCAGACATGGTCTTGCACTGGCTCATCCATC-AAG-CGATGCCATGTCCCAAAC
1 GATGCCATGTCCCAGACAT-GTCTTACACTGACGCAT-C-TCGTAGCCGATGCCATGTCCCAAAC
* * * *
12585654 ATGGTCTTACACTTATTA--T-TGAAATCGAGGCT
63 ATGGTCTTACACTGA-CACCTCT-ATA-CG-TGCT
* * * * * * *
12585686 GATGCCATGTCCTAGACATGGTCTTGCACTAGCTCTTACATATC-TATGTCGATGCCATGTCCTA
1 GATGCCATGTCCCAGACAT-GTCTTACACT-G-AC--GCATCTCGTA-GCCGATGCCATGTCCCA
* *
12585750 GACATGGTCTTACACTGACATCTCTATACGTG-T
60 AACATGGTCTTACACTGACACCTCTATACGTGCT
*
12585783 CGATGCCATGTCCCAGACATGGTTTTACACTGACGCATCTCGTAGCCGATG-CATGTCCCAAACA
1 -GATGCCATGTCCCAGACAT-GTCTTACACTGACGCATCTCGTAGCCGATGCCATGTCCCAAACA
*
12585847 T-GTCTTACATTGACACCTCTATACGTGCT
64 TGGTCTTACACTGACACCTCTATACGTGCT
12585876 GATGCCATGTCCCAGACATGTCTTACACT
1 GATGCCATGTCCCAGACATGTCTTACACT
12585905 AGCTCTAGTC
Statistics
Matches: 184, Mismatches: 23, Indels: 28
0.78 0.10 0.12
Matches are distributed among these distances:
91 9 0.05
92 43 0.23
93 13 0.07
94 11 0.06
95 31 0.17
96 2 0.01
97 6 0.03
98 30 0.16
99 35 0.19
100 3 0.02
101 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (93 bp):
GATGCCATGTCCCAGACATGTCTTACACTGACGCATCTCGTAGCCGATGCCATGTCCCAAACATG
GTCTTACACTGACACCTCTATACGTGCT
Found at i:12600494 original size:13 final size:13
Alignment explanation
Indices: 12600476--12600501 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
12600466 TTTTGGCTAG
12600476 GAAGAAAGAAAGA
1 GAAGAAAGAAAGA
12600489 GAAGAAAGAAAGA
1 GAAGAAAGAAAGA
12600502 AGAGAAGAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (13 bp):
GAAGAAAGAAAGA
Found at i:12600518 original size:19 final size:17
Alignment explanation
Indices: 12600477--12600535 Score: 75
Period size: 19 Copynumber: 3.3 Consensus size: 17
12600467 TTTGGCTAGG
12600477 AAGAAAGAAAGAGAAG-A
1 AAGAAAG-AAGAGAAGAA
12600494 AAGAAAGAAGAGAAGAA
1 AAGAAAGAAGAGAAGAA
12600511 TAAGGAAAGAAGAGAAGAA
1 -AA-GAAAGAAGAGAAGAA
12600530 GAAGAA
1 -AAGAA
12600536 GGAGGAGGAG
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
16 8 0.21
17 8 0.21
18 5 0.13
19 17 0.45
ACGTcount: A:0.68, C:0.00, G:0.31, T:0.02
Consensus pattern (17 bp):
AAGAAAGAAGAGAAGAA
Found at i:12600587 original size:14 final size:14
Alignment explanation
Indices: 12600562--12600599 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
12600552 CTGGTGAGGG
12600562 AAGAAAAA-AGAAA
1 AAGAAAAAGAGAAA
12600575 AAGAAAAAGAGAAA
1 AAGAAAAAGAGAAA
* *
12600589 GAGAAGAAGAG
1 AAGAAAAAGAG
12600600 GGAGGGAAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 8 0.36
14 14 0.64
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (14 bp):
AAGAAAAAGAGAAA
Found at i:12600956 original size:17 final size:17
Alignment explanation
Indices: 12600934--12600966 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
12600924 TCTTAATGAA
12600934 AAATAAAATACAAAAAG
1 AAATAAAATACAAAAAG
12600951 AAATAAAATACAAAAA
1 AAATAAAATACAAAAA
12600967 AAAAATTTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.79, C:0.06, G:0.03, T:0.12
Consensus pattern (17 bp):
AAATAAAATACAAAAAG
Found at i:12601269 original size:150 final size:149
Alignment explanation
Indices: 12601001--12601533 Score: 693
Period size: 150 Copynumber: 3.6 Consensus size: 149
12600991 GCGGGTTTTT
* * * * *
12601001 TACTAAAAGAATAT-AAAAAGAAAATACGAAAATAATATATTTTAAAATATAAAATTCGAAAAT-
1 TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATTCGAGAATA
* * *
12601064 AAAAAATACAAATAAAGGGCCAAAATCAGTGTTTTTTACTAAATTGATATAAAAAAAATACTAAA
66 AAAAAATACAAACAAATGGCCAAAATCAG-GTTTTTTACTAAATTAATAT-AAAAAAA-ACTAAA
12601129 ATAATACATTTGAAACATTATG
128 ATAATACATTTGAAACATTATG
*
12601151 TACTAAAAT-A-ATAAAAAATAAAATGCGAAAATAGTATATTTTAAAAAATAAAATTCGAGAATA
1 TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATTCGAGAATA
* *
12601214 ATAAAATATAAACAAATGGCCAAAATCAGGATTTTTTACTAAATTAATATAAAAAAACACTAAAA
66 AAAAAATACAAACAAATGGCCAAAATCAGG-TTTTTTACTAAATTAATATAAAAAAA-ACTAAAA
12601279 TAATACATTTG--------T-
129 TAATACATTTGAAACATTATG
* *
12601291 TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATCTTTTAAAAAATAAAA-TCAAAGAA-
1 TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATTC-GAGAAT
*** * * *
12601354 AAAAAAATACAAACAAATATACAAGATTCAGGGGTTTTTACTAAATTAATATAAAAAAAGCTAAA
65 AAAAAAATACAAACAAATGGCCAA-AATCA-GGTTTTTTACTAAATTAATATAAAAAAAACTAAA
12601419 ATAATACATTTGAAACATTATG
128 ATAATACATTTGAAACATTATG
*
12601441 TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAGAATA
1 TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATTCGAGAATA
12601506 AAAAAATACAAACAAA-GAGCCAAAATCA
66 AAAAAATACAAACAAATG-GCCAAAATCA
12601534 CCGAACAAAA
Statistics
Matches: 333, Mismatches: 30, Indels: 40
0.83 0.07 0.10
Matches are distributed among these distances:
140 9 0.03
141 40 0.12
142 74 0.22
143 2 0.01
148 2 0.01
149 72 0.22
150 113 0.34
151 21 0.06
ACGTcount: A:0.58, C:0.08, G:0.07, T:0.26
Consensus pattern (149 bp):
TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATTCGAGAATA
AAAAAATACAAACAAATGGCCAAAATCAGGTTTTTTACTAAATTAATATAAAAAAAACTAAAATA
ATACATTTGAAACATTATG
Found at i:12601385 original size:142 final size:140
Alignment explanation
Indices: 12601143--12601533 Score: 493
Period size: 142 Copynumber: 2.7 Consensus size: 140
12601133 TACATTTGAA
*
12601143 ACATTATG-TACTAAAAT-A-ATAAAAAATAAAATGCGAAAATAGTATATTTTAAAAAATAAAAT
1 ACATT-TGTTACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAA-
* * * * *
12601205 TCGAGAATAATAAAATATAAACAAATGGCCAAAATCAGGATTTTTTACTAAATTAATATAAAAAA
64 TCGAGAATAAAAAAATACAAACAAATAGACAAAATCAGGAGTTTTTACTAAATTAATATAAAAAA
12601270 ACACTAAAATAAT
129 A-ACTAAAATAAT
*
12601283 ACATTTGTTACTAAAATAATATAAAAAATAAAATACGAAAATAGTATCTTTTAAAAAATAAAATC
1 ACATTTGTTACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATC
* * * *
12601348 AAAGAA-AAAAAAATACAAACAAATATACAAGATTCAGGGGTTTTTACTAAATTAATATAAAAAA
66 -GAGAATAAAAAAATACAAACAAATAGACAA-AATCAGGAGTTTTTACTAAATTAATATAAAAAA
*
12601412 AGCTAAAATAAT
129 AACTAAAATAAT
12601424 ACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAA
1 ACATTTG--------T-TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAA
* *
12601489 AATAAAATCCGAGAATAAAAAAATACAAACAAAGAGCCAAAATCA
57 AATAAAAT-CGAGAATAAAAAAATACAAACAAATAGACAAAATCA
12601534 CCGAACAAAA
Statistics
Matches: 217, Mismatches: 18, Indels: 22
0.84 0.07 0.09
Matches are distributed among these distances:
139 2 0.01
140 14 0.06
141 39 0.18
142 76 0.35
149 1 0.00
150 63 0.29
151 22 0.10
ACGTcount: A:0.58, C:0.08, G:0.07, T:0.26
Consensus pattern (140 bp):
ACATTTGTTACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATC
GAGAATAAAAAAATACAAACAAATAGACAAAATCAGGAGTTTTTACTAAATTAATATAAAAAAAA
CTAAAATAAT
Found at i:12601490 original size:292 final size:290
Alignment explanation
Indices: 12601000--12601533 Score: 797
Period size: 292 Copynumber: 1.8 Consensus size: 290
12600990 GGCGGGTTTT
* * *
12601000 TTACTAAAAGAATATAAAAAGAAAATACGAAAATAATATATTTTAAAATATAAAATTCGAAAATA
1 TTACTAAAAGAATATAAAAAGAAAATACGAAAATAATATATTTTAAAAAATAAAATTCAAAAAAA
* * * * * *
12601065 AAAAATACAAATAAAGGGCCAAAATCAGTGTTTTTTACTAAATTGATATAAAAAAAATACTAAAA
66 AAAAATACAAACAAAGAGACAAAATCAGGGGTTTTTACTAAATTAATATAAAAAAAATACTAAAA
*
12601130 TAATACATTTGAAACATTATGTACTAAAATAATAAAAAATAAAATGCGAAAATAGTATATTTTAA
131 TAATACATTTGAAACATTATGTACTAAAATAATAAAAAATAAAATACGAAAATAGTATATTTTAA
* * *
12601195 AAAATAAAATTCGAGAATAATAAAATATAAACAAATG-GCCAAAATCAGGATTTTTTACTAAATT
196 AAAATAAAATCCGAGAATAAAAAAATACAAACAAA-GAGCCAAAATCAGGATTTTTTACTAAATT
12601259 AATATAAAAAAACACTAAAATAATACATTTG
260 AATATAAAAAAACACTAAAATAATACATTTG
* * * *
12601290 TTACTAAAATAATATAAAAAATAAAATACGAAAATAGTATCTTTTAAAAAATAAAA-TCAAAGAA
1 TTACTAAAAGAATAT-AAAAAGAAAATACGAAAATAATATATTTTAAAAAATAAAATTCAAA-AA
* * * *
12601354 AAAAAAATACAAACAAATATACAAGATTCAGGGGTTTTTACTAAATTAATAT-AAAAAAA-GCTA
64 AAAAAAATACAAACAAAGAGACAA-AATCAGGGGTTTTTACTAAATTAATATAAAAAAAATACTA
12601417 AAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAGTATAT
128 AAATAATACATTTGAAACATTATGTACTAAAAT-A-ATAAAAAATAAAATACGAAAATAGTATAT
12601482 TTTAAAAAATAAAATCCGAGAATAAAAAAATACAAACAAAGAGCCAAAATCA
191 TTTAAAAAATAAAATCCGAGAATAAAAAAATACAAACAAAGAGCCAAAATCA
12601534 CCGAACAAAA
Statistics
Matches: 217, Mismatches: 21, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
290 54 0.25
291 65 0.30
292 98 0.45
ACGTcount: A:0.58, C:0.08, G:0.07, T:0.27
Consensus pattern (290 bp):
TTACTAAAAGAATATAAAAAGAAAATACGAAAATAATATATTTTAAAAAATAAAATTCAAAAAAA
AAAAATACAAACAAAGAGACAAAATCAGGGGTTTTTACTAAATTAATATAAAAAAAATACTAAAA
TAATACATTTGAAACATTATGTACTAAAATAATAAAAAATAAAATACGAAAATAGTATATTTTAA
AAAATAAAATCCGAGAATAAAAAAATACAAACAAAGAGCCAAAATCAGGATTTTTTACTAAATTA
ATATAAAAAAACACTAAAATAATACATTTG
Found at i:12603629 original size:18 final size:18
Alignment explanation
Indices: 12603583--12603629 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
12603573 TGGCCGATAT
*
12603583 AGAGCCGGAGCCATAGCC
1 AGAGCCAGAGCCATAGCC
* *
12603601 AGATCCTGAGCC-TAAGCC
1 AGAGCCAGAGCCAT-AGCC
12603619 AGAGCCAGAGC
1 AGAGCCAGAGC
12603630 TACAACCGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
17 1 0.04
18 23 0.96
ACGTcount: A:0.30, C:0.32, G:0.30, T:0.09
Consensus pattern (18 bp):
AGAGCCAGAGCCATAGCC
Found at i:12603811 original size:33 final size:32
Alignment explanation
Indices: 12603767--12603880 Score: 129
Period size: 33 Copynumber: 3.5 Consensus size: 32
12603757 CTTTGGGTCA
* *
12603767 TATCCACCGCAGCACAGCACTTCTCCCAGCCCG
1 TATCCACCGCAGTACAGCACTAC-CCCAGCCCG
* **
12603800 TATCCATCGCAGTACTCCACTAGCCCCAGCCCG
1 TATCCACCGCAGTACAGCACTA-CCCCAGCCCG
* *
12603833 TATCCACCACAGTACAGCACTACCCCCAACCCG
1 TATCCACCGCAGTACAGCACTA-CCCCAGCCCG
*
12603866 TATCTACCGCAGTAC
1 TATCCACCGCAGTAC
12603881 TCCACTCCTC
Statistics
Matches: 67, Mismatches: 13, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
33 66 0.99
34 1 0.01
ACGTcount: A:0.25, C:0.46, G:0.13, T:0.17
Consensus pattern (32 bp):
TATCCACCGCAGTACAGCACTACCCCAGCCCG
Found at i:12604318 original size:26 final size:26
Alignment explanation
Indices: 12604282--12604365 Score: 98
Period size: 26 Copynumber: 3.1 Consensus size: 26
12604272 GGAACAAACT
12604282 TTAAATACATTACAACATTAATCTAA
1 TTAAATACATTACAACATTAATCTAA
* *
12604308 TTAAATACATTA-ATCTAATTGGAACACTAA
1 TTAAATACATTACAAC--ATT--AA-TCTAA
12604338 TTAAATACATTACAACATTAATCTAA
1 TTAAATACATTACAACATTAATCTAA
12604364 TT
1 TT
12604366 GGAACAAACT
Statistics
Matches: 48, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
25 2 0.04
26 18 0.38
27 5 0.10
29 5 0.10
30 16 0.33
31 2 0.04
ACGTcount: A:0.48, C:0.14, G:0.02, T:0.36
Consensus pattern (26 bp):
TTAAATACATTACAACATTAATCTAA
Found at i:12605841 original size:23 final size:23
Alignment explanation
Indices: 12605809--12605854 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
12605799 TGTCTGTAAC
12605809 TTAATAACAGTTCCCGGTACGTA
1 TTAATAACAGTTCCCGGTACGTA
*
12605832 TTAATGACAGTTCCCGGTACGTA
1 TTAATAACAGTTCCCGGTACGTA
12605855 CTCTCGCATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (23 bp):
TTAATAACAGTTCCCGGTACGTA
Found at i:12608152 original size:16 final size:16
Alignment explanation
Indices: 12608131--12608163 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
12608121 ATAGTTTTTT
12608131 ACTAACAATAATAATA
1 ACTAACAATAATAATA
12608147 ACTAACAATAATAATA
1 ACTAACAATAATAATA
12608163 A
1 A
12608164 GGGTTTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.64, C:0.12, G:0.00, T:0.24
Consensus pattern (16 bp):
ACTAACAATAATAATA
Found at i:12608187 original size:42 final size:42
Alignment explanation
Indices: 12608057--12608189 Score: 154
Period size: 42 Copynumber: 3.3 Consensus size: 42
12608047 AATATAAATC
*
12608057 AACAATAATAATAACTAA-AATAAT--T-AGGATTTTTTACT
1 AACAATAATAATAACTAACAATAATAATAAGGGTTTTTTACT
* * ** **
12608095 AAC---AATAACAACCAACAATCCTAATAATAGTTTTTTACT
1 AACAATAATAATAACTAACAATAATAATAAGGGTTTTTTACT
12608134 AACAATAATAATAACTAACAATAATAATAAGGGTTTTTTACT
1 AACAATAATAATAACTAACAATAATAATAAGGGTTTTTTACT
12608176 AACAATAATAATAA
1 AACAATAATAATAA
12608190 GGTTTTTTAC
Statistics
Matches: 75, Mismatches: 13, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
35 10 0.13
36 4 0.05
38 4 0.05
39 13 0.17
42 44 0.59
ACGTcount: A:0.51, C:0.12, G:0.05, T:0.32
Consensus pattern (42 bp):
AACAATAATAATAACTAACAATAATAATAAGGGTTTTTTACT
Found at i:12608199 original size:25 final size:26
Alignment explanation
Indices: 12608147--12608214 Score: 120
Period size: 25 Copynumber: 2.7 Consensus size: 26
12608137 AATAATAATA
12608147 ACTAACAATAATAATAAGGGTTTTTT
1 ACTAACAATAATAATAAGGGTTTTTT
12608173 ACTAACAATAATAATAA-GGTTTTTT
1 ACTAACAATAATAATAAGGGTTTTTT
*
12608198 ACTAACAACAATAATAA
1 ACTAACAATAATAATAA
12608215 TAACTAACAA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
25 24 0.59
26 17 0.41
ACGTcount: A:0.49, C:0.10, G:0.07, T:0.34
Consensus pattern (26 bp):
ACTAACAATAATAATAAGGGTTTTTT
Found at i:12608225 original size:16 final size:16
Alignment explanation
Indices: 12608200--12608272 Score: 64
Period size: 16 Copynumber: 4.6 Consensus size: 16
12608190 GGTTTTTTAC
12608200 TAAC-AACAATAATAA
1 TAACTAACAATAATAA
12608215 TAACTAACAATAATAA
1 TAACTAACAATAATAA
* *
12608231 CTAAC-AACAAAAAACAA
1 -TAACTAAC-AATAATAA
*
12608248 TAA-TAATCAACAATAA
1 TAACTAA-CAATAATAA
12608264 TAA-TAACAA
1 TAACTAACAA
12608273 CAAAAACACA
Statistics
Matches: 49, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
15 7 0.14
16 31 0.63
17 11 0.22
ACGTcount: A:0.66, C:0.15, G:0.00, T:0.19
Consensus pattern (16 bp):
TAACTAACAATAATAA
Found at i:12608228 original size:13 final size:12
Alignment explanation
Indices: 12608210--12608272 Score: 76
Period size: 13 Copynumber: 5.2 Consensus size: 12
12608200 TAACAACAAT
12608210 AATAATAACTAAC
1 AATAATAA-TAAC
12608223 AATAATAACTAAC
1 AATAATAA-TAAC
*
12608236 AACAA-AA-AAC
1 AATAATAATAAC
12608246 AATAATAATCAAC
1 AATAATAAT-AAC
12608259 AATAATAATAAC
1 AATAATAATAAC
12608271 AA
1 AA
12608273 CAAAAACACA
Statistics
Matches: 45, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
10 7 0.16
11 2 0.04
12 7 0.16
13 29 0.64
ACGTcount: A:0.67, C:0.14, G:0.00, T:0.19
Consensus pattern (12 bp):
AATAATAATAAC
Found at i:12608260 original size:36 final size:38
Alignment explanation
Indices: 12608204--12608291 Score: 119
Period size: 36 Copynumber: 2.3 Consensus size: 38
12608194 TTTTACTAAC
12608204 AACAATAATAATAACTAACAATAATAACTAACAACAAAA
1 AACAATAATAATAACTAACAATAATAAC-AACAACAAAA
*
12608243 AACAATAATAAT--C-AACAATAATAATAACAACAAAA
1 AACAATAATAATAACTAACAATAATAACAACAACAAAA
*
12608278 ACACAATAACAATA
1 A-ACAATAATAATA
12608292 TAAAATCCAT
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
35 11 0.24
36 21 0.47
37 1 0.02
39 12 0.27
ACGTcount: A:0.67, C:0.16, G:0.00, T:0.17
Consensus pattern (38 bp):
AACAATAATAATAACTAACAATAATAACAACAACAAAA
Found at i:12608365 original size:20 final size:20
Alignment explanation
Indices: 12608330--12608390 Score: 69
Period size: 20 Copynumber: 3.2 Consensus size: 20
12608320 ACATTTTCTT
*
12608330 TTCTTTTTTTTC-CTTCTCC
1 TTCTTTTTCTTCTCTTCTCC
12608349 TTCTTTTTCTTCTCTTCTCC
1 TTCTTTTTCTTCTCTTCTCC
12608369 TT-TTCTTTCTT-T-TTCT-C
1 TTCTT-TTTCTTCTCTTCTCC
12608386 TTCTT
1 TTCTT
12608391 CTCCTTGCTG
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
17 3 0.08
18 6 0.16
19 14 0.37
20 15 0.39
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (20 bp):
TTCTTTTTCTTCTCTTCTCC
Found at i:12608378 original size:26 final size:26
Alignment explanation
Indices: 12608324--12608396 Score: 80
Period size: 26 Copynumber: 2.9 Consensus size: 26
12608314 AATTATACAT
* *
12608324 TTTC-TTTTCTT-TTTTTTCCTTCTC
1 TTTCTTTTTCTTCTCTTCTCCTTCTC
* *
12608348 CTTCTTTTTCTTCTCTTCTCCTTTTC
1 TTTCTTTTTCTTCTCTTCTCCTTCTC
12608374 TTTCTTTTTC-TCTTCTTCTCCTT
1 TTTCTTTTTCTTC-TCTTCTCCTT
12608397 GCTGCTACTT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
24 3 0.07
25 9 0.22
26 29 0.71
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (26 bp):
TTTCTTTTTCTTCTCTTCTCCTTCTC
Found at i:12619664 original size:21 final size:20
Alignment explanation
Indices: 12619630--12619675 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
12619620 AATTTACTCT
* *
12619630 GAACCTTAAATTGTGAATTC
1 GAACCTAAAATTGTAAATTC
12619650 GAACCTAAGAATTGTAAATTC
1 GAACCTAA-AATTGTAAATTC
*
12619671 AAACC
1 GAACC
12619676 CAAACTTGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.28
Consensus pattern (20 bp):
GAACCTAAAATTGTAAATTC
Found at i:12619821 original size:26 final size:26
Alignment explanation
Indices: 12619792--12619843 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
12619782 ACCCTAAACA
*
12619792 TTGAACCTTGAATTGTGAACTCGAAC
1 TTGAACCTTGAACTGTGAACTCGAAC
*
12619818 TTGAACCTTGAACTGTGAATTCGAAC
1 TTGAACCTTGAACTGTGAACTCGAAC
12619844 CCAAACTCGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (26 bp):
TTGAACCTTGAACTGTGAACTCGAAC
Found at i:12620366 original size:16 final size:17
Alignment explanation
Indices: 12620340--12620372 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
12620330 AGTCACCCGT
12620340 TCTTAAAGATAATCCAC
1 TCTTAAAGATAATCCAC
12620357 TCTT-AAGATAATCCAC
1 TCTTAAAGATAATCCAC
12620373 CTACTTGGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.39, C:0.24, G:0.06, T:0.30
Consensus pattern (17 bp):
TCTTAAAGATAATCCAC
Found at i:12621669 original size:58 final size:58
Alignment explanation
Indices: 12621579--12621694 Score: 223
Period size: 58 Copynumber: 2.0 Consensus size: 58
12621569 TAGGTTTGGT
12621579 TACAAGATGTCACATCATACTTACATGACTAACTTGAAGAATTTACAACTAAATTGTA
1 TACAAGATGTCACATCATACTTACATGACTAACTTGAAGAATTTACAACTAAATTGTA
*
12621637 TACAAGATGTCACATCATACTTACATGACTAACTTGAATAATTTACAACTAAATTGTA
1 TACAAGATGTCACATCATACTTACATGACTAACTTGAAGAATTTACAACTAAATTGTA
12621695 CGACTAACAT
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.41, C:0.17, G:0.09, T:0.32
Consensus pattern (58 bp):
TACAAGATGTCACATCATACTTACATGACTAACTTGAAGAATTTACAACTAAATTGTA
Found at i:12623454 original size:40 final size:40
Alignment explanation
Indices: 12623405--12623612 Score: 249
Period size: 40 Copynumber: 5.2 Consensus size: 40
12623395 TCTTCGGAAT
* * *
12623405 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* * ** * *
12623444 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* *
12623484 TTAGCCCGGATATAA-CAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAATC-ACTAGCACAAATGCCTTCGGGTC
* * *
12623524 TTAGCCCGGATATAATCGCTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* *
12623564 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
12623604 TTAGCCCGG
1 TTAGCCCGG
12623613 GTATCATTCA
Statistics
Matches: 144, Mismatches: 22, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
39 3 0.02
40 140 0.97
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
Found at i:12625658 original size:42 final size:42
Alignment explanation
Indices: 12625599--12625682 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
12625589 ATTTTGCTTA
12625599 CCTATTTGTACTAATTTCAGACAAGATGGATTATTACTTCTT
1 CCTATTTGTACTAATTTCAGACAAGATGGATTATTACTTCTT
*
12625641 CCTATTTGTACTAATTTCATACAAGATGGATTATTACTTCTT
1 CCTATTTGTACTAATTTCAGACAAGATGGATTATTACTTCTT
12625683 TTGCATCAGA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.29, C:0.17, G:0.11, T:0.44
Consensus pattern (42 bp):
CCTATTTGTACTAATTTCAGACAAGATGGATTATTACTTCTT
Found at i:12627888 original size:2 final size:2
Alignment explanation
Indices: 12627825--12627868 Score: 60
Period size: 2 Copynumber: 24.0 Consensus size: 2
12627815 CTTAAAGTTA
12627825 AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT -T AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
12627864 -T AT AT
1 AT AT AT
12627869 CTTGATGTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
1 4 0.11
2 34 0.89
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12627970 original size:18 final size:18
Alignment explanation
Indices: 12627949--12627999 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 18
12627939 AAACAGAGAT
*
12627949 AGAAACGAAA-AAAGAAAA
1 AGAAA-GAAAGAAAAAAAA
12627967 AGAAAGAAAGAAAAAAAA
1 AGAAAGAAAGAAAAAAAA
12627985 AGGGAAAGAAAGAAA
1 A--GAAAGAAAGAAA
12628000 GGAGAAATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 4 0.14
18 13 0.45
20 12 0.41
ACGTcount: A:0.76, C:0.02, G:0.22, T:0.00
Consensus pattern (18 bp):
AGAAAGAAAGAAAAAAAA
Found at i:12627991 original size:20 final size:21
Alignment explanation
Indices: 12627958--12627999 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
12627948 TAGAAACGAA
12627958 AAAAGAAAAAGAAAGAAAGAA
1 AAAAGAAAAAGAAAGAAAGAA
**
12627979 AAAA-AAAGGGAAAGAAAGAA
1 AAAAGAAAAAGAAAGAAAGAA
12627999 A
1 A
12628000 GGAGAAATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (21 bp):
AAAAGAAAAAGAAAGAAAGAA
Found at i:12633716 original size:30 final size:29
Alignment explanation
Indices: 12633682--12633741 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 29
12633672 TTCCTGAGCC
12633682 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGC-AAAGTT
* * *
12633712 TAGGGGCAAAATTGTAATTTTGCAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAGTT
12633741 T
1 T
12633742 GAGTTAAGGA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 7 0.26
30 20 0.74
ACGTcount: A:0.38, C:0.07, G:0.25, T:0.30
Consensus pattern (29 bp):
TAGGGGCAAAAGTGTAAATATGCAAAGTT
Found at i:12638602 original size:29 final size:29
Alignment explanation
Indices: 12638569--12638642 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
12638559 GTGACGAGAT
12638569 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
12638598 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
12638627 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
12638643 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:12638658 original size:29 final size:29
Alignment explanation
Indices: 12638626--12638701 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
12638616 CTGGAAATAT
* *
12638626 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
** * * *
12638655 ATGGCACTGTGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
12638684 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
12638702 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.22, C:0.20, G:0.36, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:12638669 original size:58 final size:58
Alignment explanation
Indices: 12638569--12638701 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
12638559 GTGACGAGAT
* * * * * *
12638569 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT-GAAATCACA
* * ** * * *
12638627 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
12638685 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
12638702 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
Found at i:12651889 original size:40 final size:40
Alignment explanation
Indices: 12651834--12652043 Score: 294
Period size: 40 Copynumber: 5.2 Consensus size: 40
12651824 TATTCGGATG
12651834 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
12651874 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * *
12651917 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
** * *
12651957 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
12651997 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
12652037 ATATCCG
1 ATATCCG
12652044 ACTAAATCCC
Statistics
Matches: 153, Mismatches: 14, Indels: 6
0.88 0.08 0.03
Matches are distributed among these distances:
40 115 0.75
41 1 0.01
43 37 0.24
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:12651977 original size:83 final size:80
Alignment explanation
Indices: 12651838--12652043 Score: 290
Period size: 83 Copynumber: 2.5 Consensus size: 80
12651828 CGGATGATAT
* **
12651838 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
12651903 TGCGAGTAGTTG-CTATAC
66 TGC---TAG-TGACTATAC
*
12651921 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
*
12651986 TGCTAGTGACTATAT
66 TGCTAGTGACTATAC
* *
12652001 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATATCCG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TGACTATATCCG
12652044 ACTAAATCCC
Statistics
Matches: 114, Mismatches: 7, Indels: 7
0.89 0.05 0.05
Matches are distributed among these distances:
79 2 0.02
80 46 0.40
81 2 0.02
83 64 0.56
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
TGCTAGTGACTATAC
Found at i:12655952 original size:2 final size:2
Alignment explanation
Indices: 12655945--12655980 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
12655935 ATGTTTCGGT
12655945 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
12655981 AAGTTGAGTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:12660133 original size:28 final size:28
Alignment explanation
Indices: 12660091--12660188 Score: 90
Period size: 28 Copynumber: 3.5 Consensus size: 28
12660081 TATTTATATG
** *
12660091 TGGCACTTAACGTGCGAAGTATCGGGGA
1 TGGCACTTAGTGTGCGAAGTATCGAGGA
* * * *
12660119 TGGCATTTAGTGTGCGATA-CATCTAGAA
1 TGGCACTTAGTGTGCGA-AGTATCGAGGA
* * *
12660147 TGGCACTTGGTGTACGAAGTAACGAGGA
1 TGGCACTTAGTGTGCGAAGTATCGAGGA
12660175 TGGCACTTAGTGTG
1 TGGCACTTAGTGTG
12660189 TGAAACACCC
Statistics
Matches: 52, Mismatches: 16, Indels: 4
0.72 0.22 0.06
Matches are distributed among these distances:
27 1 0.02
28 50 0.96
29 1 0.02
ACGTcount: A:0.26, C:0.15, G:0.33, T:0.27
Consensus pattern (28 bp):
TGGCACTTAGTGTGCGAAGTATCGAGGA
Found at i:12660177 original size:56 final size:55
Alignment explanation
Indices: 12660105--12660252 Score: 154
Period size: 56 Copynumber: 2.6 Consensus size: 55
12660095 ACTTAACGTG
* * * *
12660105 CGAAGTATCGGGGATGGCATTTAGTGTGCGATACATCTAGAATGGCACTTGGTGTA
1 CGAAGTATC-GGGATGGCATTTAGTGTGCGATACATCCAGAACGACACTTAGTGTA
* * * * *
12660161 CGAAGTAACGAGGATGGCACTTAGTGTGTGAAACACCCAGAACGACACTTAGTGTA
1 CGAAGTATCG-GGATGGCATTTAGTGTGCGATACATCCAGAACGACACTTAGTGTA
* *
12660217 C-AAGGTATCGGGTATGACATCTAGTGTGCGATACAT
1 CGAA-GTATCGGG-ATGGCATTTAGTGTGCGATACAT
12660253 TGAATATTCA
Statistics
Matches: 73, Mismatches: 16, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
55 5 0.07
56 68 0.93
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (55 bp):
CGAAGTATCGGGATGGCATTTAGTGTGCGATACATCCAGAACGACACTTAGTGTA
Found at i:12660346 original size:32 final size:32
Alignment explanation
Indices: 12660310--12660389 Score: 142
Period size: 32 Copynumber: 2.5 Consensus size: 32
12660300 TACGAGATGA
*
12660310 TACAGGTATCTACGGAAATTGGTACAATATAG
1 TACAGGTATGTACGGAAATTGGTACAATATAG
*
12660342 TACAGGTATGTACGGAAATTGGTACAATATGG
1 TACAGGTATGTACGGAAATTGGTACAATATAG
12660374 TACAGGTATGTACGGA
1 TACAGGTATGTACGGA
12660390 GATTCAATTG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 46 1.00
ACGTcount: A:0.35, C:0.11, G:0.26, T:0.28
Consensus pattern (32 bp):
TACAGGTATGTACGGAAATTGGTACAATATAG
Found at i:12662919 original size:46 final size:47
Alignment explanation
Indices: 12662848--12663119 Score: 170
Period size: 46 Copynumber: 5.7 Consensus size: 47
12662838 TGTATGTGCT
* * *
12662848 AGTGTAA-AACATGTCTGGGATATGCATCGGCATTGAGACGAGAGTC
1 AGTGTAAGACCATGTCTAGGACATGCATCGGCATTGAGACGAGAGTC
* * *
12662894 AATGTAAGA-CATGTCTAGGACATGCATCGGC-TAG-GA-GATGTGTC
1 AGTGTAAGACCATGTCTAGGACATGCATCGGCATTGAGACGA-GAGTC
* * * *
12662938 AGTATAAGACCATG-CTTAGGACATGACATCGGCATGGATATGTGAGAG-C
1 AGTGTAAGACCATGTC-TAGGACATG-CATCGGCATTGAGA--CGAGAGTC
* * ** *
12662987 TAGTGTAAGACCATGTCTAGGACATGGCATCGACCTTGATTTCGATAGTC
1 -AGTGTAAGACCATGTCTAGGACAT-GCATCGGCATTGA-GACGAGAGTC
* * * *
12663037 AGTGTAAGACCATGTCTGGGACATGGCAT-TGAATTGATG--GATGAGCC
1 AGTGTAAGACCATGTCTAGGACAT-GCATCGGCATTGA-GACGA-GAGTC
*
12663084 AGTGTAAGACCATGTCT-GCGACATGGCATTGGCATT
1 AGTGTAAGACCATGTCTAG-GACAT-GCATCGGCATT
12663120 ATACCCTATG
Statistics
Matches: 181, Mismatches: 27, Indels: 34
0.75 0.11 0.14
Matches are distributed among these distances:
43 2 0.01
44 14 0.08
45 15 0.08
46 36 0.20
47 33 0.18
48 10 0.06
49 33 0.18
50 33 0.18
51 5 0.03
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.26
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTAGGACATGCATCGGCATTGAGACGAGAGTC
Found at i:12663051 original size:49 final size:46
Alignment explanation
Indices: 12662983--12663112 Score: 154
Period size: 49 Copynumber: 2.7 Consensus size: 46
12662973 GGATATGTGA
* *
12662983 GAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGACCTTGATTTCGAT
1 GAGCCAGTGTAAGACCATGTCT-GGACATGGCATCGA-ATTGA--TCGAT
* * *
12663033 -AGTCAGTGTAAGACCATGTCTGGGACATGGCATTGAATTGATGGAT
1 GAGCCAGTGTAAGACCATGTCT-GGACATGGCATCGAATTGATCGAT
12663079 GAGCCAGTGTAAGACCATGTCTGCGACATGGCAT
1 GAGCCAGTGTAAGACCATGTCTG-GACATGGCAT
12663113 TGGCATTATA
Statistics
Matches: 71, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
46 5 0.07
47 30 0.42
48 4 0.06
49 32 0.45
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.26
Consensus pattern (46 bp):
GAGCCAGTGTAAGACCATGTCTGGACATGGCATCGAATTGATCGAT
Found at i:12663107 original size:47 final size:48
Alignment explanation
Indices: 12662983--12663119 Score: 163
Period size: 47 Copynumber: 2.8 Consensus size: 48
12662973 GGATATGTGA
* * *
12662983 GAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGACCTTGATTTCGAT
1 GAGCCAGTGTAAGACCATGTCT-GGACATGGCATTGACATTGA-TTCGAT
* *
12663033 -AGTCAGTGTAAGACCATGTCTGGGACATGGCATTGA-ATTGA-TGGAT
1 GAGCCAGTGTAAGACCATGTCT-GGACATGGCATTGACATTGATTCGAT
*
12663079 GAGCCAGTGTAAGACCATGTCTGCGACATGGCATTGGCATT
1 GAGCCAGTGTAAGACCATGTCTG-GACATGGCATTGACATT
12663120 ATACCCTATG
Statistics
Matches: 76, Mismatches: 8, Indels: 8
0.83 0.09 0.09
Matches are distributed among these distances:
46 5 0.07
47 32 0.42
48 7 0.09
49 32 0.42
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.27
Consensus pattern (48 bp):
GAGCCAGTGTAAGACCATGTCTGGACATGGCATTGACATTGATTCGAT
Found at i:12667372 original size:122 final size:120
Alignment explanation
Indices: 12667157--12667380 Score: 322
Period size: 122 Copynumber: 1.9 Consensus size: 120
12667147 CACAATAACA
* * * *
12667157 ATGAGAATGAGAATAGAAATGTAATGGGTTTGAGGTTTTCCTAATATCAATTTAACACGGAATGT
1 ATGAGAATAAGAATAGAAATGTAATGGGTATGAGGTGTTCCTAATATCAATTTAACACGAAATGT
* **
12667222 ATGATAACTAACCTAGGAATGCAAATTAAATGATAGACATTGGCATGGTAATAGC
66 ATGATAACTAACCTAAGAACACAAATTAAATGATAGACATTGGCATGGTAATAGC
* * * **
12667277 ATGAGAATAAGCATAGTAATGTCATGGGTATGAGGTGTTCCTAATAACTTGATTTAACACGAAAT
1 ATGAGAATAAGAATAGAAATGTAATGGGTATGAGGTGTTCCTAAT-A-TCAATTTAACACGAAAT
12667342 GTATGATAACTAACCTAAGAACACAAATTAAATGATAGA
64 GTATGATAACTAACCTAAGAACACAAATTAAATGATAGA
12667381 AAAATGAAAA
Statistics
Matches: 90, Mismatches: 12, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
120 39 0.43
121 1 0.01
122 50 0.56
ACGTcount: A:0.41, C:0.11, G:0.20, T:0.29
Consensus pattern (120 bp):
ATGAGAATAAGAATAGAAATGTAATGGGTATGAGGTGTTCCTAATATCAATTTAACACGAAATGT
ATGATAACTAACCTAAGAACACAAATTAAATGATAGACATTGGCATGGTAATAGC
Found at i:12675869 original size:14 final size:15
Alignment explanation
Indices: 12675845--12675873 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
12675835 TAAAATGTTT
12675845 TTTTAGTTTAATTTA
1 TTTTAGTTTAATTTA
12675860 TTTT-GTTTAATTTA
1 TTTTAGTTTAATTTA
12675874 AAATGTTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (15 bp):
TTTTAGTTTAATTTA
Found at i:12682814 original size:27 final size:27
Alignment explanation
Indices: 12682783--12682881 Score: 85
Period size: 27 Copynumber: 3.7 Consensus size: 27
12682773 TAGTGCTCGG
* *
12682783 CAGTTGAGTTGTGAACTGGGGTTTGAT
1 CAGTTGAGTTGTGAACTGGGGTTTCAC
* * * *
12682810 TAGTTGAGTTGTGAATTAGTG-TTCAC
1 CAGTTGAGTTGTGAACTGGGGTTTCAC
12682836 CAGTTGAGTTGTGAACTGGTGG-TTCAC
1 CAGTTGAGTTGTGAACTGG-GGTTTCAC
* * **
12682863 TAATTGAGTTACGAACTGG
1 CAGTTGAGTTGTGAACTGG
12682882 TGTTCACTAG
Statistics
Matches: 57, Mismatches: 14, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
26 19 0.33
27 38 0.67
ACGTcount: A:0.22, C:0.10, G:0.31, T:0.36
Consensus pattern (27 bp):
CAGTTGAGTTGTGAACTGGGGTTTCAC
Found at i:12682882 original size:27 final size:26
Alignment explanation
Indices: 12682828--12682890 Score: 81
Period size: 27 Copynumber: 2.4 Consensus size: 26
12682818 TTGTGAATTA
* * **
12682828 GTGTTCACCAGTTGAGTTGTGAACTG
1 GTGTTCACTAATTGAGTTACGAACTG
12682854 GTGGTTCACTAATTGAGTTACGAACTG
1 GT-GTTCACTAATTGAGTTACGAACTG
12682881 GTGTTCACTA
1 GTGTTCACTA
12682891 GTCAAAAGTC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 10 0.31
27 22 0.69
ACGTcount: A:0.22, C:0.16, G:0.27, T:0.35
Consensus pattern (26 bp):
GTGTTCACTAATTGAGTTACGAACTG
Found at i:12682885 original size:53 final size:53
Alignment explanation
Indices: 12682783--12682888 Score: 133
Period size: 53 Copynumber: 2.0 Consensus size: 53
12682773 TAGTGCTCGG
* * * ** *
12682783 CAGTTGAGTTGTGAACTGGGGTTTGATTAGTTGAGTTGTGAATTAGTGTTCAC
1 CAGTTGAGTTGTGAACTGGGGTTTCACTAATTGAGTTACGAACTAGTGTTCAC
*
12682836 CAGTTGAGTTGTGAACTGGTGG-TTCACTAATTGAGTTACGAACTGGTGTTCAC
1 CAGTTGAGTTGTGAACTGG-GGTTTCACTAATTGAGTTACGAACTAGTGTTCAC
12682889 TAGTCAAAAG
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
53 43 0.96
54 2 0.04
ACGTcount: A:0.22, C:0.11, G:0.30, T:0.37
Consensus pattern (53 bp):
CAGTTGAGTTGTGAACTGGGGTTTCACTAATTGAGTTACGAACTAGTGTTCAC
Found at i:12688957 original size:46 final size:46
Alignment explanation
Indices: 12688904--12689125 Score: 315
Period size: 46 Copynumber: 4.8 Consensus size: 46
12688894 TATTTGGGCA
*
12688904 TCCGAACTCGTTGAATTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
12688950 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
12688996 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
12689043 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
12689089 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
12689126 GCGGGTTACA
Statistics
Matches: 157, Mismatches: 12, Indels: 14
0.86 0.07 0.08
Matches are distributed among these distances:
43 4 0.03
45 2 0.01
46 112 0.71
47 33 0.21
48 2 0.01
50 4 0.03
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:12691727 original size:29 final size:29
Alignment explanation
Indices: 12691694--12691824 Score: 154
Period size: 29 Copynumber: 4.5 Consensus size: 29
12691684 TGACGAGATC
*
12691694 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
* *
12691723 GGCACTAAGTGTGCGTGCTGGAAATATAA
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
* *
12691752 GGCACTAAGTGTGCATGTTGGAAAAATAT
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
* * ** *
12691781 GACACTATGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
**
12691810 GGCACTGGGTGTGCG
1 GGCACTAAGTGTGCG
12691825 AGCTCGGAGG
Statistics
Matches: 88, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 88 1.00
ACGTcount: A:0.30, C:0.15, G:0.31, T:0.24
Consensus pattern (29 bp):
GGCACTAAGTGTGCGTGCTGGAAAAATAT
Found at i:12694175 original size:17 final size:18
Alignment explanation
Indices: 12694139--12694176 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
12694129 GTCTAACCAA
*
12694139 TATATCGTGTCATGCAAC
1 TATATCGTGACATGCAAC
*
12694157 TATAT-GTGACATGCGAC
1 TATATCGTGACATGCAAC
12694174 TAT
1 TAT
12694177 GTGGCAGGCC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.34
Consensus pattern (18 bp):
TATATCGTGACATGCAAC
Found at i:12694351 original size:200 final size:200
Alignment explanation
Indices: 12693992--12694501 Score: 731
Period size: 200 Copynumber: 2.5 Consensus size: 200
12693982 TGAACATGTA
* *
12693992 CACCTAAACATGCCTTCAAAACCAATTCATTTTACCTATAATTTCTTAGATTAAAATCCATGCAA
1 CACCTAAACATGCCTTCAAAACCAAGTCATTTTACCTATAATTTCTTAGTTTAAAATCCATGCAA
* * * *
12694057 TTACTATCCATTATACCTACCTAAAATACACCAAATATAGCCAAAACATACCAAAAGACATTCAA
66 TTACCATCCATTATACCTACCTAAAATACACCAAATCTTGCCAAAACATACCAAAAGACATTAAA
** * * * *
12694122 CCTCACTGTCTAACCAATATATCGTGTCATGCAACTATATGTGACATGCGACTATGTGGCAGGCC
131 CCTCACTGTCTAACCAATATATCGTGTCATGCAACTATATGTGACACACGACCATATGGCAAGCA
12694187 GTGCG
196 GTGCG
*
12694192 CACCTAAACATGCCTTTAAAACCAAGTCATTTTACCTATAATTTCTTAGTTTAAAATCCATGCAA
1 CACCTAAACATGCCTTCAAAACCAAGTCATTTTACCTATAATTTCTTAGTTTAAAATCCATGCAA
12694257 TTACCATCCATTATACCTACCTAAAATACACCAAATCTTGCCAAAACATACCAAATA-ACATTAA
66 TTACCATCCATTATACCTACCTAAAATACACCAAATCTTGCCAAAACATACCAAA-AGACATTAA
* * * * * * *
12694321 ACCT-AGGTGTCTAGCTAATAT-GCTGTGTCATGCAACTGTGTGTGACACACGACCGTATGGCAA
130 ACCTCA-CTGTCTAACCAATATATC-GTGTCATGCAACTATATGTGACACACGACCATATGGCAA
*
12694384 GCAGTGTG
193 GCAGTGCG
* *
12694392 CACCTAAACATGCCTTCAAAACCAAGTCATTTTACCTATAATTTCTTA-TCTTACAAGCCATGCA
1 CACCTAAACATGCCTTCAAAACCAAGTCATTTTACCTATAATTTCTTAGT-TTAAAATCCATGCA
* *
12694456 ATTACCATCCATTATACCTACATAAAATACACCAAATCTTACCAAA
65 ATTACCATCCATTATACCTACCTAAAATACACCAAATCTTGCCAAA
12694502 TAACATTCAA
Statistics
Matches: 280, Mismatches: 26, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
199 3 0.01
200 276 0.99
201 1 0.00
ACGTcount: A:0.36, C:0.25, G:0.10, T:0.28
Consensus pattern (200 bp):
CACCTAAACATGCCTTCAAAACCAAGTCATTTTACCTATAATTTCTTAGTTTAAAATCCATGCAA
TTACCATCCATTATACCTACCTAAAATACACCAAATCTTGCCAAAACATACCAAAAGACATTAAA
CCTCACTGTCTAACCAATATATCGTGTCATGCAACTATATGTGACACACGACCATATGGCAAGCA
GTGCG
Found at i:12701695 original size:21 final size:21
Alignment explanation
Indices: 12701656--12701695 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
12701646 TACTAGACAT
*
12701656 AGGGGCACATGCCCGTGTGTG
1 AGGGGCACACGCCCGTGTGTG
12701677 AGGGGCAACACGCCC-TGTG
1 AGGGGC-ACACGCCCGTGTG
12701696 ACCAATTCGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.17, C:0.28, G:0.40, T:0.15
Consensus pattern (21 bp):
AGGGGCACACGCCCGTGTGTG
Found at i:12703066 original size:94 final size:94
Alignment explanation
Indices: 12702945--12703156 Score: 241
Period size: 94 Copynumber: 2.2 Consensus size: 94
12702935 GGCCAACGCA
** * ****
12702945 ATGTCCCAGACATGGTCTTACACTGGCTCTCACATCTCCGTGCCGATG-CATGTCGTTGACAT-G
1 ATGTCCCAGACAT-GTCTTACACTGGCTCT--CATCTCAATGCCAATGCCATGTCCCAAACATGG
** *
12703008 TCTTACGCTGGCT-TACATTGCGAGGCCGATGC
63 TCTTACAATGGCTCT-CATAGCGAGGCCGATGC
* *
12703040 ATGTCCCAGACATGTCTTACACTGGCTCTCGTTTCAATGCCAATGCCATGTCCCAAACATGGTCT
1 ATGTCCCAGACATGTCTTACACTGGCTCTCATCTCAATGCCAATGCCATGTCCCAAACATGGTCT
* *
12703105 TACAATGGCTCTCATAGTGTGGCCGATGC
66 TACAATGGCTCTCATAGCGAGGCCGATGC
12703134 ATGTCCCAGACATGTCTTACACT
1 ATGTCCCAGACATGTCTTACACT
12703157 AGCGCACAAG
Statistics
Matches: 100, Mismatches: 14, Indels: 7
0.83 0.12 0.06
Matches are distributed among these distances:
92 11 0.11
93 10 0.10
94 65 0.65
95 14 0.14
ACGTcount: A:0.21, C:0.29, G:0.21, T:0.29
Consensus pattern (94 bp):
ATGTCCCAGACATGTCTTACACTGGCTCTCATCTCAATGCCAATGCCATGTCCCAAACATGGTCT
TACAATGGCTCTCATAGCGAGGCCGATGC
Found at i:12703137 original size:47 final size:46
Alignment explanation
Indices: 12703031--12703154 Score: 144
Period size: 47 Copynumber: 2.7 Consensus size: 46
12703021 TACATTGCGA
* * *
12703031 GGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCGTTTCAAT
1 GGCCGATGCATGTCCCAGACATGTCTTACAATGGCTCTCATGT-AAT
* * *
12703078 -GCCAATGCCATGTCCCAAACATGGTCTTACAATGGCTCTCATAGT-GT
1 GGCCGATG-CATGTCCCAGACAT-GTCTTACAATGGCTCTCAT-GTAAT
12703125 GGCCGATGCATGTCCCAGACATGTCTTACA
1 GGCCGATGCATGTCCCAGACATGTCTTACA
12703155 CTAGCGCACA
Statistics
Matches: 65, Mismatches: 8, Indels: 9
0.79 0.10 0.11
Matches are distributed among these distances:
46 14 0.22
47 27 0.42
48 23 0.35
49 1 0.02
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (46 bp):
GGCCGATGCATGTCCCAGACATGTCTTACAATGGCTCTCATGTAAT
Found at i:12714793 original size:20 final size:20
Alignment explanation
Indices: 12714768--12714820 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
12714758 AAATTCAAGA
* *
12714768 AATATTGGTACTTCCTTCAG
1 AATATTGATACTTCATTCAG
12714788 AATATTGATACTTCATTCAG
1 AATATTGATACTTCATTCAG
12714808 AATATTGATACTT
1 AATATTGATACTT
12714821 TGAGCTTGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.32, C:0.15, G:0.11, T:0.42
Consensus pattern (20 bp):
AATATTGATACTTCATTCAG
Found at i:12715278 original size:3 final size:3
Alignment explanation
Indices: 12715270--12715315 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
12715260 TCTACATGAC
12715270 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
12715316 GCATTTACCA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:12720340 original size:49 final size:49
Alignment explanation
Indices: 12720277--12720375 Score: 180
Period size: 49 Copynumber: 2.0 Consensus size: 49
12720267 TTTTGAGTAC
* *
12720277 TTATTTTCTAAAGTCCAAAGTTGGCTTCAAAGTTATTGTTAACATTATT
1 TTATTTTCTAAAGTCCAAAATTGGCTTCAAAGTGATTGTTAACATTATT
12720326 TTATTTTCTAAAGTCCAAAATTGGCTTCAAAGTGATTGTTAACATTATT
1 TTATTTTCTAAAGTCCAAAATTGGCTTCAAAGTGATTGTTAACATTATT
12720375 T
1 T
12720376 AGTTACAAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.44
Consensus pattern (49 bp):
TTATTTTCTAAAGTCCAAAATTGGCTTCAAAGTGATTGTTAACATTATT
Found at i:12724512 original size:34 final size:34
Alignment explanation
Indices: 12724473--12724537 Score: 112
Period size: 34 Copynumber: 1.9 Consensus size: 34
12724463 CATTATCAAA
*
12724473 TATGCAATAGGGTCTTAGCCCATCACAGTATTAG
1 TATGCAATAGGGCCTTAGCCCATCACAGTATTAG
*
12724507 TATGCATTAGGGCCTTAGCCCATCACAGTAT
1 TATGCAATAGGGCCTTAGCCCATCACAGTAT
12724538 CATTAGCAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (34 bp):
TATGCAATAGGGCCTTAGCCCATCACAGTATTAG
Found at i:12725618 original size:4 final size:4
Alignment explanation
Indices: 12725592--12725651 Score: 68
Period size: 4 Copynumber: 14.5 Consensus size: 4
12725582 AGAATTCGGC
* *
12725592 AAAG AACAG AGAAG AAGAG AAAG AAAG AAAT AAAA AAAG AAA- AAAG AAAG
1 AAAG AA-AG A-AAG AA-AG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG
12725642 AAAG AAAG AA
1 AAAG AAAG AA
12725652 GAAGAAGAAG
Statistics
Matches: 49, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
3 3 0.06
4 35 0.71
5 10 0.20
6 1 0.02
ACGTcount: A:0.75, C:0.02, G:0.22, T:0.02
Consensus pattern (4 bp):
AAAG
Found at i:12725655 original size:3 final size:3
Alignment explanation
Indices: 12725647--12725718 Score: 144
Period size: 3 Copynumber: 24.0 Consensus size: 3
12725637 GAAAGAAAGA
12725647 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
12725695 AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG
12725719 TGGAGGAAAA
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 69 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:12731829 original size:33 final size:34
Alignment explanation
Indices: 12731785--12731851 Score: 93
Period size: 33 Copynumber: 2.0 Consensus size: 34
12731775 ACAGTCAAAT
*
12731785 ACAGTTTTGGGCCTAAGCCCCT-TCAGTATCAGTA
1 ACAGTTTTGGGCCTAAGCCCATCTCAGTA-CAGTA
*
12731819 ACAG-TTTGGGCCTTAGCCCATCTCAGTACAGTA
1 ACAGTTTTGGGCCTAAGCCCATCTCAGTACAGTA
12731852 TCAAATATGC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
33 20 0.67
34 10 0.33
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.28
Consensus pattern (34 bp):
ACAGTTTTGGGCCTAAGCCCATCTCAGTACAGTA
Found at i:12731845 original size:34 final size:34
Alignment explanation
Indices: 12731785--12731932 Score: 104
Period size: 34 Copynumber: 4.2 Consensus size: 34
12731775 ACAGTCAAAT
* * *
12731785 ACAGTTTTGGGCCTAAGCCCCT-TCAGTATCAGTA
1 ACAG-TTTGGGCCTTAGCCCATCACAGTATCAGTA
*
12731819 ACAGTTTGGGCCTTAGCCCATCTCAGTACAGTATCAAATA
1 ACAGTTTGGGCCTTAGCCCA--TC---ACAGTATC-AGTA
* * *
12731859 TGCAG-TAGGGCCTTAGCCCATCACAGTATCAATA
1 -ACAGTTTGGGCCTTAGCCCATCACAGTATCAGTA
* *
12731893 TGCA-TTAGGGCCTTAGCCCATCACAGTATCAGTA
1 -ACAGTTTGGGCCTTAGCCCATCACAGTATCAGTA
*
12731927 GCAGTT
1 ACAGTT
12731933 ATGCATTATT
Statistics
Matches: 97, Mismatches: 7, Indels: 20
0.78 0.06 0.16
Matches are distributed among these distances:
33 17 0.18
34 42 0.43
35 9 0.09
38 2 0.02
39 7 0.07
40 17 0.18
41 3 0.03
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (34 bp):
ACAGTTTGGGCCTTAGCCCATCACAGTATCAGTA
Found at i:12731873 original size:40 final size:39
Alignment explanation
Indices: 12731826--12731926 Score: 131
Period size: 34 Copynumber: 2.7 Consensus size: 39
12731816 GTAACAGTTT
12731826 GGGCCTTAGCCCATCTCAGTACAGTATCAAATATGCAGTA
1 GGGCCTTAGCCCATCTCAGTACAGTATC-AATATGCAGTA
*
12731866 GGGCCTTAGCCCA--TC---ACAGTATCAATATGCATTA
1 GGGCCTTAGCCCATCTCAGTACAGTATCAATATGCAGTA
*
12731900 GGGCCTTAGCCCATCACAGTATCAGTA
1 GGGCCTTAGCCCATCTCAGTA-CAGTA
12731927 GCAGTTATGC
Statistics
Matches: 53, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
34 23 0.43
35 8 0.15
36 1 0.02
38 2 0.04
39 1 0.02
40 18 0.34
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.25
Consensus pattern (39 bp):
GGGCCTTAGCCCATCTCAGTACAGTATCAATATGCAGTA
Found at i:12731888 original size:35 final size:35
Alignment explanation
Indices: 12731846--12731923 Score: 140
Period size: 34 Copynumber: 2.3 Consensus size: 35
12731836 CCATCTCAGT
12731846 ACAGTATCAAATATGCAGTAGGGCCTTAGCCCATC
1 ACAGTATCAAATATGCAGTAGGGCCTTAGCCCATC
*
12731881 ACAGTATC-AATATGCATTAGGGCCTTAGCCCATC
1 ACAGTATCAAATATGCAGTAGGGCCTTAGCCCATC
12731915 ACAGTATCA
1 ACAGTATCA
12731924 GTAGCAGTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
34 33 0.80
35 8 0.20
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (35 bp):
ACAGTATCAAATATGCAGTAGGGCCTTAGCCCATC
Found at i:12741170 original size:17 final size:15
Alignment explanation
Indices: 12741148--12741195 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
12741138 TCTTCATAAA
12741148 CATATATCATTCATTT
1 CATATATCA-TCATTT
12741164 CATTATATCAAT-ATTT
1 CA-TATATC-ATCATTT
*
12741180 CATATACCATCATTT
1 CATATATCATCATTT
12741195 C
1 C
12741196 TATGTATTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
14 2 0.07
15 10 0.36
16 8 0.29
17 7 0.25
18 1 0.04
ACGTcount: A:0.33, C:0.21, G:0.00, T:0.46
Consensus pattern (15 bp):
CATATATCATCATTT
Found at i:12741597 original size:24 final size:22
Alignment explanation
Indices: 12741565--12741644 Score: 70
Period size: 24 Copynumber: 3.4 Consensus size: 22
12741555 CTGTATACTG
*
12741565 GGAAACTCATAAGAGCCATAATCA
1 GGAAGCTCAT-AGAGCCATAA-CA
* *
12741589 GGAAGCTCATGCGAGCCAATAACG
1 GGAAGCTCAT-AGAGCC-ATAACA
*
12741613 GGTAGCTCCATAGAGCCATTAACA
1 GGAAGCT-CATAGAGCCA-TAACA
12741637 GGAAGCTC
1 GGAAGCTC
12741645 CGGATAGGCA
Statistics
Matches: 45, Mismatches: 8, Indels: 7
0.75 0.13 0.12
Matches are distributed among these distances:
23 2 0.04
24 36 0.80
25 7 0.16
ACGTcount: A:0.36, C:0.24, G:0.24, T:0.16
Consensus pattern (22 bp):
GGAAGCTCATAGAGCCATAACA
Found at i:12741702 original size:24 final size:24
Alignment explanation
Indices: 12741576--12741719 Score: 78
Period size: 24 Copynumber: 5.9 Consensus size: 24
12741566 GAAACTCATA
12741576 AGAGCC-ATAATCAGGAAGCT-CATG
1 AGAGCCAAT-ATCAGGAAGCTCCA-G
* * * * *
12741600 CGAGCCAATAACGGGTAGCTCCAT
1 AGAGCCAATATCAGGAAGCTCCAG
* * *
12741624 AGAGCCATTAACAGGAAGCTCCGG
1 AGAGCCAATATCAGGAAGCTCCAG
* * * *
12741648 ATAGGCAATAT-ATTGGGAAGTTCAAG
1 AGAGCCAATATCA---GGAAGCTCCAG
* *
12741674 CGAGCCAATATCGGGAAGCTCCAG
1 AGAGCCAATATCAGGAAGCTCCAG
*
12741698 AGAGCCATTACTCAGGAAGCTC
1 AGAGCCAATA-TCAGGAAGCTC
12741720 ACAAAGACCC
Statistics
Matches: 86, Mismatches: 27, Indels: 13
0.68 0.21 0.10
Matches are distributed among these distances:
23 1 0.01
24 55 0.64
25 14 0.16
26 16 0.19
ACGTcount: A:0.33, C:0.23, G:0.26, T:0.17
Consensus pattern (24 bp):
AGAGCCAATATCAGGAAGCTCCAG
Found at i:12744396 original size:26 final size:25
Alignment explanation
Indices: 12744361--12744445 Score: 84
Period size: 26 Copynumber: 3.4 Consensus size: 25
12744351 GGTATTACAA
12744361 GAGC-TCCTGATTAAAGGCTCTTCAT
1 GAGCTTCCTGATTAAAGGCTCTT-AT
*** *
12744386 GAGCTTCCTGATTAAAATTTCTTTGT
1 GAGCTTCCTGATTAAAGGCTC-TTAT
* *
12744412 GAACTTCCTGATT-ATGGCTCTTAT
1 GAGCTTCCTGATTAAAGGCTCTTAT
12744436 GAGCTTCCTG
1 GAGCTTCCTG
12744446 TTATATAGCC
Statistics
Matches: 47, Mismatches: 11, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
24 12 0.26
25 7 0.15
26 26 0.55
27 2 0.04
ACGTcount: A:0.21, C:0.21, G:0.19, T:0.39
Consensus pattern (25 bp):
GAGCTTCCTGATTAAAGGCTCTTAT
Found at i:12744555 original size:26 final size:26
Alignment explanation
Indices: 12744474--12744543 Score: 122
Period size: 26 Copynumber: 2.7 Consensus size: 26
12744464 TTTCTTGATA
* *
12744474 GGCTCTTTGTAAGCTTCCCGATTAAT
1 GGCTCTTTGTGAGCTTCCCAATTAAT
12744500 GGCTCTTTGTGAGCTTCCCAATTAAT
1 GGCTCTTTGTGAGCTTCCCAATTAAT
12744526 GGCTCTTTGTGAGCTTCC
1 GGCTCTTTGTGAGCTTCC
12744544 TATTATATGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 42 1.00
ACGTcount: A:0.16, C:0.24, G:0.21, T:0.39
Consensus pattern (26 bp):
GGCTCTTTGTGAGCTTCCCAATTAAT
Found at i:12749619 original size:48 final size:48
Alignment explanation
Indices: 12749548--12749643 Score: 192
Period size: 48 Copynumber: 2.0 Consensus size: 48
12749538 GATGGGAAAA
12749548 AGCAAAATGAAGAAGACCATTATGTTTTATGTTTTAACTTTATTAATT
1 AGCAAAATGAAGAAGACCATTATGTTTTATGTTTTAACTTTATTAATT
12749596 AGCAAAATGAAGAAGACCATTATGTTTTATGTTTTAACTTTATTAATT
1 AGCAAAATGAAGAAGACCATTATGTTTTATGTTTTAACTTTATTAATT
12749644 TTATTTTAAC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.38, C:0.08, G:0.12, T:0.42
Consensus pattern (48 bp):
AGCAAAATGAAGAAGACCATTATGTTTTATGTTTTAACTTTATTAATT
Found at i:12765578 original size:37 final size:37
Alignment explanation
Indices: 12765528--12765603 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
12765518 CTAGGAAACT
12765528 CTCCTTTGCGAGATGTGTTACACTTGCCCAATCAGTC
1 CTCCTTTGCGAGATGTGTTACACTTGCCCAATCAGTC
12765565 CTCCTTTGCGAGATGTGTTACACTTGCCCAATCAGTC
1 CTCCTTTGCGAGATGTGTTACACTTGCCCAATCAGTC
12765602 CT
1 CT
12765604 TCTTGCTATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.18, C:0.30, G:0.18, T:0.33
Consensus pattern (37 bp):
CTCCTTTGCGAGATGTGTTACACTTGCCCAATCAGTC
Found at i:12770284 original size:17 final size:17
Alignment explanation
Indices: 12770264--12770300 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
12770254 AACCTAACCC
*
12770264 AAAAAAAAA-ACAAAGA
1 AAAAAAAAAGAAAAAGA
12770280 AAAAAAAAAGAAAAAGA
1 AAAAAAAAAGAAAAAGA
12770297 AAAA
1 AAAA
12770301 CTTACCAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.89, C:0.03, G:0.08, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAGAAAAAGA
Found at i:12770299 original size:11 final size:11
Alignment explanation
Indices: 12770267--12770300 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
12770257 CTAACCCAAA
12770267 AAAAAAACAAAG
1 AAAAAAA-AAAG
12770279 AAAAAAAAAAG
1 AAAAAAAAAAG
12770290 AAAAAGAAAAA
1 AAAAA-AAAAA
12770301 CTTACCAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.43
12 12 0.57
ACGTcount: A:0.88, C:0.03, G:0.09, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:12771152 original size:11 final size:11
Alignment explanation
Indices: 12771134--12771163 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
12771124 GTGTATATTG
12771134 TATATATTATA
1 TATATATTATA
*
12771145 TTTATATTATA
1 TATATATTATA
12771156 TATATATT
1 TATATATT
12771164 CTTAATGTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
TATATATTATA
Found at i:12773411 original size:12 final size:12
Alignment explanation
Indices: 12773394--12773429 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
12773384 ATTCATTTGA
12773394 CATTCATGCATT
1 CATTCATGCATT
12773406 CATTCATGCATT
1 CATTCATGCATT
*
12773418 CATTCATACATT
1 CATTCATGCATT
12773430 GCATATCCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.28, C:0.25, G:0.06, T:0.42
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:12778613 original size:69 final size:70
Alignment explanation
Indices: 12778445--12778755 Score: 352
Period size: 69 Copynumber: 4.5 Consensus size: 70
12778435 TTTTCAAGGA
* * *
12778445 AAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTGTTG
1 AAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAATTTTTG
12778510 TTTTT
66 TTTTT
* * * *
12778515 CAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTC-GGGCACGCTGAGGTATTTTCAATTTT
1 --AAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAATTTT
12778579 TGTGTTTT
64 TGT-TTTT
* *
12778587 -AATCAACTCATATTGCGAGAGATGAGTTGAGCCT----ACACG-TTAGGTATTTTTATTTTTTG
1 AAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAATTTTTG
*
12778646 TTTTCA
66 TTTT-T
* * * *
12778652 AAATCAACTCATATTGCGAGA-AGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAGTTTAT
1 AAATCAACTCATATTGCGAGAGA-TGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAATTTTT
12778716 G-TTTT
65 GTTTTT
** * *
12778721 AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 AAATCAACTCATATTGCGAGAGATGAGTTGAGCCT
12778756 TTTAATTTTT
Statistics
Matches: 206, Mismatches: 23, Indels: 23
0.82 0.09 0.09
Matches are distributed among these distances:
64 3 0.01
65 19 0.09
66 36 0.17
69 62 0.30
70 7 0.03
71 41 0.20
72 38 0.18
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.36
Consensus pattern (70 bp):
AAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAATTTTTG
TTTTT
Found at i:12778875 original size:72 final size:71
Alignment explanation
Indices: 12778755--12778919 Score: 251
Period size: 72 Copynumber: 2.3 Consensus size: 71
12778745 GAGTTAAGCC
** * *
12778755 TTTT-AATTTTTGTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCT
1 TTTTCAATTTTTGTTTTCAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCT
12778819 GAGGTA
66 GAGGTA
* *
12778825 TTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGC
1 TTTTCAATTTTTGT-TTTCAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
12778890 TGAGGTA
65 TGAGGTA
*
12778897 TTTTCAATTTCTGTTTTCAATTT
1 TTTTCAATTTTTGTTTTCAATTT
12778920 ACGTTGTTCA
Statistics
Matches: 85, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
70 4 0.05
71 17 0.20
72 64 0.75
ACGTcount: A:0.22, C:0.15, G:0.21, T:0.41
Consensus pattern (71 bp):
TTTTCAATTTTTGTTTTCAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCT
GAGGTA
Found at i:12779048 original size:154 final size:156
Alignment explanation
Indices: 12778769--12779172 Score: 506
Period size: 139 Copynumber: 2.7 Consensus size: 156
12778759 AATTTTTGTT
12778769 TTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATT
1 TTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATT
* * *
12778834 TTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATT
66 TTTGTGTTTTAA-TTCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGCTGAGGTATT
12778899 TTCAATTTCTGTTTTCAATTTACGTTG
130 TTCAATTTCTGTTTTCAATTTACGTTG
12778926 TTCAAGAATCAACTCATATTGCTAGA-GTGAGTTGAGCCTCGGGGCACGCTGAGGTA-TTTCAAT
1 TTCAA-AATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAAT
* *
12778989 TTTTGTGTTTTAA-TCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACAGGTTGAGGTATT
65 TTTTGTGTTTTAATTCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGCTGAGGTATT
*
12779053 TTTAA--------TT---TTT--GTT-
130 TTCAATTTCTGTTTTCAATTTACGTTG
* * * * *
12779066 TTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-GGGCACACTGAGGTATTTTTAGTT
1 TTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATT
* * * * *
12779130 TATGT-TTTAAATT-GACTCATATTGCGAGAGGTGAGTTAAGCCT
66 TTTGTGTTTTAATTCAACTCATATTGCGAGAGATGAGTTGAGCCT
12779173 TTTAATTTTT
Statistics
Matches: 228, Mismatches: 15, Indels: 26
0.85 0.06 0.10
Matches are distributed among these distances:
139 65 0.29
140 30 0.13
141 3 0.01
143 3 0.01
146 2 0.01
154 50 0.22
156 20 0.09
157 35 0.15
158 20 0.09
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.36
Consensus pattern (156 bp):
TTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATT
TTTGTGTTTTAATTCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGCTGAGGTATTT
TCAATTTCTGTTTTCAATTTACGTTG
Found at i:12779164 original size:68 final size:68
Alignment explanation
Indices: 12778932--12779172 Score: 281
Period size: 68 Copynumber: 3.5 Consensus size: 68
12778922 GTTGTTCAAG
* * *
12778932 AATCAACTCATATTGCTAGA-GTGAGTTGAGCCTCGGGGCACGCTGAGGTA-TTTCAATTTTTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGGCACACTGAGGTATTTTTAATTTTTGT
*
12778995 GTTTT
65 -TTTA
* ** *
12779000 AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAG-ACAGGTTGAGGTATTTTTAATTTTTG
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGCACA--CTGAGGTATTTTTAATTTTTG
12779064 TTTTCAA
64 TTTT--A
* * *
12779071 AATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGCACACTGAGGTATTTTTAGTTTATGTT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGCACACTGAGGTATTTTTAATTTTTGTT
12779136 TTA
66 TTA
** *
12779139 AATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
12779173 TTTAATTTTT
Statistics
Matches: 147, Mismatches: 19, Indels: 14
0.82 0.11 0.08
Matches are distributed among these distances:
67 2 0.01
68 51 0.35
69 23 0.16
70 34 0.23
71 34 0.23
72 3 0.02
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.35
Consensus pattern (68 bp):
AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGCACACTGAGGTATTTTTAATTTTTGTT
TTA
Found at i:12779197 original size:417 final size:413
Alignment explanation
Indices: 12778513--12779369 Score: 1594
Period size: 417 Copynumber: 2.1 Consensus size: 413
12778503 ATTGTTGTTT
12778513 TTCAA-AATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGCACGCTGAGGTATTTTCAATT
1 TTCAAGAATCAACTCATATTGCTAGA-GTGAGTTGAGCCTCGGGCACGCTGAGGTATTTTCAATT
*
12778577 TTTGTGTTTTAATCAACTCATATTGCGAGAGATGAGTTGAGCCTACACGTTAGGTATTTTTATTT
65 TTTGTGTTTTAATCAACTCATATTGCGAGAGATGAGTTGAGCCTACACGTTAGGTATTTTTAATT
*
12778642 TTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTT
130 TTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACACTGAGGTATTT
12778707 TTAGTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTC
195 TTAGTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTC
12778772 AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTT
260 AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTT
12778837 GTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTC
325 GTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTC
12778902 AATTTCTGTTTTCAATTTACGTTG
390 AATTTCTGTTTTCAATTTACGTTG
12778926 TTCAAGAATCAACTCATATTGCTAGAGTGAGTTGAGCCTCGGGGCACGCTGAGGTA-TTTCAATT
1 TTCAAGAATCAACTCATATTGCTAGAGTGAGTTGAGCCTC-GGGCACGCTGAGGTATTTTCAATT
*
12778990 TTTGTGTTTTAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACAGGTTGAGGTATTTT
65 TTTGTGTTTTAATCAACTCATATTGCGAGAGATGAGTTGAGCCT----ACACGTT-AGGTATTTT
12779055 TAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-GGGCACACTGAGG
125 TAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACACTGAGG
12779119 TATTTTTAGTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTG
190 TATTTTTAGTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTG
12779184 TTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAA
255 TTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAA
12779249 TTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTA
320 TTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTA
12779314 TTTTCAATTTCTGTTTTCAATTTACGTTG
385 TTTTCAATTTCTGTTTTCAATTTACGTTG
*
12779343 TTCAAGAATCAACTCATATTGCGAGAG
1 TTCAAGAATCAACTCATATTGCTAGAG
12779370 GTAGGTTGAA
Statistics
Matches: 433, Mismatches: 4, Indels: 10
0.97 0.01 0.02
Matches are distributed among these distances:
413 71 0.16
414 35 0.08
417 268 0.62
418 59 0.14
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.37
Consensus pattern (413 bp):
TTCAAGAATCAACTCATATTGCTAGAGTGAGTTGAGCCTCGGGCACGCTGAGGTATTTTCAATTT
TTGTGTTTTAATCAACTCATATTGCGAGAGATGAGTTGAGCCTACACGTTAGGTATTTTTAATTT
TTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACACTGAGGTATTTT
TAGTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTCA
AAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTG
TGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCA
ATTTCTGTTTTCAATTTACGTTG
Found at i:12779292 original size:72 final size:71
Alignment explanation
Indices: 12779172--12779609 Score: 286
Period size: 72 Copynumber: 6.1 Consensus size: 71
12779162 GAGTTAAGCC
* *
12779172 TTTT-AATTTTTGTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCT
1 TTTTCAATTTTTGTTTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCT
12779236 GAGGTA
66 GAGGTA
** * *
12779242 TTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGC
1 TTTTCAATTTTTGT-TTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGC
12779307 TGAGGTA
65 TGAGGTA
* * ** * * * * ** * *** *
12779314 TTTTCAATTTCTG-TTTT-CAATTTACGT--TGTT-CAAGA-ATCAACTCATATTGCGAGAGGTA
1 TTTTCAATTTTTGTTTTTAAAATCAAC-TCATATTGCGAGAGGTGAGTTGAGCCT-CG-G-GGCA
* * ***
12779373 GGTTGA-ACC
62 CGCTGAGGTA
** * * *
12779382 TTTT-AATTTCTACTTTTTCAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACACG
1 TTTTCAATTT-TTGTTTTT-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACG
12779446 CTGAGGTA
64 CTGAGGTA
* * ** * *
12779454 ATTTCAATTTCTGTTGTCAAAAAAATCAACTCATATTACTAGAGGTGAGTTGAGCCTC-GGGCAC
1 TTTTCAATTTTTGTT-T--TTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCAC
12779518 GCTGAGGTA
63 GCTGAGGTA
** * * **
12779527 TTTTCAATTTTATG-TTTTAATTTCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACAC
1 TTTTCAATTTT-TGTTTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GG-GGCAC
*
12779591 GCCGAGGTA
63 GCTGAGGTA
12779600 TTTTCAATTT
1 TTTTCAATTT
12779610 CCGTTTTTCA
Statistics
Matches: 267, Mismatches: 78, Indels: 43
0.69 0.20 0.11
Matches are distributed among these distances:
66 5 0.02
67 10 0.04
68 8 0.03
69 13 0.05
70 41 0.15
71 20 0.07
72 74 0.28
73 55 0.21
74 41 0.15
ACGTcount: A:0.26, C:0.17, G:0.21, T:0.36
Consensus pattern (71 bp):
TTTTCAATTTTTGTTTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCT
GAGGTA
Found at i:12779592 original size:73 final size:73
Alignment explanation
Indices: 12779401--12779609 Score: 246
Period size: 73 Copynumber: 2.9 Consensus size: 73
12779391 CTACTTTTTC
* * *
12779401 AAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAA-TTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTTA
12779465 TGTTGTCAAA
66 TGTTGT--AA
* * *
12779475 AAAATCAACTCATATTACTAGAGGTGAGTTGAGCCTC-GGGCACGCTGAGGTATTTTCAATTTTA
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTTA
*
12779539 TGTT-T-T
66 TGTTGTAA
** * * *
12779545 AATTTCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGTATTTTCAATTT
12779610 CCGTTTTTCA
Statistics
Matches: 116, Mismatches: 15, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
70 31 0.27
71 2 0.02
73 42 0.36
74 41 0.35
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.32
Consensus pattern (73 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTTA
TGTTGTAA
Found at i:12779619 original size:14 final size:14
Alignment explanation
Indices: 12779600--12779634 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
12779590 CGCCGAGGTA
12779600 TTTTCAATTTCCGT
1 TTTTCAATTTCCGT
*
12779614 TTTTCAATTTCTGT
1 TTTTCAATTTCCGT
*
12779628 CTTTCAA
1 TTTTCAA
12779635 AAAAAAATCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.17, C:0.20, G:0.06, T:0.57
Consensus pattern (14 bp):
TTTTCAATTTCCGT
Found at i:12779741 original size:74 final size:77
Alignment explanation
Indices: 12779615--12779777 Score: 224
Period size: 74 Copynumber: 2.1 Consensus size: 77
12779605 AATTTCCGTT
* *
12779615 TTTCAATTTCTGTCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-A
1 TTTCAATTTCTGTCTGTC-AAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCA
*
12779679 CACGCTGAGATAA
65 CACGCCGAGATAA
* *
12779692 TTTCAATTTCTGT-TGTC-AAAAAAATCAACTCGTATTGCGAGTGGCGAGTTGAGCCTCAGGTCA
1 TTTCAATTTCTGTCTGTCAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG-CA
* *
12779755 CACGCCGAGGTAT
65 CACGCCGAGATAA
12779768 TTTCAATTTC
1 TTTCAATTTC
12779778 CGTTTTTCAA
Statistics
Matches: 77, Mismatches: 7, Indels: 5
0.87 0.08 0.06
Matches are distributed among these distances:
74 40 0.52
76 24 0.31
77 13 0.17
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (77 bp):
TTTCAATTTCTGTCTGTCAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCAC
ACGCCGAGATAA
Found at i:12779887 original size:165 final size:163
Alignment explanation
Indices: 12779455--12780109 Score: 914
Period size: 165 Copynumber: 4.0 Consensus size: 163
12779445 GCTGAGGTAA
* * *
12779455 TTTCAATTTCTG--TTGTC-AAAAAAATCAACTCATATTACTAGAGGTGAGTTGAGCCTCGGGCA
1 TTTCAATTTCTGCCTT-TCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACA
* * * *
12779517 CGCTGAGGTATTTTCAATTTTATGTT-T-TAATTTCAACTCGTATTGCGAGAGGCGAGTTGAGCC
65 CGCTGAGGTAATTTCAA-TTTCTGTTGTCAAAATTCAACTCGTATTGCGAGAGGCGAGTTGAGCC
12779580 TCAGGTCACACGCCGAGGTATTTTCAATTTCCGTT
129 TCAGGTCACACGCCGAGGTATTTTCAATTTCCGTT
*
12779615 TTTCAATTTCTGTCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
1 TTTCAATTTCTGCCTTTC-AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGAC
* * *
12779680 ACGCTGAGATAATTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGTGGCGAGTTGAG
64 ACGCTGAGGTAATTTCAATTTCTGTTGTC--AAAATTCAACTCGTATTGCGAGAGGCGAGTTGAG
12779745 CCTCAGGTCACACGCCGAGGTATTTTCAATTTCCGTT
127 CCTCAGGTCACACGCCGAGGTATTTTCAATTTCCGTT
*
12779782 TTTCAATTTTTGCCTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
1 TTTCAATTTCTGCCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACA
* *
12779846 CGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAAGTCAACTCGTATTGCGAGAGGTGAGTTGAGC
65 CGCTGAGGTAATTTCAATTTCTGTTGTC--AAAATTCAACTCGTATTGCGAGAGGCGAGTTGAGC
* * *
12779911 CTCAGATCACACGTCGAGGTATTTTCAATTTCCATT
128 CTCAGGTCACACGCCGAGGTATTTTCAATTTCCGTT
12779947 TTTCAATTTCTGCCTTTCAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGAC
1 TTTCAATTTCTGCCTTTC--AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGAC
* * ***
12780012 ACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCC
64 ACGCTGAGGTAATTTCAATTTCTGTTGTCAAAATTCAACTCGTATTGCGAGAGGCGAGTTGAGCC
* ** *
12780077 TCAAG--ACACG-TTAGGTATTTTCAATTTCTGTT
129 TCAGGTCACACGCCGAGGTATTTTCAATTTCCGTT
12780109 T
1 T
12780110 CAAAAATCAA
Statistics
Matches: 452, Mismatches: 31, Indels: 22
0.90 0.06 0.04
Matches are distributed among these distances:
160 12 0.03
161 2 0.00
162 21 0.05
163 50 0.11
164 20 0.04
165 192 0.42
167 115 0.25
168 40 0.09
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (163 bp):
TTTCAATTTCTGCCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACAC
GCTGAGGTAATTTCAATTTCTGTTGTCAAAATTCAACTCGTATTGCGAGAGGCGAGTTGAGCCTC
AGGTCACACGCCGAGGTATTTTCAATTTCCGTT
Found at i:12780270 original size:78 final size:76
Alignment explanation
Indices: 12779968--12780465 Score: 350
Period size: 71 Copynumber: 6.5 Consensus size: 76
12779958 GCCTTTCAAA
* *
12779968 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-G-GACACGCTGAGGTAATTTCAAT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACACACGCTGAGGTATTTTCAAT
*
12780031 TTCT-GTTTTC
66 TTCTATTTTTC
* ** * *
12780041 --AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCA-AGACACG-TTAGGTATTTTCAAT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACACACGCTGAGGTATTTTCAAT
*
12780102 TTC--TGTTTC
66 TTCTATTTTTC
* * * * * *
12780111 --AAAAATCAACTTATATTGCGAGAGGTGAAGTTGACCCT-TGGCTCATGCGCTGAGCTATTTTC
1 AAAAAAATCAACTCATATTGCGAGAGGTG-AGTTGAGCCTCAGACACA--CGCTGAGGTATTTTC
*
12780173 AATTTCTATCTTTC
63 AATTTCTATTTTTC
* *
12780187 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTTTTC
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGA-CACACGCTGAGGTA--TTTTC
*
12780252 AATTTATATTTTTC
63 AATTTCTATTTTTC
* * * ** *
12780266 AAAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTTACATG-TCGAGGTA-TTTC
1 -AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGACACACGCT-GAGGTATTTTC
**
12780329 AAAATCTATTTTTC
63 AATTTCTATTTTTC
* * * * *
12780343 AAATTCTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT-TGGCTCA--CT--GC
1 AAA----------AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACACACGCTGAGG
*
12780403 TATTTTCAATTTCTGTTTTTTTTTC
56 TATTTTCAATTTC----TATTTTTC
12780428 AAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGC
1 AAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC
12780466 TTTTTAATTC
Statistics
Matches: 339, Mismatches: 51, Indels: 67
0.74 0.11 0.15
Matches are distributed among these distances:
70 27 0.08
71 62 0.18
72 6 0.02
73 2 0.01
74 16 0.05
75 4 0.01
76 37 0.11
77 31 0.09
78 27 0.08
79 21 0.06
80 49 0.14
81 9 0.03
83 1 0.00
84 3 0.01
85 10 0.03
86 34 0.10
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.34
Consensus pattern (76 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACACACGCTGAGGTATTTTCAAT
TTCTATTTTTC
Found at i:12780485 original size:31 final size:30
Alignment explanation
Indices: 12780447--12780509 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 30
12780437 CAACTCATAT
12780447 TGCGAGAGGTGAGTTGAG-CTTTTTAATTCTC
1 TGCGAGAGGTGAGTTGAGTC-TTTTAATT-TC
*
12780478 TGCGAGAGTTGAGTTGAGTCTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
12780508 TG
1 TG
12780510 TTTTTCAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 4 0.13
31 25 0.83
32 1 0.03
ACGTcount: A:0.19, C:0.11, G:0.29, T:0.41
Consensus pattern (30 bp):
TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
Found at i:12790064 original size:39 final size:38
Alignment explanation
Indices: 12789928--12790067 Score: 149
Period size: 38 Copynumber: 3.6 Consensus size: 38
12789918 CCGCACCAAG
* * * * *
12789928 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAC
1 GCCTTCGGGTCTTAACCCGGATAT-ACAACTTGCAC-AAT
*
12789968 GCCTTCGGGTCTTAGCCCGGATA-ACAACTTGCACGAAT
1 GCCTTCGGGTCTTAACCCGGATATACAACTTGCAC-AAT
* *
12790006 GCCTTCGGGTCTTAGCCCGGATATAGC-ACTAGCACAATT
1 GCCTTCGGGTCTTAACCCGGATATA-CAACTTGCACAA-T
12790045 GCCTTCGGGTCTTAACCCGGATA
1 GCCTTCGGGTCTTAACCCGGATA
12790068 AATTTCAGCA
Statistics
Matches: 88, Mismatches: 9, Indels: 7
0.85 0.09 0.07
Matches are distributed among these distances:
38 36 0.41
39 31 0.35
40 21 0.24
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.24
Consensus pattern (38 bp):
GCCTTCGGGTCTTAACCCGGATATACAACTTGCACAAT
Found at i:12790102 original size:38 final size:39
Alignment explanation
Indices: 12789968--12790105 Score: 149
Period size: 38 Copynumber: 3.6 Consensus size: 39
12789958 TTGCACAAAC
*
12789968 GCCTTCGGGTCTTAGCCCGGAT-AA-CAACTTGCACGAA-T
1 GCCTTCGGGTCTTAGCCCGGATAAAGC-ACTAGCAC-AATT
*
12790006 GCCTTCGGGTCTTAGCCCGGATATAGCACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATAAAGCACTAGCACAATT
* *** *
12790045 GCCTTCGGGTCTTAACCCGGATAAATTTC-AGCATAATT
1 GCCTTCGGGTCTTAGCCCGGATAAAGCACTAGCACAATT
* *
12790083 GTCTTCGGGGCTTAGCCCGGATA
1 GCCTTCGGGTCTTAGCCCGGATA
12790106 TCATTCAATT
Statistics
Matches: 86, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
38 52 0.60
39 33 0.38
40 1 0.01
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (39 bp):
GCCTTCGGGTCTTAGCCCGGATAAAGCACTAGCACAATT
Found at i:12796993 original size:30 final size:30
Alignment explanation
Indices: 12796957--12797014 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
12796947 CTAAGTTAAG
12796957 TGATCAATAGTCTAAGTCCCCAAACCAAAA
1 TGATCAATAGTCTAAGTCCCCAAACCAAAA
* *
12796987 TGATCAATATTCTGAGTCCCCAAACCAA
1 TGATCAATAGTCTAAGTCCCCAAACCAA
12797015 GTGTTATGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.40, C:0.28, G:0.10, T:0.22
Consensus pattern (30 bp):
TGATCAATAGTCTAAGTCCCCAAACCAAAA
Found at i:12800191 original size:17 final size:18
Alignment explanation
Indices: 12800169--12800202 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
12800159 TAATTGTAAT
*
12800169 GAATTTT-TACAATTATA
1 GAATTTTATAAAATTATA
12800186 GAATTTTATAAAATTAT
1 GAATTTTATAAAATTAT
12800203 TTATAAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (18 bp):
GAATTTTATAAAATTATA
Found at i:12801456 original size:14 final size:14
Alignment explanation
Indices: 12801437--12801463 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
12801427 CTCTCTTGCA
12801437 CACTTGTATTTTAC
1 CACTTGTATTTTAC
12801451 CACTTGTATTTTA
1 CACTTGTATTTTA
12801464 TTTTATCATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.19, G:0.07, T:0.52
Consensus pattern (14 bp):
CACTTGTATTTTAC
Found at i:12802641 original size:18 final size:18
Alignment explanation
Indices: 12802603--12802642 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
12802593 ATTGGAAATG
*
12802603 TAAATAATTAATGGATGA
1 TAAATAATTAATGGATAA
12802621 TAAATAATTAATAGGA-AA
1 TAAATAATTAAT-GGATAA
12802639 TAAA
1 TAAA
12802643 ATCATTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 17 0.85
19 3 0.15
ACGTcount: A:0.57, C:0.00, G:0.12, T:0.30
Consensus pattern (18 bp):
TAAATAATTAATGGATAA
Found at i:12806946 original size:15 final size:15
Alignment explanation
Indices: 12806926--12806955 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
12806916 CTCATAATCC
12806926 CTTCTAACTTGCATA
1 CTTCTAACTTGCATA
12806941 CTTCTAACTTGCATA
1 CTTCTAACTTGCATA
12806956 GTTCATTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.27, G:0.07, T:0.40
Consensus pattern (15 bp):
CTTCTAACTTGCATA
Found at i:12810364 original size:31 final size:30
Alignment explanation
Indices: 12810329--12810404 Score: 100
Period size: 32 Copynumber: 2.5 Consensus size: 30
12810319 AAGTCCACCC
*
12810329 ATATTATTTTTTTTAATTTTTAAAAATATTT
1 ATATTATTTTTTTTAATATTTAAAAAT-TTT
* *
12810360 ATATTATATTATTTTAATATTTAATAATTTT
1 ATATTAT-TTTTTTTAATATTTAAAAATTTT
12810391 ATA-TATTTTTTTTA
1 ATATTATTTTTTTTA
12810405 TTGTAAATTT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
29 7 0.17
30 3 0.08
31 13 0.32
32 17 0.43
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (30 bp):
ATATTATTTTTTTTAATATTTAAAAATTTT
Found at i:12812015 original size:12 final size:12
Alignment explanation
Indices: 12811994--12812026 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
12811984 TATCGGAGGA
*
12811994 AGCAGTAGCTGC
1 AGCAGCAGCTGC
12812006 AGCAGCAGCTGC
1 AGCAGCAGCTGC
12812018 AGCAGCAGC
1 AGCAGCAGC
12812027 AGCAACAGCC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.27, C:0.30, G:0.33, T:0.09
Consensus pattern (12 bp):
AGCAGCAGCTGC
Found at i:12814290 original size:30 final size:30
Alignment explanation
Indices: 12814228--12814290 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
12814218 ATTTATTTTA
*
12814228 TTGTTAATTTTCTTATTATTTTAAAGGCAT
1 TTGTTAATTTTCTTATTATTTTAAAGGAAT
*
12814258 TTGTTAATTTTTTTATTATTTTAGAA-GAAT
1 TTGTTAATTTTCTTATTATTTTA-AAGGAAT
12814288 TTG
1 TTG
12814291 CTTCTTAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 28 0.93
31 2 0.07
ACGTcount: A:0.27, C:0.03, G:0.11, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTCTTATTATTTTAAAGGAAT
Found at i:12818878 original size:39 final size:40
Alignment explanation
Indices: 12818824--12819000 Score: 184
Period size: 40 Copynumber: 4.5 Consensus size: 40
12818814 GAGTCACGTA
* *
12818824 CCTTCGGGAT-TTAA-CCGGATATAACCACAAGCACAATTG
1 CCTTCGGG-TCTTAACCCGGATATAACAACTAGCACAATTG
* ** *
12818863 CCTTCGGGTCTTAACCCGGATTTAGTAACTTGCACAATTG
1 CCTTCGGGTCTTAACCCGGATATAACAACTAGCACAATTG
*
12818903 CCTTCGGGTCTTAACCCGGATATAACAACTCGCACGAA-TG
1 CCTTCGGGTCTTAACCCGGATATAACAACTAGCAC-AATTG
* * *
12818943 CCTTCGGGTCTT-AGCCGGATATAATC-ACTAGCATAAATG
1 CCTTCGGGTCTTAACCCGGATATAA-CAACTAGCACAATTG
* *
12818982 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGTCTTAACCCGG
12819001 GTATCATTCA
Statistics
Matches: 116, Mismatches: 16, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
38 3 0.03
39 42 0.36
40 69 0.59
41 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CCTTCGGGTCTTAACCCGGATATAACAACTAGCACAATTG
Found at i:12827105 original size:40 final size:40
Alignment explanation
Indices: 12826930--12827101 Score: 188
Period size: 40 Copynumber: 4.3 Consensus size: 40
12826920 GAGTCACGTA
* * *
12826930 CCTTCGGGAT-TTAA-CCGGATATAACCACAAGCACAATTG
1 CCTTCGGG-TCTTAACCCGGATATAATCACTAGCACAAATG
* * * * *
12826969 CCTTCGGGTCTTAACCCGGATTTAGTAACTTGCACAATTG
1 CCTTCGGGTCTTAACCCGGATATAATCACTAGCACAAATG
* *
12827009 CCTTCGGGTCTTAACCCGGATATAA-CAACTCGCACGAATG
1 CCTTCGGGTCTTAACCCGGATATAATC-ACTAGCACAAATG
* *
12827049 CCTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATG
1 CCTTCGGGTCTTAACCCGGATATAATCACTAGCACAAATG
*
12827089 CCTTCGGGACTTA
1 CCTTCGGGTCTTA
12827102 GCCCAGGTAT
Statistics
Matches: 112, Mismatches: 17, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
38 1 0.01
39 12 0.11
40 98 0.88
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (40 bp):
CCTTCGGGTCTTAACCCGGATATAATCACTAGCACAAATG
Found at i:12833113 original size:30 final size:30
Alignment explanation
Indices: 12833011--12833178 Score: 166
Period size: 30 Copynumber: 5.8 Consensus size: 30
12833001 ATAAATAAGA
* * * *
12833011 CTTTATGGCTATCTTTGTT-AAAGGAA-GA
1 CTTTGTGGCTATCTCTGTTAAAAAGAATGC
* * * *
12833039 CTTTGTGGCGATCTCTGTGACAAGGAA-GC
1 CTTTGTGGCTATCTCTGTTAAAAAGAATGC
* *
12833068 ATTAGTGGCTATCTCTGTTAAAAAGAATGC
1 CTTTGTGGCTATCTCTGTTAAAAAGAATGC
*
12833098 CTTTGTGGTTATCTCTGTTAAAAAGAATGC
1 CTTTGTGGCTATCTCTGTTAAAAAGAATGC
* * *
12833128 CTTTGTGGCTATCTCAGTT-AAATGGATG-
1 CTTTGTGGCTATCTCTGTTAAAAAGAATGC
*
12833156 CTTTGTGGCTATCTTTGTTAAAA
1 CTTTGTGGCTATCTCTGTTAAAA
12833179 GGACGCCTAC
Statistics
Matches: 116, Mismatches: 21, Indels: 5
0.82 0.15 0.04
Matches are distributed among these distances:
28 32 0.28
29 38 0.33
30 46 0.40
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.38
Consensus pattern (30 bp):
CTTTGTGGCTATCTCTGTTAAAAAGAATGC
Found at i:12833115 original size:59 final size:59
Alignment explanation
Indices: 12833016--12833149 Score: 146
Period size: 59 Copynumber: 2.3 Consensus size: 59
12833006 TAAGACTTTA
* * * *
12833016 TGGCTATCTTTGTT-AAAGGAAGACTTTGTGGCGATCTCTGTGACAAGGAA-GCATTAG
1 TGGCTATCTCTGTTAAAAAGAAGACTTTGTGGCGATCTCTGTGAAAAAGAATGCATTAG
* ** * * *
12833073 TGGCTATCTCTGTTAAAAAGAATGCCTTTGTGGTTATCTCTGTTAAAAAGAATGCCTTTG
1 TGGCTATCTCTGTTAAAAAGAA-GACTTTGTGGCGATCTCTGTGAAAAAGAATGCATTAG
*
12833133 TGGCTATCTCAGTTAAA
1 TGGCTATCTCTGTTAAA
12833150 TGGATGCTTT
Statistics
Matches: 63, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
57 13 0.21
58 6 0.10
59 23 0.37
60 21 0.33
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (59 bp):
TGGCTATCTCTGTTAAAAAGAAGACTTTGTGGCGATCTCTGTGAAAAAGAATGCATTAG
Found at i:12834847 original size:79 final size:78
Alignment explanation
Indices: 12834716--12834946 Score: 372
Period size: 79 Copynumber: 2.9 Consensus size: 78
12834706 GAGTCACATC
* *
12834716 TCATGTAACTGTAGTGAATCAGGATTACCTTTTCAGGTCAAATCCTACCCACCTTAAGTTACCAT
1 TCATGTAACTGTAGCGAATCAGGATTACCTTTTCAGGTCAAATCCTATCCACCTTAAGTTACCAT
12834781 AATGAATCATATA
66 AATGAATCATATA
* * *
12834794 TCATGTAACCGTAGCGAATTAGGATTACCCTTTTCAGGTCAAATCCTATCCACCTTAGGTTACCA
1 TCATGTAACTGTAGCGAATCAGGATTA-CCTTTTCAGGTCAAATCCTATCCACCTTAAGTTACCA
12834859 TAATGAATCATATA
65 TAATGAATCATATA
* * *
12834873 TCGTGTAACTATAGCGAATCAGGATTACCTTTTCAGGTTAAATCCTATCCACCTTAAGTTACCAT
1 TCATGTAACTGTAGCGAATCAGGATTACCTTTTCAGGTCAAATCCTATCCACCTTAAGTTACCAT
*
12834938 AGTGAATCA
66 AATGAATCA
12834947 GGAATAAATC
Statistics
Matches: 140, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
78 68 0.49
79 72 0.51
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.32
Consensus pattern (78 bp):
TCATGTAACTGTAGCGAATCAGGATTACCTTTTCAGGTCAAATCCTATCCACCTTAAGTTACCAT
AATGAATCATATA
Found at i:12834959 original size:40 final size:40
Alignment explanation
Indices: 12834911--12835047 Score: 177
Period size: 40 Copynumber: 3.5 Consensus size: 40
12834901 CTTTTCAGGT
*
12834911 TAAATCCTATCCACCTTAAGTTACCATAGTGAATCAGGAA
1 TAAATCCTATCCACTTTAAGTTACCATAGTGAATCAGGAA
* *
12834951 TAAATCCTATTCACTTTAAATTACCATAGTGAATCAGGAA
1 TAAATCCTATCCACTTTAAGTTACCATAGTGAATCAGGAA
* * * ** *
12834991 CAAATCCTATCCACTTTGAGGTATTATAGTGAATCAAGAA
1 TAAATCCTATCCACTTTAAGTTACCATAGTGAATCAGGAA
*
12835031 -CAATCCTATCCACTTTA
1 TAAATCCTATCCACTTTA
12835048 TATTCTCGAG
Statistics
Matches: 84, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
39 15 0.18
40 69 0.82
ACGTcount: A:0.37, C:0.21, G:0.11, T:0.31
Consensus pattern (40 bp):
TAAATCCTATCCACTTTAAGTTACCATAGTGAATCAGGAA
Found at i:12841594 original size:2 final size:2
Alignment explanation
Indices: 12841587--12841611 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
12841577 CTTTCTTATC
12841587 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
12841612 CTCAATTCCT
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:12844284 original size:46 final size:47
Alignment explanation
Indices: 12844234--12844403 Score: 163
Period size: 46 Copynumber: 3.7 Consensus size: 47
12844224 GTGTGAGCTA
*
12844234 TGTAAGAC-ATGTCTGGGACAT-GCATCGGCCACATCATGAGAGCCAG
1 TGTAAGACAATGTCTGGGACATGGCATCGGCCAGAT-ATGAGAGCCAG
* * * * *
12844280 TGTAAGAC-ATGTCTGGGACAT-GCATCGGCTATGAGATGATAGTCAA
1 TGTAAGACAATGTCTGGGACATGGCATCGGCCA-GATATGAGAGCCAG
* * *
12844326 TATAAGACAATGTCTGGGACATGGCATCGACTTGAGATAT--GAGCCAG
1 TGTAAGACAATGTCTGGGACATGGCATCGGC--CAGATATGAGAGCCAG
* *
12844373 TGTAAGACTATGTCTAGGACATGGCATCGGC
1 TGTAAGACAATGTCTGGGACATGGCATCGGC
12844404 ACCTTGCCCT
Statistics
Matches: 102, Mismatches: 17, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
46 45 0.44
47 45 0.44
48 7 0.07
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (47 bp):
TGTAAGACAATGTCTGGGACATGGCATCGGCCAGATATGAGAGCCAG
Found at i:12844362 original size:47 final size:47
Alignment explanation
Indices: 12844273--12844401 Score: 147
Period size: 47 Copynumber: 2.7 Consensus size: 47
12844263 CACATCATGA
* * *
12844273 GAGCCAGTGTAAGACATGTCTGGGACAT-GCATCGGCTATGAGATGAT
1 GAGCCAATATAAGACATGTCTGGGACATGGCATCGACTATGAGAT-AT
*
12844320 -AGTCAATATAAGACAATGTCTGGGACATGGCATCGACT-TGAGATAT
1 GAGCCAATATAAGAC-ATGTCTGGGACATGGCATCGACTATGAGATAT
* * *
12844366 GAGCCAGTGTAAGACTATGTCTAGGACATGGCATCG
1 GAGCCAATATAAGAC-ATGTCTGGGACATGGCATCG
12844402 GCACCTTGCC
Statistics
Matches: 70, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
46 13 0.19
47 49 0.70
48 8 0.11
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.24
Consensus pattern (47 bp):
GAGCCAATATAAGACATGTCTGGGACATGGCATCGACTATGAGATAT
Found at i:12846099 original size:25 final size:25
Alignment explanation
Indices: 12846056--12846114 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
12846046 TGGCTCATAT
*
12846056 GAGCTTCCTGATAATTGGC-TCGCAA
1 GAGCTTCCTGATAATTGGCTTAG-AA
*
12846081 GAGCTTCCTGTTACA-TGGCTTAGAA
1 GAGCTTCCTGATA-ATTGGCTTAGAA
12846106 GAGCTTCCT
1 GAGCTTCCT
12846115 AATTATATGC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
25 27 0.90
26 3 0.10
ACGTcount: A:0.22, C:0.24, G:0.24, T:0.31
Consensus pattern (25 bp):
GAGCTTCCTGATAATTGGCTTAGAA
Found at i:12852042 original size:39 final size:39
Alignment explanation
Indices: 12851982--12852082 Score: 148
Period size: 39 Copynumber: 2.6 Consensus size: 39
12851972 GCTTTGATGA
*
12851982 GCTTCAGTTAGCCTTCGGGCTTCCATTTAACACTTGTGT
1 GCTTCAGTTAGCCTTCGGGCTTCCATTTAACACTTATGT
* * *
12852021 GCTTTAGTTAGCCTTCAGGCTTCCATTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCATTTAACACTTATGT
* *
12852060 GCTTCAGCTAGACTTCGGGCTTC
1 GCTTCAGTTAGCCTTCGGGCTTC
12852083 AAATCACGAT
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 54 1.00
ACGTcount: A:0.16, C:0.26, G:0.21, T:0.38
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCATTTAACACTTATGT
Found at i:12854033 original size:23 final size:21
Alignment explanation
Indices: 12854002--12854053 Score: 59
Period size: 23 Copynumber: 2.4 Consensus size: 21
12853992 AAAACAATTA
*
12854002 TTTTTTTATAAAAAATTCAAATG
1 TTTTATTATAAAAAA-T-AAATG
* *
12854025 TTTTATTATAAAATATAATTG
1 TTTTATTATAAAAAATAAATG
12854046 TTTTATTA
1 TTTTATTA
12854054 AATCAAATGA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 12 0.46
22 1 0.04
23 13 0.50
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (21 bp):
TTTTATTATAAAAAATAAATG
Found at i:12854038 original size:21 final size:21
Alignment explanation
Indices: 12854005--12854055 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
12853995 ACAATTATTT
12854005 TTTTA-TAAAAAAT-TCAAATG
1 TTTTATTAAAAAATAT-AAATG
* *
12854025 TTTTATTATAAAATATAATTG
1 TTTTATTAAAAAATATAAATG
12854046 TTTTATTAAA
1 TTTTATTAAA
12854056 TCAAATGAGG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 5 0.19
21 20 0.77
22 1 0.04
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (21 bp):
TTTTATTAAAAAATATAAATG
Found at i:12856141 original size:6 final size:6
Alignment explanation
Indices: 12856130--12856156 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
12856120 GATTGGTTTA
12856130 ATTTTG ATTTTG ATTTTG ATTTTG ATT
1 ATTTTG ATTTTG ATTTTG ATTTTG ATT
12856157 AAGATATATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.15, T:0.67
Consensus pattern (6 bp):
ATTTTG
Found at i:12866065 original size:17 final size:18
Alignment explanation
Indices: 12866043--12866076 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
12866033 AAATTAATAT
*
12866043 AATATAA-ATATAAAAAC
1 AATATAATAAATAAAAAC
12866060 AATATAATAAATAAAAA
1 AATATAATAAATAAAAA
12866077 ATTAACCCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (18 bp):
AATATAATAAATAAAAAC
Found at i:12868935 original size:21 final size:21
Alignment explanation
Indices: 12868909--12868955 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
12868899 GGTGTTTTAC
12868909 TTTCTGTTCAACTCTTATGAG
1 TTTCTGTTCAACTCTTATGAG
* *
12868930 TTTCTGTTCAGCTCTTTTGAG
1 TTTCTGTTCAACTCTTATGAG
*
12868951 CTTCT
1 TTTCT
12868956 ACTCAGCTCT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.13, C:0.21, G:0.15, T:0.51
Consensus pattern (21 bp):
TTTCTGTTCAACTCTTATGAG
Done.