Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 31 of 253
Found at i:8123449 original size:172 final size:169
Alignment explanation
Indices: 8123215--8123713 Score: 634
Period size: 170 Copynumber: 2.9 Consensus size: 169
8123205 AATCCGCTCC
* * * ** * *
8123215 ACTGTAACTTCAGGGAGATAGGAT--TATGTCTTTAATCTACTCCGCTGTAACCTCAGGGAGATA
1 ACTGTAACTTCAGAGAGATAAGATCCTTTGT-TTTAATCCGCTCCACTGTAACTTCAGGGAGATA
* *
8123278 -GATTATGTCTTTAATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTGCAATTCTCAGTCTAC
65 GGATTATGTCTTTAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTCAGTCT--
* **
8123342 TCCGCTGTAATCTCAGGGAAATAAGACCTGATGCGATCTACTCT
128 TCCACTGTAATCTCAGGGAAATAAGACCTGACACGATCTA--CT
* *
8123386 ACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTTAGGGAGATAG
1 ACTGTAACTTCAGAGAGATAAGATCCTTTGTTTTAATCCGCTCCACTGTAACTTCAGGGAGATAG
* * *
8123451 GATTATGTCTGTAATCTGCTCCGCTATAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTTC
66 GATTATGTCTTTAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTC-TCAGTCTTC
8123516 CACTGTAATCTCAGGGAAATAAGACCTGACACGATCTACT
130 CACTGTAATCTCAGGGAAATAAGACCTGACACGATCTACT
* *
8123556 -CTGTAACTTCAGAGAGATAAGATCCTTCGTTTTAATCCGCTCCACTGCAA-TATCAGGGAGATA
1 ACTGTAACTTCAGAGAGATAAGATCCTTTGTTTTAATCCGCTCCACTGTAACT-TCAGGGAGATA
* * **
8123619 GGATTACTATCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTTGGTCT
65 GGATTA-TGTCTTTAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTC-TCAGTC-
*
8123684 GTTCCA-TGT-ATCTCAGGGAGATAAGACCTG
127 -TTCCACTGTAATCTCAGGGAAATAAGACCTG
8123714 TATAATGAAC
Statistics
Matches: 293, Mismatches: 27, Indels: 17
0.87 0.08 0.05
Matches are distributed among these distances:
168 1 0.00
169 63 0.22
170 74 0.25
171 25 0.09
172 70 0.24
173 54 0.18
174 6 0.02
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (169 bp):
ACTGTAACTTCAGAGAGATAAGATCCTTTGTTTTAATCCGCTCCACTGTAACTTCAGGGAGATAG
GATTATGTCTTTAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTCAGTCTTCC
ACTGTAATCTCAGGGAAATAAGACCTGACACGATCTACT
Found at i:8135900 original size:22 final size:23
Alignment explanation
Indices: 8135875--8135928 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 23
8135865 AGTATAAAGG
8135875 ATATATATAGACATGAACTAA-A
1 ATATATATAGACATGAACTAACA
* * * *
8135897 ATATGTGTATACATGAATTAACA
1 ATATATATAGACATGAACTAACA
*
8135920 AAATATATA
1 ATATATATA
8135929 AAGTATATTT
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
22 17 0.71
23 7 0.29
ACGTcount: A:0.52, C:0.07, G:0.09, T:0.31
Consensus pattern (23 bp):
ATATATATAGACATGAACTAACA
Found at i:8136365 original size:3 final size:3
Alignment explanation
Indices: 8136357--8136410 Score: 67
Period size: 3 Copynumber: 18.7 Consensus size: 3
8136347 AATAAATAGG
* * *
8136357 TAA TAA TAA TAA T-G TAG TAG TAA TAA TAA TAA TAA TAA T-A TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
8136403 TAA TAA TA
1 TAA TAA TA
8136411 GGACTAATTC
Statistics
Matches: 47, Mismatches: 2, Indels: 4
0.89 0.04 0.08
Matches are distributed among these distances:
2 3 0.06
3 44 0.94
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:8136379 original size:20 final size:21
Alignment explanation
Indices: 8136351--8136410 Score: 79
Period size: 20 Copynumber: 2.9 Consensus size: 21
8136341 AATATGAATA
*
8136351 AATAGGTAATAATAATAAT-GT
1 AATA-GTAATAATAATAATAAT
*
8136372 AGTAGTAATAATAATAATAAT
1 AATAGTAATAATAATAATAAT
8136393 AATA-TAATAATAATAATA
1 AATAGTAATAATAATAATA
8136411 GGACTAATTC
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
20 28 0.80
21 7 0.20
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.33
Consensus pattern (21 bp):
AATAGTAATAATAATAATAAT
Found at i:8137480 original size:15 final size:16
Alignment explanation
Indices: 8137454--8137483 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
8137444 TAGTGTTTAG
8137454 GTGGGTTATTGGGTTT
1 GTGGGTTATTGGGTTT
8137470 GTGGG-TATTGGGTT
1 GTGGGTTATTGGGTT
8137484 CTTTTGTTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.07, C:0.00, G:0.47, T:0.47
Consensus pattern (16 bp):
GTGGGTTATTGGGTTT
Found at i:8138985 original size:22 final size:21
Alignment explanation
Indices: 8138946--8139004 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 21
8138936 AAAATAAAAA
*
8138946 ATATATAAAATTATTAAATATT
1 ATAT-TAAAATAATTAAATATT
8138968 ATATTAAAATAATATAAATATT
1 ATATTAAAATAAT-TAAATATT
* * *
8138990 TTTTTAAAAAAATTA
1 ATATTAAAATAATTA
8139005 GTAGGTCTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
21 10 0.31
22 22 0.69
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
ATATTAAAATAATTAAATATT
Found at i:8139293 original size:17 final size:16
Alignment explanation
Indices: 8139273--8139307 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
8139263 TTTTATATAT
8139273 TTTTAATATATTTTAAA
1 TTTTAATA-ATTTTAAA
*
8139290 TTTTAATAATTTTTAA
1 TTTTAATAATTTTAAA
8139306 TT
1 TT
8139308 AAACTAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
TTTTAATAATTTTAAA
Found at i:8139645 original size:13 final size:13
Alignment explanation
Indices: 8139629--8139655 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
8139619 TTTGTACAAT
8139629 AATTTTTTTATTA
1 AATTTTTTTATTA
8139642 AATTTTTTTATTA
1 AATTTTTTTATTA
8139655 A
1 A
8139656 TTAAAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
AATTTTTTTATTA
Found at i:8139853 original size:14 final size:14
Alignment explanation
Indices: 8139817--8139858 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
8139807 TTTAAAATTT
8139817 ATAAAAATAATCATAA
1 ATAAAAA-AAT-ATAA
8139833 A-ATAAAAAATATAA
1 ATA-AAAAAATATAA
8139847 ATAAAAAAATAT
1 ATAAAAAAATAT
8139859 GAAGTACACA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
14 14 0.58
15 5 0.21
16 5 0.21
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (14 bp):
ATAAAAAAATATAA
Found at i:8141685 original size:30 final size:30
Alignment explanation
Indices: 8141650--8141709 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
8141640 TATTTTATTA
*
8141650 TTAATTTTGTTATTATTTTAAAGGTATTTG
1 TTAATTTTATTATTATTTTAAAGGTATTTG
*
8141680 TTAATTTTATTATTATTTTAGAGGTATTTG
1 TTAATTTTATTATTATTTTAAAGGTATTTG
8141710 CTTGTTAAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.27, C:0.00, G:0.13, T:0.60
Consensus pattern (30 bp):
TTAATTTTATTATTATTTTAAAGGTATTTG
Found at i:8141813 original size:11 final size:11
Alignment explanation
Indices: 8141797--8141821 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
8141787 ATTTATTTTG
8141797 ATTTTTTTAGT
1 ATTTTTTTAGT
8141808 ATTTTTTTAGT
1 ATTTTTTTAGT
8141819 ATT
1 ATT
8141822 ATATATATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.20, C:0.00, G:0.08, T:0.72
Consensus pattern (11 bp):
ATTTTTTTAGT
Found at i:8162208 original size:8 final size:9
Alignment explanation
Indices: 8162190--8162313 Score: 56
Period size: 9 Copynumber: 12.9 Consensus size: 9
8162180 CTTGATTATT
8162190 TAAAAATTA
1 TAAAAATTA
8162199 TAAAAATATAGA
1 TAAAAAT-T--A
*
8162211 AAAAAATT-
1 TAAAAATTA
8162219 TAAAAATTCA
1 TAAAAATT-A
*
8162229 -AAAAAATA
1 TAAAAATTA
8162237 TAAACATATTA
1 TAAA-A-ATTA
*
8162248 TTAAAAATAA
1 -TAAAAATTA
* *
8162258 TAAGAAGTA
1 TAAAAATTA
8162267 TAAAAATTTA
1 TAAAAA-TTA
* *
8162277 TGAATATCATA
1 TAAAAAT--TA
*
8162288 AAAAAATT-
1 TAAAAATTA
8162296 TATAAAATTA
1 TA-AAAATTA
8162306 TAAAAATT
1 TAAAAATT
8162314 CAAGAATTGG
Statistics
Matches: 85, Mismatches: 16, Indels: 28
0.66 0.12 0.22
Matches are distributed among these distances:
8 9 0.11
9 41 0.48
10 13 0.15
11 11 0.13
12 11 0.13
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.31
Consensus pattern (9 bp):
TAAAAATTA
Found at i:8162308 original size:20 final size:21
Alignment explanation
Indices: 8162268--8162311 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
8162258 TAAGAAGTAT
*
8162268 AAAAATTTATGAATATCATAA
1 AAAAATTTATGAAAATCATAA
*
8162289 AAAAATTTAT-AAAATTATAA
1 AAAAATTTATGAAAATCATAA
8162309 AAA
1 AAA
8162312 TTCAAGAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (21 bp):
AAAAATTTATGAAAATCATAA
Found at i:8162784 original size:23 final size:23
Alignment explanation
Indices: 8162734--8162864 Score: 110
Period size: 23 Copynumber: 5.8 Consensus size: 23
8162724 ATGAATGAAG
* * **
8162734 ATGAACAGGAAATATTATCTGGT
1 ATGAACAGTAAATATTCTCTGAC
*
8162757 GTGAACAGTAAATATTCTCTGAC
1 ATGAACAGTAAATATTCTCTGAC
*
8162780 ATGAACAATAGAA-A-TCTCTGAC
1 ATGAACAGTA-AATATTCTCTGAC
*
8162802 A-GAAACAGT-AAGATTCTCT-AGC
1 ATG-AACAGTAAATATTCTCTGA-C
* *
8162824 ATGAATAGTAAATATTCTCTGAT
1 ATGAACAGTAAATATTCTCTGAC
*
8162847 ATGAATAGTAAATATTCT
1 ATGAACAGTAAATATTCT
8162865 TTGAAGGGAT
Statistics
Matches: 89, Mismatches: 11, Indels: 16
0.77 0.09 0.14
Matches are distributed among these distances:
20 2 0.02
21 3 0.03
22 26 0.29
23 55 0.62
24 3 0.03
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.31
Consensus pattern (23 bp):
ATGAACAGTAAATATTCTCTGAC
Found at i:8162819 original size:22 final size:22
Alignment explanation
Indices: 8162758--8162857 Score: 71
Period size: 22 Copynumber: 4.5 Consensus size: 22
8162748 TTATCTGGTG
*
8162758 TGAACAGTAAATATTCTCTGACA
1 TGAACAGT-AAGATTCTCTGACA
* *
8162781 TGAACAAT-AGAAATCTCTGACA
1 TGAACAGTAAG-ATTCTCTGACA
8162803 -GAAACAGTAAGATTCTCT-AGCA
1 TG-AACAGTAAGATTCTCTGA-CA
* * *
8162825 TGAATAGTAAATATTCTCTGATA
1 TGAACAGT-AAGATTCTCTGACA
*
8162848 TGAATAGTAA
1 TGAACAGTAA
8162858 ATATTCTTTG
Statistics
Matches: 62, Mismatches: 8, Indels: 15
0.73 0.09 0.18
Matches are distributed among these distances:
21 3 0.05
22 30 0.48
23 28 0.45
24 1 0.02
ACGTcount: A:0.42, C:0.14, G:0.15, T:0.29
Consensus pattern (22 bp):
TGAACAGTAAGATTCTCTGACA
Found at i:8168046 original size:22 final size:22
Alignment explanation
Indices: 8168021--8168063 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
8168011 TGCGTCGGAG
8168021 TTAACCTATTTGCTCCTAGTTT
1 TTAACCTATTTGCTCCTAGTTT
8168043 TTAACCTATTTGCTCCTAGTT
1 TTAACCTATTTGCTCCTAGTT
8168064 CCCCAGCCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.19, C:0.23, G:0.09, T:0.49
Consensus pattern (22 bp):
TTAACCTATTTGCTCCTAGTTT
Found at i:8170206 original size:29 final size:29
Alignment explanation
Indices: 8170173--8170231 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
8170163 CAACAGAAAG
8170173 AAAAATATATATACATGTATATCTTTGAA
1 AAAAATATATATACATGTATATCTTTGAA
8170202 AAAAATATATATACATGTATATCTTTGAA
1 AAAAATATATATACATGTATATCTTTGAA
8170231 A
1 A
8170232 GTAAGCAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.49, C:0.07, G:0.07, T:0.37
Consensus pattern (29 bp):
AAAAATATATATACATGTATATCTTTGAA
Found at i:8172765 original size:18 final size:18
Alignment explanation
Indices: 8172742--8172780 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
8172732 CCCTGTTTGT
8172742 AACAAAATTTAAACGTTG
1 AACAAAATTTAAACGTTG
8172760 AACAAAATTTAAACGTTG
1 AACAAAATTTAAACGTTG
8172778 AAC
1 AAC
8172781 CTCCTGAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.51, C:0.13, G:0.10, T:0.26
Consensus pattern (18 bp):
AACAAAATTTAAACGTTG
Found at i:8178343 original size:18 final size:18
Alignment explanation
Indices: 8178317--8178354 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
8178307 TGAATTTCAC
8178317 AATTCGAAT-ATCTCAAAT
1 AATTCGAATAAT-TCAAAT
*
8178335 AATTTGAATAATTCAAAT
1 AATTCGAATAATTCAAAT
8178353 AA
1 AA
8178355 CAGATTGGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 16 0.89
19 2 0.11
ACGTcount: A:0.50, C:0.11, G:0.05, T:0.34
Consensus pattern (18 bp):
AATTCGAATAATTCAAAT
Found at i:8178459 original size:19 final size:18
Alignment explanation
Indices: 8178437--8178502 Score: 60
Period size: 19 Copynumber: 3.3 Consensus size: 18
8178427 AATTATGAAA
8178437 AAAATTCAAAATGATTTTT
1 AAAATTCAAAAT-ATTTTT
* *
8178456 AAAATTTAAAATATTTATA
1 AAAATTCAAAATATTT-TT
8178475 AAAATTTCAAAAATTATATTTT
1 AAAA-TTC-AAAA-TAT-TTTT
8178497 AAAATT
1 AAAATT
8178503 TTATAAAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
18 4 0.11
19 16 0.42
20 2 0.05
21 6 0.16
22 8 0.21
23 2 0.05
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (18 bp):
AAAATTCAAAATATTTTT
Found at i:8178509 original size:33 final size:34
Alignment explanation
Indices: 8178460--8178526 Score: 111
Period size: 33 Copynumber: 2.0 Consensus size: 34
8178450 ATTTTTAAAA
8178460 TTTAAAATATTTATAAAAATT-TCAAAAATTATAT
1 TTTAAAATATTTATAAAAATTCT-AAAAATTATAT
8178494 TTTAAAAT-TTTATAAAAATTCTAAAAATTATAT
1 TTTAAAATATTTATAAAAATTCTAAAAATTATAT
8178527 AAAAAATTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
33 23 0.72
34 9 0.28
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (34 bp):
TTTAAAATATTTATAAAAATTCTAAAAATTATAT
Found at i:8179679 original size:42 final size:42
Alignment explanation
Indices: 8179610--8179736 Score: 152
Period size: 42 Copynumber: 3.0 Consensus size: 42
8179600 CTTCGTTTTC
* * * *
8179610 TCGATGCCATAGTTCAACTATGATCTTACACATCTTCACATAA
1 TCGATGCCATAGTCCAGCTATGGTCTTACACATATTCACAT-A
* *
8179653 T-GATGACATAGTCCAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGTCCAGCTATGGTCTTACACATATTCACATA
*
8179694 TCGATGCCATAGCCCAGCTATGGTCTTACACGA-A-TCACATA
1 TCGATGCCATAGTCCAGCTATGGTCTTACAC-ATATTCACATA
8179735 TC
1 TC
8179737 TCACTAATGC
Statistics
Matches: 73, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
41 10 0.14
42 61 0.84
43 2 0.03
ACGTcount: A:0.31, C:0.25, G:0.13, T:0.31
Consensus pattern (42 bp):
TCGATGCCATAGTCCAGCTATGGTCTTACACATATTCACATA
Found at i:8179799 original size:47 final size:46
Alignment explanation
Indices: 8179695--8179816 Score: 154
Period size: 47 Copynumber: 2.6 Consensus size: 46
8179685 ATTCATATAT
* * * * *
8179695 CGATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCTCAC
1 CGATGCCATATCCCAGATATGGTCTTATACGAAGCACATATCACAC
** * *
8179741 TAATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACAC
1 CGATGCCATATCCCAGATATGGTCTTATAC-GAAGCACATATCACAC
8179788 CGATGCCATATCCCAGATATGGTCTTATA
1 CGATGCCATATCCCAGATATGGTCTTATA
8179817 AGGAAATCAC
Statistics
Matches: 64, Mismatches: 11, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
46 25 0.39
47 39 0.61
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (46 bp):
CGATGCCATATCCCAGATATGGTCTTATACGAAGCACATATCACAC
Found at i:8179905 original size:31 final size:31
Alignment explanation
Indices: 8179867--8179959 Score: 161
Period size: 31 Copynumber: 3.0 Consensus size: 31
8179857 CACTGATCAA
*
8179867 GATCAGGTAGCCAGAGCTACCATTTTTCACT
1 GATCAGGTAGCCAGAGCTACCACTTTTCACT
8179898 GATCAGGTAGCCAGAGCTACCACTTTTCACT
1 GATCAGGTAGCCAGAGCTACCACTTTTCACT
8179929 GATCAGGTAG-CAGAAGCTACCACTTTTCACT
1 GATCAGGTAGCCAG-AGCTACCACTTTTCACT
8179960 ACCACTTTTC
Statistics
Matches: 60, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
30 3 0.05
31 57 0.95
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (31 bp):
GATCAGGTAGCCAGAGCTACCACTTTTCACT
Found at i:8179963 original size:13 final size:13
Alignment explanation
Indices: 8179945--8179972 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
8179935 GTAGCAGAAG
8179945 CTACCACTTTTCA
1 CTACCACTTTTCA
8179958 CTACCACTTTTCA
1 CTACCACTTTTCA
8179971 CT
1 CT
8179973 GATCAGGTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.39, G:0.00, T:0.39
Consensus pattern (13 bp):
CTACCACTTTTCA
Found at i:8179977 original size:44 final size:44
Alignment explanation
Indices: 8179914--8180003 Score: 153
Period size: 44 Copynumber: 2.0 Consensus size: 44
8179904 GTAGCCAGAG
*
8179914 CTACCACTTTTCACTGATCAGGTAGCAGAAGCTACCACTTTTCA
1 CTACCACTTTTCACTGATCAGGTAGCAGAAGCGACCACTTTTCA
* *
8179958 CTACCACTTTTCACTGATCAGGTAGCCGAAGCGACCATTTTTCA
1 CTACCACTTTTCACTGATCAGGTAGCAGAAGCGACCACTTTTCA
8180002 CT
1 CT
8180004 GATCAAGTAG
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.26, C:0.30, G:0.14, T:0.30
Consensus pattern (44 bp):
CTACCACTTTTCACTGATCAGGTAGCAGAAGCGACCACTTTTCA
Found at i:8180003 original size:31 final size:31
Alignment explanation
Indices: 8179958--8180065 Score: 162
Period size: 31 Copynumber: 3.5 Consensus size: 31
8179948 CCACTTTTCA
8179958 CTACCACTTTTCACTGATCAGGTAGCCGAAG
1 CTACCACTTTTCACTGATCAGGTAGCCGAAG
* * * *
8179989 CGACCATTTTTCACTGATCAAGTAGCCGGAG
1 CTACCACTTTTCACTGATCAGGTAGCCGAAG
* *
8180020 CTACCACTTTTCACTGATCGGGTAGCAGAAG
1 CTACCACTTTTCACTGATCAGGTAGCCGAAG
8180051 CTACCACTTTTCACT
1 CTACCACTTTTCACT
8180066 TGTCATTTGT
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 67 1.00
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.28
Consensus pattern (31 bp):
CTACCACTTTTCACTGATCAGGTAGCCGAAG
Found at i:8180006 original size:75 final size:75
Alignment explanation
Indices: 8179883--8180034 Score: 234
Period size: 75 Copynumber: 2.0 Consensus size: 75
8179873 GTAGCCAGAG
* * *
8179883 CTACCATTTTTCACTGATCAGGTAGCCAGAGCTACCACTTTTCACTGATCAGGTAGCAGAAGCTA
1 CTACCACTTTTCACTGATCAGGTAGCCAGAGCGACCACTTTTCACTGATCAAGTAGCAGAAGCTA
8179948 CCACTTTTCA
66 CCACTTTTCA
* * *
8179958 CTACCACTTTTCACTGATCAGGTAGCC-GAAGCGACCATTTTTCACTGATCAAGTAGCCGGAGCT
1 CTACCACTTTTCACTGATCAGGTAGCCAG-AGCGACCACTTTTCACTGATCAAGTAGCAGAAGCT
8180022 ACCACTTTTCA
65 ACCACTTTTCA
8180033 CT
1 CT
8180035 GATCGGGTAG
Statistics
Matches: 70, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
74 1 0.01
75 69 0.99
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.29
Consensus pattern (75 bp):
CTACCACTTTTCACTGATCAGGTAGCCAGAGCGACCACTTTTCACTGATCAAGTAGCAGAAGCTA
CCACTTTTCA
Found at i:8180014 original size:106 final size:106
Alignment explanation
Indices: 8179867--8180065 Score: 346
Period size: 106 Copynumber: 1.9 Consensus size: 106
8179857 CACTGATCAA
* *
8179867 GATCAGGTAGCCAGAGCTACCATTTTTCACTGATCAGGTAGCCAGAGCTACCACTTTTCACTGAT
1 GATCAGGTAGCCAGAGCGACCATTTTTCACTGATCAAGTAGCCAGAGCTACCACTTTTCACTGAT
8179932 CAGGTAGCAGAAGCTACCACTTTTCACTACCACTTTTCACT
66 CAGGTAGCAGAAGCTACCACTTTTCACTACCACTTTTCACT
*
8179973 GATCAGGTAGCC-GAAGCGACCATTTTTCACTGATCAAGTAGCCGGAGCTACCACTTTTCACTGA
1 GATCAGGTAGCCAG-AGCGACCATTTTTCACTGATCAAGTAGCCAGAGCTACCACTTTTCACTGA
*
8180037 TCGGGTAGCAGAAGCTACCACTTTTCACT
65 TCAGGTAGCAGAAGCTACCACTTTTCACT
8180066 TGTCATTTGT
Statistics
Matches: 88, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
105 1 0.01
106 87 0.99
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (106 bp):
GATCAGGTAGCCAGAGCGACCATTTTTCACTGATCAAGTAGCCAGAGCTACCACTTTTCACTGAT
CAGGTAGCAGAAGCTACCACTTTTCACTACCACTTTTCACT
Found at i:8180109 original size:106 final size:104
Alignment explanation
Indices: 8179893--8180214 Score: 261
Period size: 106 Copynumber: 3.1 Consensus size: 104
8179883 CTACCATTTT
* *
8179893 TCACTGATCAGGTAGCCAGAGCTACCACTTTTCACTGATCAGGTAGCAGAAGCTACCACTTTTCA
1 TCACTGATCAAGTAGCC-GAGCTACCACTTTTCACTGATCGGGTAGCAGAAGCTACCACTTTTCA
** * * * ** *
8179958 CTACCACTTT-TCAC-TGATCAGGT-AGCCGAAG-CGACCATTTT
65 CTTTCA-TTTGTC-CTTGATCAGATAAG-TGTAGCCGA--AGCTA
8179999 TCACTGATCAAGTAGCCGGAGCTACCACTTTTCACTGATCGGGTAGCAGAAGCTACCACTTTTCA
1 TCACTGATCAAGTAGCC-GAGCTACCACTTTTCACTGATCGGGTAGCAGAAGCTACCACTTTTCA
8180064 CTTGTCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTA
65 CTT-TCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTA
* * ** ** * * * * * *
8180105 TCACTTATC-ACT-TTC-A-CTTGTC-CTTGATCA--GATAAGTGTAGCCGAAGCTACTACTTAT
1 TCACTGATCAAGTAGCCGAGC-TACCACTT-TTCACTGAT-CGGGTAGCAGAAGCTACCACTTTT
8180163 CACTTTCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTA
63 CACTTTCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTA
*
8180205 TCACTTATCA
1 TCACTGATCA
8180215 CTTGTTGCCA
Statistics
Matches: 184, Mismatches: 23, Indels: 23
0.80 0.10 0.10
Matches are distributed among these distances:
100 49 0.27
101 28 0.15
102 6 0.03
104 1 0.01
105 2 0.01
106 78 0.42
107 15 0.08
108 5 0.03
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (104 bp):
TCACTGATCAAGTAGCCGAGCTACCACTTTTCACTGATCGGGTAGCAGAAGCTACCACTTTTCAC
TTTCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTA
Found at i:8180144 original size:50 final size:50
Alignment explanation
Indices: 8180041--8180217 Score: 293
Period size: 50 Copynumber: 3.5 Consensus size: 50
8180031 CACTGATCGG
* * *
8180041 GTAGCAGAAGCTACCACTTTTCACTTGTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCATTTGTCCTTGATCAGATAAGT
*
8180092 GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
8180142 GTAGCCGAAGCTA-CTACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATC-ACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
8180192 GTAGCCGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
8180218 GTTGCCATGG
Statistics
Matches: 119, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
49 1 0.01
50 94 0.79
51 24 0.20
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.34
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
Found at i:8181690 original size:15 final size:16
Alignment explanation
Indices: 8181663--8181692 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
8181653 GAACCCTCCA
8181663 ATTTAGTCCAATTTTT
1 ATTTAGTCCAATTTTT
8181679 ATTTAG-CCAATTTT
1 ATTTAGTCCAATTTT
8181693 GGCAATTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.27, C:0.13, G:0.07, T:0.53
Consensus pattern (16 bp):
ATTTAGTCCAATTTTT
Found at i:8184974 original size:25 final size:25
Alignment explanation
Indices: 8184944--8185001 Score: 102
Period size: 25 Copynumber: 2.4 Consensus size: 25
8184934 TTTTGAGTTA
8184944 ATCGAATCAAGTTATTTGAATTGTT
1 ATCGAATCAAGTTATTTGAATTGTT
8184969 ATCGAATCAAGTTATTTGAATTGTT
1 ATCGAATCAAGTTATTTGAATTGTT
8184994 -T-GAATCAA
1 ATCGAATCAA
8185002 CTCGAATAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
23 7 0.21
24 1 0.03
25 25 0.76
ACGTcount: A:0.34, C:0.09, G:0.16, T:0.41
Consensus pattern (25 bp):
ATCGAATCAAGTTATTTGAATTGTT
Found at i:8185196 original size:19 final size:20
Alignment explanation
Indices: 8185168--8185220 Score: 74
Period size: 19 Copynumber: 2.7 Consensus size: 20
8185158 AAAATTATGA
8185168 AAAAATTTCAAAATAATTT-T
1 AAAAATTTCAAAAT-ATTTAT
*
8185188 TAAAA-TTCAAAATATTTAT
1 AAAAATTTCAAAATATTTAT
8185207 AAAAATTTCAAAAT
1 AAAAATTTCAAAAT
8185221 TTATATTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 4 0.14
19 13 0.45
20 12 0.41
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.38
Consensus pattern (20 bp):
AAAAATTTCAAAATATTTAT
Found at i:8185252 original size:10 final size:10
Alignment explanation
Indices: 8185239--8185274 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
8185229 TAAAAAATAT
8185239 AAAAATTCTA
1 AAAAATTCTA
8185249 AAAAATTCTA
1 AAAAATTCTA
*
8185259 AAAAATATATA
1 AAAAAT-TCTA
8185270 AAAAA
1 AAAAA
8185275 GTTAAGATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 16 0.67
11 8 0.33
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.25
Consensus pattern (10 bp):
AAAAATTCTA
Found at i:8188462 original size:24 final size:24
Alignment explanation
Indices: 8188434--8188479 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
8188424 ATTCGTAAGT
*
8188434 TAAATAAATTATGCTAATAAATGC
1 TAAATAAATTATACTAATAAATGC
*
8188458 TAAATATATTATACTAATAAAT
1 TAAATAAATTATACTAATAAAT
8188480 ACAAAATCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.52, C:0.07, G:0.04, T:0.37
Consensus pattern (24 bp):
TAAATAAATTATACTAATAAATGC
Found at i:8188486 original size:24 final size:24
Alignment explanation
Indices: 8188435--8188486 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
8188425 TTCGTAAGTT
* * *
8188435 AAATAAATTATGCTAATAAATGCT
1 AAATAAATTATACTAATAAATACA
*
8188459 AAATATATTATACTAATAAATACA
1 AAATAAATTATACTAATAAATACA
8188483 AAAT
1 AAAT
8188487 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.56, C:0.08, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACA
Found at i:8189545 original size:20 final size:20
Alignment explanation
Indices: 8189522--8189561 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
8189512 TTAAATTCTA
*
8189522 AAAGATAAATACAAATAAAT
1 AAAGATAAATAAAAATAAAT
8189542 AAAGATAAATAAAAATAAAT
1 AAAGATAAATAAAAATAAAT
8189562 CCTAAAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.72, C:0.03, G:0.05, T:0.20
Consensus pattern (20 bp):
AAAGATAAATAAAAATAAAT
Found at i:8192132 original size:9 final size:9
Alignment explanation
Indices: 8192097--8192314 Score: 63
Period size: 9 Copynumber: 22.9 Consensus size: 9
8192087 TAGTTTTTTT
*
8192097 TAATTTTTA
1 TAATTTTAA
*
8192106 TAAGTTTATA
1 TAATTTTA-A
8192116 TCAATTTTAA
1 T-AATTTTAA
8192126 TAATTTTAA
1 TAATTTTAA
**
8192135 TTTTTTTAA
1 TAATTTTAA
8192144 TAATTTTATA
1 TAATTTTA-A
* *
8192154 CAATGTTTAT
1 TAAT-TTTAA
*
8192164 TATCTTTTAA
1 TA-ATTTTAA
* *
8192174 GAATTCTAATTA
1 TAATT-T--TAA
8192186 TAATTTTTTAA
1 TAA--TTTTAA
*
8192197 TAA-TTTAT
1 TAATTTTAA
*
8192205 TAGATTTT-T
1 TA-ATTTTAA
*
8192214 TATATTTTTA
1 TA-ATTTTAA
8192224 TAATATTT-A
1 TAAT-TTTAA
*
8192233 TAAGTTTTTA
1 TAA-TTTTAA
8192243 TAA-TTTATA
1 TAATTTTA-A
8192252 TAATTTTAA
1 TAATTTTAA
8192261 TAAGTTTGT-A
1 TAA-TTT-TAA
8192271 TCAATTTTAA
1 T-AATTTTAA
* **
8192281 CAATTCAAA
1 TAATTTTAA
8192290 TAATTTT--
1 TAATTTTAA
8192297 TAATATTTAA
1 TAAT-TTTAA
*
8192307 TATTTTTA
1 TAATTTTA
8192315 TTTTTTTATA
Statistics
Matches: 156, Mismatches: 28, Indels: 50
0.67 0.12 0.21
Matches are distributed among these distances:
7 4 0.03
8 12 0.08
9 70 0.45
10 44 0.28
11 19 0.12
12 4 0.03
13 1 0.01
14 2 0.01
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.57
Consensus pattern (9 bp):
TAATTTTAA
Found at i:8192240 original size:28 final size:29
Alignment explanation
Indices: 8192183--8192267 Score: 97
Period size: 29 Copynumber: 3.0 Consensus size: 29
8192173 AGAATTCTAA
*
8192183 TTATAATTTTT-TAATAATTTATTAGATTTT
1 TTATAATTTTTATAAT-ATTTATAAG-TTTT
8192213 TTAT-ATTTTTATAATATTTATAAG-TTT
1 TTATAATTTTTATAATATTTATAAGTTTT
*
8192240 TTATAATTTATATAAT-TTTAATAAGTTT
1 TTATAATTTTTATAATATTT-ATAAGTTT
8192268 GTATCAATTT
Statistics
Matches: 49, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
27 10 0.20
28 15 0.31
29 16 0.33
30 8 0.16
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (29 bp):
TTATAATTTTTATAATATTTATAAGTTTT
Found at i:8192242 original size:19 final size:18
Alignment explanation
Indices: 8192217--8192330 Score: 76
Period size: 19 Copynumber: 6.3 Consensus size: 18
8192207 GATTTTTTAT
8192217 ATTTTTATAATATT-TATA
1 ATTTTTATAAT-TTATATA
8192235 AGTTTTTATAATTTATATA
1 A-TTTTTATAATTTATATA
* *
8192254 ATTTTAATAAGTTTGTATCA
1 ATTTTTATAA-TTTATAT-A
* * * *
8192274 ATTTTAACAATTCAAATA
1 ATTTTTATAATTTATATA
8192292 ATTTTTA-ATATTTA-AT-
1 ATTTTTATA-ATTTATATA
* *
8192308 ATTTTTAT-TTTTTTATA
1 ATTTTTATAATTTATATA
8192325 ATTTTT
1 ATTTTT
8192331 TTTCATTTTT
Statistics
Matches: 78, Mismatches: 10, Indels: 17
0.74 0.10 0.16
Matches are distributed among these distances:
15 3 0.04
16 9 0.12
17 9 0.12
18 22 0.28
19 25 0.32
20 10 0.13
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.59
Consensus pattern (18 bp):
ATTTTTATAATTTATATA
Found at i:8192328 original size:17 final size:17
Alignment explanation
Indices: 8192192--8192330 Score: 54
Period size: 19 Copynumber: 7.8 Consensus size: 17
8192182 ATTATAATTT
*
8192192 TTTAATAATTTATTAGATT
1 TTTAATAATTT-TTA-ATA
* *
8192211 TTTTATATTTTTATAATA
1 TTTAATAATTTT-TAATA
8192229 TTT-ATAAGTTTTT-ATAA
1 TTTAATAA-TTTTTAAT-A
8192246 TTTATATAA-TTTTAATAA
1 TTTA-ATAATTTTTAAT-A
* *
8192264 GTTTGTATCAA-TTTTAACAA
1 -TTT-AAT-AATTTTTAA-TA
*
8192284 TTCAAATAATTTTTAATA
1 TT-TAATAATTTTTAATA
* *
8192302 TTTAAT-ATTTTTATTT
1 TTTAATAATTTTTAATA
*
8192318 TTTTATAATTTTT
1 TTTAATAATTTTT
8192331 TTTCATTTTT
Statistics
Matches: 94, Mismatches: 13, Indels: 28
0.70 0.10 0.21
Matches are distributed among these distances:
16 15 0.16
17 21 0.22
18 19 0.20
19 30 0.32
20 9 0.10
ACGTcount: A:0.35, C:0.02, G:0.03, T:0.60
Consensus pattern (17 bp):
TTTAATAATTTTTAATA
Found at i:8195454 original size:16 final size:17
Alignment explanation
Indices: 8195425--8195463 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
8195415 ATTCTATTTT
* *
8195425 TATAATATATAAAT-TA
1 TATAAAATAAAAATATA
8195441 TATAAAATAAAAATATA
1 TATAAAATAAAAATATA
8195458 TATAAA
1 TATAAA
8195464 TATATAATGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 12 0.60
17 8 0.40
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
TATAAAATAAAAATATA
Found at i:8195464 original size:10 final size:10
Alignment explanation
Indices: 8195429--8195469 Score: 54
Period size: 9 Copynumber: 4.5 Consensus size: 10
8195419 TATTTTTATA
8195429 ATATATAAAT
1 ATATATAAAT
8195439 -TATATAAA-
1 ATATATAAAT
8195447 ATA-A-AAAT
1 ATATATAAAT
8195455 ATATATAAAT
1 ATATATAAAT
8195465 ATATA
1 ATATA
8195470 ATGGGTTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
7 3 0.11
8 4 0.15
9 11 0.41
10 9 0.33
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (10 bp):
ATATATAAAT
Found at i:8216271 original size:17 final size:17
Alignment explanation
Indices: 8216249--8216281 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
8216239 ATTACATTTG
*
8216249 AAAAAAATTAAAAAATT
1 AAAAAAAATAAAAAATT
8216266 AAAAAAAATAAAAAAT
1 AAAAAAAATAAAAAAT
8216282 ATTGATAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (17 bp):
AAAAAAAATAAAAAATT
Found at i:8219772 original size:50 final size:45
Alignment explanation
Indices: 8219694--8219970 Score: 253
Period size: 44 Copynumber: 6.2 Consensus size: 45
8219684 CAGTGAAACC
* *
8219694 ACAAATCCTATAC-CCCTGAAGTTACAGTGGGA-TGGATTGAAGTCAT
1 ACAAATCTTAT-CTCCCTGAAGTTACAGTGGGAGTAGATTGAAG-C-T
*
8219740 CATGGCAAATCTTATCTCCCTGAAGTTGCAGT-GGAGTAGATTGAAGCT
1 -A---CAAATCTTATCTCCCTGAAGTTACAGTGGGAGTAGATTGAAGCT
* * * *
8219788 ACAAATCTTATCTCCTTGAAGTTACAGT-GGAGCAGATTAAAGCC
1 ACAAATCTTATCTCCCTGAAGTTACAGTGGGAGTAGATTGAAGCT
* * * ** *
8219832 ACAAATCTTATATCCCTAAAGTTATAGT-GGAACAAATTGAAGCT
1 ACAAATCTTATCTCCCTGAAGTTACAGTGGGAGTAGATTGAAGCT
* * *
8219876 ACAAATCTTATCTCCATGAAGTTGCAAT-GGAGTAGATTGAAGCT
1 ACAAATCTTATCTCCCTGAAGTTACAGTGGGAGTAGATTGAAGCT
* ** * *
8219920 ACAAATCTTATCTCGCTGAAGTTGTAGT-AGAGTAGATTGAAGCG
1 ACAAATCTTATCTCCCTGAAGTTACAGTGGGAGTAGATTGAAGCT
8219964 ACAAATC
1 ACAAATC
8219971 CTATACCTCT
Statistics
Matches: 194, Mismatches: 31, Indels: 13
0.82 0.13 0.05
Matches are distributed among these distances:
44 154 0.79
47 2 0.01
48 1 0.01
49 5 0.03
50 32 0.16
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (45 bp):
ACAAATCTTATCTCCCTGAAGTTACAGTGGGAGTAGATTGAAGCT
Found at i:8219808 original size:44 final size:44
Alignment explanation
Indices: 8219745--8219970 Score: 290
Period size: 44 Copynumber: 5.1 Consensus size: 44
8219735 GTCATCATGG
8219745 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCTA
* * * * *
8219789 CAAATCTTATCTCCTTGAAGTTACAGTGGAGCAGATTAAAGCCA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCTA
* * ** ** *
8219833 CAAATCTTATATCCCTAAAGTTATAGTGGAACAAATTGAAGCTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCTA
* *
8219877 CAAATCTTATCTCCATGAAGTTGCAATGGAGTAGATTGAAGCTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCTA
* * * *
8219921 CAAATCTTATCTCGCTGAAGTTGTAGTAGAGTAGATTGAAGCGA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCTA
8219965 CAAATC
1 CAAATC
8219971 CTATACCTCT
Statistics
Matches: 154, Mismatches: 28, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 154 1.00
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (44 bp):
CAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCTA
Found at i:8220131 original size:44 final size:44
Alignment explanation
Indices: 8220064--8220157 Score: 127
Period size: 44 Copynumber: 2.2 Consensus size: 44
8220054 AGCTACAAGT
*
8220064 TACAAATCTTATCTTCCTAAAGTTGAAGTGGAGTAGATTAAAGC
1 TACAAATCTTATCTGCCTAAAGTTGAAGTGGAGTAGATTAAAGC
* * * * *
8220108 TACAAGTCTTATCTGCTTGAAGTTGTAGTGGAGTAGATTAAAAC
1 TACAAATCTTATCTGCCTAAAGTTGAAGTGGAGTAGATTAAAGC
8220152 TA-AAAT
1 TACAAAT
8220158 TCCTATACCC
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
43 3 0.07
44 40 0.93
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.33
Consensus pattern (44 bp):
TACAAATCTTATCTGCCTAAAGTTGAAGTGGAGTAGATTAAAGC
Found at i:8220173 original size:44 final size:44
Alignment explanation
Indices: 8220073--8220178 Score: 115
Period size: 44 Copynumber: 2.4 Consensus size: 44
8220063 TTACAAATCT
* * * * * *
8220073 TATCTTCCTAAAGTTGAAGTGGAGTAGATTAAAGCTACAAGTCT
1 TATCTCCCTGAAGTTGTAGTGGAGTAGATTAAAACTAAAAGTCC
* * *
8220117 TATCTGCTTGAAGTTGTAGTGGAGTAGATTAAAACTAAAATTCC
1 TATCTCCCTGAAGTTGTAGTGGAGTAGATTAAAACTAAAAGTCC
8220161 TATAC-CCCTGAAGTTGTA
1 TAT-CTCCCTGAAGTTGTA
8220179 ATTGGTTAGA
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
44 50 0.98
45 1 0.02
ACGTcount: A:0.33, C:0.14, G:0.20, T:0.33
Consensus pattern (44 bp):
TATCTCCCTGAAGTTGTAGTGGAGTAGATTAAAACTAAAAGTCC
Found at i:8220359 original size:6 final size:6
Alignment explanation
Indices: 8220350--8220390 Score: 82
Period size: 6 Copynumber: 6.8 Consensus size: 6
8220340 AACAGAAACC
8220350 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
8220391 AATAACAGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:8222095 original size:351 final size:342
Alignment explanation
Indices: 8221389--8222052 Score: 825
Period size: 351 Copynumber: 1.9 Consensus size: 342
8221379 TCCGCGCATT
*
8221389 TTGGCATAAGGGGTCTATTTGTGCCTTTGGTTCTTCCGCTTTTGCGGCTTGTTTCAATTTAGTCC
1 TTGGCATAAGGGGTCTATTTGTGCCTTTGGTTCTTCCGCTTTGGCGGCTTGTTTCAATTTAGTCC
8221454 TGTTTTATTTTTTTGCCATTTAATTTAATTTTATTTTCATTTTGGTCCATGGGACATTTTAGGAA
66 TGTTTTATTTTTTTGCCATTTAATTTAATTTTATTTTCATTTTGGTCCATGGGACATTTTAGGAA
* * ** * *
8221519 ATGGGTACCTGAAACGACATCGTTTCAGTTGACCTGAAGACCCGACCTACACAGTACAGGATCCG
131 ATGGGTACATGAAACGACATCGTTACAGCCGACCCGAAGACCCGACCGACACAGTACAGGATCCG
* * *
8221584 TGTGTTTTCTAAAGGGGGTCTACTTGATGCTTAGGCCATTCCGCTTTTTTGCTGCTTTTCAATTT
196 CGTGTTTTCTAAAGGGGGTCTAATTGATGCTTAGGCCATTCCGCTTTTTTGCTACTTTTCAATTT
* **** * *
8221649 CATCCTATTATTATTTTTTTATTTTCACACCTTTTGTTTTGTTTTTTTTTTCAATTTAGTCCCTG
261 CATCCTATTATTATTTTTTTATTTT-----CTTTTATTTCACGTGTTTATTCAATTTAGTCCCTG
* **
8221714 AACCATGCATGATCCCCGCATT
321 AACCATGCATGATCCCAGCAGC
* *
8221736 TTGGCATAAGGGGTCTATTTGTG-CTTTGG-TCATTTCGCTTTGGCGGCTTGTTTCAGTTTAGTC
1 TTGGCATAAGGGGTCTATTTGTGCCTTTGGTTC-TTCCGCTTTGGCGGCTTGTTTCAATTTAGTC
* *
8221799 TTGTTTTATTTTTTAATTTTTCCATTTAATTTAATTTTATTTTCATTTTGGTCCATGGGACATTT
65 CTGTTTTA---TTT--TTTTGCCATTTAATTTAATTTTATTTTCATTTTGGTCCATGGGACATTT
* * * * *
8221864 TAGGAAATGGGTACATGAAACGACGTCGTTACAGCCGACCCGATGACTCGACCCGA-ATAGTGCA
125 TAGGAAATGGGTACATGAAACGACATCGTTACAGCCGACCCGAAGACCCGA-CCGACACAGTACA
* * * **
8221928 GGATCCGCGTGTTTTTTAAAGGGGGTCTAATTGCTGCTTAGGCCCTTCCATTTTTTTTTGCTACT
189 GGATCCGCGTGTTTTCTAAAGGGGGTCTAATTGATGCTTAGGCCATTCC--GCTTTTTTGCTACT
* *
8221993 TTTCATTTTCATCCTATTGTTTATTTTTTTATTTT-TTTTATTTCCACGTGTTTATT-AATT
252 TTTCAATTTCATCCTATT-ATTATTTTTTTATTTTCTTTTATTT-CACGTGTTTATTCAATT
8222053 GCTGCTGTTT
Statistics
Matches: 273, Mismatches: 33, Indels: 21
0.83 0.10 0.06
Matches are distributed among these distances:
345 2 0.01
346 41 0.15
347 23 0.08
348 11 0.04
349 9 0.03
351 141 0.52
352 3 0.01
353 28 0.10
354 15 0.05
ACGTcount: A:0.19, C:0.18, G:0.18, T:0.45
Consensus pattern (342 bp):
TTGGCATAAGGGGTCTATTTGTGCCTTTGGTTCTTCCGCTTTGGCGGCTTGTTTCAATTTAGTCC
TGTTTTATTTTTTTGCCATTTAATTTAATTTTATTTTCATTTTGGTCCATGGGACATTTTAGGAA
ATGGGTACATGAAACGACATCGTTACAGCCGACCCGAAGACCCGACCGACACAGTACAGGATCCG
CGTGTTTTCTAAAGGGGGTCTAATTGATGCTTAGGCCATTCCGCTTTTTTGCTACTTTTCAATTT
CATCCTATTATTATTTTTTTATTTTCTTTTATTTCACGTGTTTATTCAATTTAGTCCCTGAACCA
TGCATGATCCCAGCAGC
Found at i:8222328 original size:9 final size:9
Alignment explanation
Indices: 8222316--8222359 Score: 70
Period size: 9 Copynumber: 4.9 Consensus size: 9
8222306 TTTTATTTTA
*
8222316 ATTATTGAT
1 ATTATTAAT
8222325 ATTATTAAT
1 ATTATTAAT
8222334 ATTATTAAT
1 ATTATTAAT
*
8222343 ATTATTAAC
1 ATTATTAAT
8222352 ATTATTAA
1 ATTATTAA
8222360 ATAATCATTG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
9 33 1.00
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (9 bp):
ATTATTAAT
Found at i:8231034 original size:17 final size:17
Alignment explanation
Indices: 8231014--8231054 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
8231004 ATATTTATAG
8231014 TTTTT-ATTGATTTTAA
1 TTTTTAATTGATTTTAA
**
8231030 TTTTTAATTTTTTTTAA
1 TTTTTAATTGATTTTAA
8231047 TTTTTAAT
1 TTTTTAAT
8231055 AAAAGTAAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (17 bp):
TTTTTAATTGATTTTAA
Found at i:8234422 original size:26 final size:26
Alignment explanation
Indices: 8234386--8234495 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
8234376 TGATACAAAT
8234386 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
8234412 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
8234438 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
8234464 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
8234490 TGATAA
1 TGATAA
8234496 GAATTTCATG
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:8236007 original size:26 final size:26
Alignment explanation
Indices: 8235978--8236030 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
8235968 TTTACAATTT
8235978 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
8236004 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
8236030 T
1 T
8236031 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:8241473 original size:50 final size:50
Alignment explanation
Indices: 8241419--8241524 Score: 185
Period size: 50 Copynumber: 2.1 Consensus size: 50
8241409 TGATACAAAT
8241419 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGTTAGGTAAATATTCA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGTTAGGTAAATATTCA
* * *
8241469 TGATAATGGGTTAGGTAAATGTTTCATGATAATGGTTAGGTAAATGTTCA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGTTAGGTAAATATTCA
8241519 TGATAA
1 TGATAA
8241525 GAATTTCATG
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
50 53 1.00
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.37
Consensus pattern (50 bp):
TGATAATAGGTTAGGTAAATGTTCCATGATAATGGTTAGGTAAATATTCA
Found at i:8241475 original size:24 final size:25
Alignment explanation
Indices: 8241419--8241524 Score: 162
Period size: 25 Copynumber: 4.2 Consensus size: 25
8241409 TGATACAAAT
8241419 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTT-CA
*
8241445 TGATAAT-GGTTAGGTAAATATTCA
1 TGATAATAGGTTAGGTAAATGTTCA
*
8241469 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATG-TTCA
8241495 TGATAAT-GGTTAGGTAAATGTTCA
1 TGATAATAGGTTAGGTAAATGTTCA
8241519 TGATAA
1 TGATAA
8241525 GAATTTCATG
Statistics
Matches: 76, Mismatches: 2, Indels: 6
0.90 0.02 0.07
Matches are distributed among these distances:
24 19 0.25
25 39 0.51
26 18 0.24
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.37
Consensus pattern (25 bp):
TGATAATAGGTTAGGTAAATGTTCA
Found at i:8243284 original size:21 final size:20
Alignment explanation
Indices: 8243242--8243289 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 20
8243232 ATTCCCCACA
8243242 TGGAGTGTATGGTGGTACGGG
1 TGGAGTGTATGGTGGTA-GGG
8243263 TGGAGTGTAGTGGTTGGT-GGG
1 TGGAGTGTA-TGG-TGGTAGGG
*
8243284 TTGAGT
1 TGGAGT
8243290 AGTCTCCCCA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 17 0.71
22 3 0.12
23 4 0.17
ACGTcount: A:0.12, C:0.02, G:0.52, T:0.33
Consensus pattern (20 bp):
TGGAGTGTATGGTGGTAGGG
Found at i:8244303 original size:7 final size:7
Alignment explanation
Indices: 8244293--8244331 Score: 53
Period size: 7 Copynumber: 5.4 Consensus size: 7
8244283 AGTAATTCAA
8244293 TTTAAAT
1 TTTAAAT
8244300 TTTAAAT
1 TTTAAAT
8244307 TTT-AAT
1 TTTAAAT
8244313 TATATAAAT
1 T-T-TAAAT
8244322 TTTAAAT
1 TTTAAAT
8244329 TTT
1 TTT
8244332 TTTAATGGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
6 4 0.14
7 19 0.66
8 2 0.07
9 4 0.14
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (7 bp):
TTTAAAT
Found at i:8244875 original size:42 final size:42
Alignment explanation
Indices: 8244829--8244909 Score: 144
Period size: 42 Copynumber: 1.9 Consensus size: 42
8244819 TAGAAAAGTT
*
8244829 ACAGAGAGCAAACGTGAGAAAGAAAGAAAGATAGAAAGACTA
1 ACAGAGAGCAAACGTGAGAAAGAAAGAAAGAAAGAAAGACTA
*
8244871 ACAGAGAGCAAACGTGAGAAAGAAAGAAGGAAAGAAAGA
1 ACAGAGAGCAAACGTGAGAAAGAAAGAAAGAAAGAAAGA
8244910 AAGAAATAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.58, C:0.09, G:0.28, T:0.05
Consensus pattern (42 bp):
ACAGAGAGCAAACGTGAGAAAGAAAGAAAGAAAGAAAGACTA
Found at i:8247198 original size:54 final size:54
Alignment explanation
Indices: 8247126--8247232 Score: 196
Period size: 54 Copynumber: 2.0 Consensus size: 54
8247116 TGTTTTTTTT
* *
8247126 GCTTGGGTCTTTAATGTTTTATTGGCCCACTTTAGTATCTAATATTATCAAATC
1 GCTTCGGTCCTTAATGTTTTATTGGCCCACTTTAGTATCTAATATTATCAAATC
8247180 GCTTCGGTCCTTAATGTTTTATTGGCCCACTTTAGTATCTAATATTATCAAAT
1 GCTTCGGTCCTTAATGTTTTATTGGCCCACTTTAGTATCTAATATTATCAAAT
8247233 GCTCTTCGTG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.24, C:0.18, G:0.14, T:0.44
Consensus pattern (54 bp):
GCTTCGGTCCTTAATGTTTTATTGGCCCACTTTAGTATCTAATATTATCAAATC
Found at i:8247514 original size:11 final size:10
Alignment explanation
Indices: 8247488--8247549 Score: 53
Period size: 10 Copynumber: 6.5 Consensus size: 10
8247478 TAAAAATAAT
8247488 AAAATTATTA
1 AAAATTATTA
8247498 AAAATTATTA
1 AAAATTATTA
8247508 GAAAATT-TT-
1 -AAAATTATTA
8247517 -AAA-TATGTA
1 AAAATTAT-TA
*
8247526 AAAAATA-TA
1 AAAATTATTA
8247535 AAAATTATTA
1 AAAATTATTA
*
8247545 GAAAT
1 AAAAT
8247550 CATAAAAGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 14
0.73 0.03 0.24
Matches are distributed among these distances:
6 1 0.02
7 4 0.09
8 1 0.02
9 8 0.19
10 21 0.49
11 8 0.19
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (10 bp):
AAAATTATTA
Found at i:8247567 original size:37 final size:36
Alignment explanation
Indices: 8247487--8247574 Score: 90
Period size: 37 Copynumber: 2.4 Consensus size: 36
8247477 TTAAAAATAA
* * * *
8247487 TAAAATTATTAAAAATTATTAGAAAATTTTAAATATG
1 TAAAAATA-TAAAAATTATTAGAAAATATAAAAGATG
8247524 TAAAAAATATAAAAATTATTAG-AAATCATAAAAGACTG
1 T-AAAAATATAAAAATTATTAGAAAAT-ATAAAAGA-TG
8247562 TAAAAA-ATAAAAA
1 TAAAAATATAAAAA
8247575 ATTTAAAATA
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
36 11 0.25
37 24 0.55
38 9 0.20
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.31
Consensus pattern (36 bp):
TAAAAATATAAAAATTATTAGAAAATATAAAAGATG
Found at i:8247575 original size:37 final size:37
Alignment explanation
Indices: 8247496--8247577 Score: 105
Period size: 37 Copynumber: 2.2 Consensus size: 37
8247486 ATAAAATTAT
* * *
8247496 TAAAAATTATTAGAAAATTTTAAATATGTAAAAAATA
1 TAAAAATTATTAGAAAATATAAAAGATGTAAAAAATA
8247533 TAAAAATTATTAG-AAATCATAAAAGACTGTAAAAAATA
1 TAAAAATTATTAGAAAAT-ATAAAAGA-TGTAAAAAATA
8247571 -AAAAATT
1 TAAAAATT
8247578 TAAAATACTA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
36 4 0.10
37 25 0.62
38 11 0.28
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.30
Consensus pattern (37 bp):
TAAAAATTATTAGAAAATATAAAAGATGTAAAAAATA
Found at i:8251410 original size:43 final size:44
Alignment explanation
Indices: 8251343--8251429 Score: 131
Period size: 43 Copynumber: 2.0 Consensus size: 44
8251333 GGAGACAAGA
* * *
8251343 TCTGTAATTTTCAGCCTATTACCCTACTGCTTAGGGGGTTAAGG
1 TCTGTAAATTTCAACCTATTACCCTACTGCTTAGGGGCTTAAGG
*
8251387 TCTGTAAATTT-AACCTGTTACCCTACTGCTTAGGGGCTTAAGG
1 TCTGTAAATTTCAACCTATTACCCTACTGCTTAGGGGCTTAAGG
8251430 CTTGGTGAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
43 29 0.74
44 10 0.26
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.36
Consensus pattern (44 bp):
TCTGTAAATTTCAACCTATTACCCTACTGCTTAGGGGCTTAAGG
Found at i:8263457 original size:3 final size:3
Alignment explanation
Indices: 8263449--8263537 Score: 67
Period size: 3 Copynumber: 30.0 Consensus size: 3
8263439 TGGGCAAAAT
* * * *
8263449 ATA ATA ATA ATA AT- ATA ATA GTA GTA ATA ATG ATA ATA ATA A-A GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
8263495 ATAA ATC ATA ATG ATA ATA GTA ATA ACA AT- ATA AGTA ATA ATA
1 AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA
8263538 TAAGTAAATA
Statistics
Matches: 67, Mismatches: 14, Indels: 10
0.74 0.15 0.11
Matches are distributed among these distances:
2 5 0.07
3 56 0.84
4 6 0.09
ACGTcount: A:0.58, C:0.02, G:0.08, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:8263536 original size:30 final size:28
Alignment explanation
Indices: 8263452--8263540 Score: 74
Period size: 29 Copynumber: 3.1 Consensus size: 28
8263442 GCAAAATATA
* * *
8263452 ATAATAATAATATAATAGTAGTAATAATG
1 ATAATAATAAAACAATA-AAGTAATAATG
** *
8263481 ATAATAATAAAGTAATAAA-TCATAATG
1 ATAATAATAAAACAATAAAGTAATAATG
*
8263508 ATAATAGTAATAACAATATAAGTAATAAT-
1 ATAATAATAA-AACAATA-AAGTAATAATG
8263537 ATAA
1 ATAA
8263541 GTAAATACAG
Statistics
Matches: 49, Mismatches: 8, Indels: 6
0.78 0.13 0.10
Matches are distributed among these distances:
27 16 0.33
28 6 0.12
29 21 0.43
30 6 0.12
ACGTcount: A:0.58, C:0.02, G:0.08, T:0.31
Consensus pattern (28 bp):
ATAATAATAAAACAATAAAGTAATAATG
Found at i:8266172 original size:41 final size:41
Alignment explanation
Indices: 8266115--8266200 Score: 163
Period size: 41 Copynumber: 2.1 Consensus size: 41
8266105 TAGCGGAATC
*
8266115 ATCCCCAACTCTATCTCCAATGCTTCCATGCTTAAGATTCT
1 ATCCCCAAATCTATCTCCAATGCTTCCATGCTTAAGATTCT
8266156 ATCCCCAAATCTATCTCCAATGCTTCCATGCTTAAGATTCT
1 ATCCCCAAATCTATCTCCAATGCTTCCATGCTTAAGATTCT
8266197 ATCC
1 ATCC
8266201 TTGGCACATA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.26, C:0.34, G:0.07, T:0.34
Consensus pattern (41 bp):
ATCCCCAAATCTATCTCCAATGCTTCCATGCTTAAGATTCT
Found at i:8268423 original size:21 final size:21
Alignment explanation
Indices: 8268399--8268446 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
8268389 TAATTTATAT
*
8268399 TTTATT-TAATTTTTATTCTTA
1 TTTATTCTAATTCTTATTC-TA
*
8268420 TTTATTCTTATTCTTATTCTA
1 TTTATTCTAATTCTTATTCTA
8268441 TTTATT
1 TTTATT
8268447 ACTCTTCTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 14 0.58
22 10 0.42
ACGTcount: A:0.21, C:0.08, G:0.00, T:0.71
Consensus pattern (21 bp):
TTTATTCTAATTCTTATTCTA
Found at i:8268430 original size:16 final size:16
Alignment explanation
Indices: 8268396--8268442 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
8268386 TATTAATTTA
*
8268396 TATT-TTATTTAATTTT
1 TATTCTTATTT-ATTCT
8268412 TATTCTTATTTATTCT
1 TATTCTTATTTATTCT
8268428 TATTCTTATTCTATT
1 TATTCTTATT-TATT
8268443 TATTACTCTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
16 18 0.64
17 10 0.36
ACGTcount: A:0.21, C:0.09, G:0.00, T:0.70
Consensus pattern (16 bp):
TATTCTTATTTATTCT
Found at i:8269014 original size:13 final size:13
Alignment explanation
Indices: 8268981--8269015 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
8268971 AGAGATTTGG
8268981 GGTCACATGGCCT
1 GGTCACATGGCCT
8268994 GG-CTACATGGCCT
1 GGTC-ACATGGCCT
8269007 GGTCACATG
1 GGTCACATG
8269016 ATTTGGGGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
12 1 0.05
13 18 0.90
14 1 0.05
ACGTcount: A:0.17, C:0.29, G:0.31, T:0.23
Consensus pattern (13 bp):
GGTCACATGGCCT
Found at i:8273129 original size:23 final size:23
Alignment explanation
Indices: 8273103--8273172 Score: 54
Period size: 23 Copynumber: 3.0 Consensus size: 23
8273093 CATAACAGAC
8273103 ATATATAGGTTCGCATACTACTA
1 ATATATAGGTTCGCATACTACTA
* * * * *
8273126 ATATGT-GAGTTTGCTTAACAAAT-
1 ATATATAG-GTTCGCAT-ACTACTA
*
8273149 ATATATAGGTTCGCATACTGCTA
1 ATATATAGGTTCGCATACTACTA
8273172 A
1 A
8273173 CATGTGAGTT
Statistics
Matches: 32, Mismatches: 11, Indels: 8
0.63 0.22 0.16
Matches are distributed among these distances:
22 4 0.12
23 23 0.72
24 5 0.16
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (23 bp):
ATATATAGGTTCGCATACTACTA
Found at i:8273136 original size:46 final size:46
Alignment explanation
Indices: 8272984--8273190 Score: 233
Period size: 46 Copynumber: 4.5 Consensus size: 46
8272974 GGATCACATG
* * *
8272984 CTGCTAATCATATGAGTTTGCATAA-AGGCGTATATAGGGTTC-CATA
1 CTGCTAAT-ATGTGAGTTTGCATAACAGACATATATA-GGTTCGCATA
* * * *
8273030 CTGCCAATGTGTGAGTTTGCATAACAGA-A-ATATGGGTTTGCATA
1 CTGCTAATATGTGAGTTTGCATAACAGACATATATAGGTTCGCATA
* *
8273074 CTGCTGACATGTGAGTTTGCATAACAGACATATATAGGTTCGCATA
1 CTGCTAATATGTGAGTTTGCATAACAGACATATATAGGTTCGCATA
* * * *
8273120 CTACTAATATGTGAGTTTGCTTAACAAATATATATAGGTTCGCATA
1 CTGCTAATATGTGAGTTTGCATAACAGACATATATAGGTTCGCATA
* *
8273166 CTGCTAACATGTGAGTTCGCATAAC
1 CTGCTAATATGTGAGTTTGCATAAC
8273191 TGATAAGCTG
Statistics
Matches: 134, Mismatches: 23, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
43 4 0.03
44 32 0.24
45 15 0.11
46 83 0.62
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.32
Consensus pattern (46 bp):
CTGCTAATATGTGAGTTTGCATAACAGACATATATAGGTTCGCATA
Found at i:8274880 original size:31 final size:31
Alignment explanation
Indices: 8274832--8274917 Score: 138
Period size: 31 Copynumber: 2.8 Consensus size: 31
8274822 TCAATTTCAA
*
8274832 CATAT-ACTGGGCTGAAGCCTTTACATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
* *
8274862 CATATCATTGGGCCGAAGCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
8274893 CATATCACTGGGCCGAAGCCTTTAC
1 CATATCACTGGGCCGAAGCCTTTAC
8274918 GGTAAACGGT
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
30 5 0.10
31 45 0.90
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.34
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTACATTATT
Found at i:8275906 original size:27 final size:27
Alignment explanation
Indices: 8275876--8276015 Score: 153
Period size: 27 Copynumber: 5.2 Consensus size: 27
8275866 GTTATGGAGT
8275876 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATATTGTGGCAGAGC
*
8275903 CACCA-AAACAGATATATGTGGCAGAGC
1 CACCAGATACAGATAT-TGTGGCAGAGC
* *
8275930 CACCAGAT-CAGAAAATTGTGGCATAGC
1 CACCAGATACAG-ATATTGTGGCAGAGC
* * *
8275957 CACAAG-GACAGATATATGTGCCAGAGC
1 CACCAGATACAGATAT-TGTGGCAGAGC
*
8275984 CACCAGAT-CAGATAATTGTGGCATAGC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
8276011 CACCA
1 CACCA
8276016 AGACGCTTCC
Statistics
Matches: 93, Mismatches: 13, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
26 12 0.13
27 75 0.81
28 6 0.06
ACGTcount: A:0.36, C:0.24, G:0.23, T:0.17
Consensus pattern (27 bp):
CACCAGATACAGATATTGTGGCAGAGC
Found at i:8275948 original size:54 final size:55
Alignment explanation
Indices: 8275876--8276018 Score: 211
Period size: 54 Copynumber: 2.6 Consensus size: 55
8275866 GTTATGGAGT
* * *
8275876 CACCAGATACAG-ATATTGTGGCAGAGCCACCAA-AACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGAAAATTGTGGCATAGCCACCAAGAACAGATATATGTGCCAGAGC
*
8275930 CACCAGATCAGAAAATTGTGGCATAGCCA-CAAGGACAGATATATGTGCCAGAGC
1 CACCAGATCAGAAAATTGTGGCATAGCCACCAAGAACAGATATATGTGCCAGAGC
*
8275984 CACCAGATCAGATAATTGTGGCATAGCCACCAAGA
1 CACCAGATCAGAAAATTGTGGCATAGCCACCAAGA
8276019 CGCTTCCTCC
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
53 6 0.08
54 70 0.88
55 4 0.05
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (55 bp):
CACCAGATCAGAAAATTGTGGCATAGCCACCAAGAACAGATATATGTGCCAGAGC
Found at i:8278189 original size:25 final size:25
Alignment explanation
Indices: 8278154--8278223 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
8278144 CTCTTTTAAT
*
8278154 AACTGGGGCAAAGCCCTTTTTGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
*
8278179 AATTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
* *
8278204 AACTAGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
8278224 GCACTTCCTC
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGGTA
Found at i:8278284 original size:10 final size:10
Alignment explanation
Indices: 8278268--8278307 Score: 62
Period size: 10 Copynumber: 3.9 Consensus size: 10
8278258 CATTTATGAA
8278268 CATATCATGG
1 CATATCATGG
*
8278278 AATATCATGTG
1 CATATCATG-G
8278289 CATATCATGG
1 CATATCATGG
8278299 CATATCATG
1 CATATCATG
8278308 TACAAAATCA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
10 18 0.67
11 9 0.33
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (10 bp):
CATATCATGG
Found at i:8278292 original size:21 final size:21
Alignment explanation
Indices: 8278268--8278308 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
8278258 CATTTATGAA
8278268 CATATCATGGAATATCATGTG
1 CATATCATGGAATATCATGTG
*
8278289 CATATCATGGCATATCATGT
1 CATATCATGGAATATCATGT
8278309 ACAAAATCAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (21 bp):
CATATCATGGAATATCATGTG
Found at i:8284201 original size:14 final size:14
Alignment explanation
Indices: 8284182--8284237 Score: 58
Period size: 14 Copynumber: 3.9 Consensus size: 14
8284172 ATTAATTGTG
*
8284182 ATTAAGGTTAATTA
1 ATTAAGTTTAATTA
*
8284196 ATTAAGATTTAATTT
1 ATTAAG-TTTAATTA
* *
8284211 ATTAAATTTGATTA
1 ATTAAGTTTAATTA
8284225 ATTAAGATTTAAT
1 ATTAAG-TTTAAT
8284238 CTAAATATAT
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
14 17 0.52
15 16 0.48
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.48
Consensus pattern (14 bp):
ATTAAGTTTAATTA
Found at i:8284209 original size:15 final size:15
Alignment explanation
Indices: 8284189--8284237 Score: 73
Period size: 15 Copynumber: 3.3 Consensus size: 15
8284179 GTGATTAAGG
8284189 TTAATTAATTAAGAT
1 TTAATTAATTAAGAT
*
8284204 TTAATTTATTAA-AT
1 TTAATTAATTAAGAT
*
8284218 TTGATTAATTAAGAT
1 TTAATTAATTAAGAT
8284233 TTAAT
1 TTAAT
8284238 CTAAATATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
14 12 0.41
15 17 0.59
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (15 bp):
TTAATTAATTAAGAT
Found at i:8288500 original size:26 final size:26
Alignment explanation
Indices: 8288463--8288546 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
8288453 TGATACAAAT
* *
8288463 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
8288489 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
8288515 TGATAATGAGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
8288541 TGATAA
1 TGATAA
8288547 GAATTTCATG
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:8290206 original size:27 final size:27
Alignment explanation
Indices: 8290165--8290304 Score: 165
Period size: 27 Copynumber: 5.2 Consensus size: 27
8290155 GAGGAAGCGT
* *
8290165 TCTGGTGGCTATGCCACAAATATCTCA
1 TCTGGTGGCTCTGCCACAAATATCTGA
8290192 TCTGGTGGCTCTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
8290219 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
8290246 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * * *
8290274 TCTAGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
8290300 TCTGG
1 TCTGG
8290305 CAGCCATGCT
Statistics
Matches: 99, Mismatches: 13, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
26 4 0.04
27 81 0.82
28 14 0.14
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.35
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:8290250 original size:54 final size:55
Alignment explanation
Indices: 8290165--8290304 Score: 185
Period size: 54 Copynumber: 2.6 Consensus size: 55
8290155 GAGGAAGCGT
* * **
8290165 TCTGGTGGCTATGCCACAAATATCTCATCTGGTGGCTCTGCCACAAATATCTG-A
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
* *
8290219 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
* * *
8290274 TCTAGTGACTCTGTCACAT-TATCTGTTCTGG
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGG
8290305 CAGCCATGCT
Statistics
Matches: 76, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
54 59 0.78
55 17 0.22
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.35
Consensus pattern (55 bp):
TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
Found at i:8295791 original size:32 final size:34
Alignment explanation
Indices: 8295736--8295801 Score: 109
Period size: 33 Copynumber: 2.0 Consensus size: 34
8295726 CATAAGGCCT
*
8295736 AGGCCATTTTGGGCCGTGTGGGCT-ACACGGGCA
1 AGGCCATTTTGGGCCGTGTGGGCTCACAAGGGCA
8295769 AGGCCATTTTGGG-CGTGTGGGCTCACAAGGGCA
1 AGGCCATTTTGGGCCGTGTGGGCTCACAAGGGCA
8295802 TGTGGGCTCA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 10 0.32
33 21 0.68
ACGTcount: A:0.17, C:0.23, G:0.39, T:0.21
Consensus pattern (34 bp):
AGGCCATTTTGGGCCGTGTGGGCTCACAAGGGCA
Found at i:8298457 original size:31 final size:28
Alignment explanation
Indices: 8298421--8298490 Score: 97
Period size: 27 Copynumber: 2.4 Consensus size: 28
8298411 ATATTAAATT
8298421 GTGAAAAGTTAGACTAAATAAACTAAGGTTA
1 GTGAAAAGTTA-A--AAATAAACTAAGGTTA
*
8298452 GTGAAAAGTT-AAAATGAACTAAGGTTA
1 GTGAAAAGTTAAAAATAAACTAAGGTTA
8298479 GTGAAAAGTTAA
1 GTGAAAAGTTAA
8298491 GCCTTAATTT
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
27 25 0.68
28 1 0.03
29 1 0.03
31 10 0.27
ACGTcount: A:0.49, C:0.04, G:0.21, T:0.26
Consensus pattern (28 bp):
GTGAAAAGTTAAAAATAAACTAAGGTTA
Found at i:8298472 original size:27 final size:27
Alignment explanation
Indices: 8298436--8298490 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
8298426 AAGTTAGACT
8298436 AAATAAACTAAGGTTAGTGAAAAGTTA
1 AAATAAACTAAGGTTAGTGAAAAGTTA
*
8298463 AAATGAACTAAGGTTAGTGAAAAGTTA
1 AAATAAACTAAGGTTAGTGAAAAGTTA
8298490 A
1 A
8298491 GCCTTAATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.51, C:0.04, G:0.20, T:0.25
Consensus pattern (27 bp):
AAATAAACTAAGGTTAGTGAAAAGTTA
Found at i:8303763 original size:46 final size:45
Alignment explanation
Indices: 8303629--8303781 Score: 164
Period size: 46 Copynumber: 3.4 Consensus size: 45
8303619 TGGACTGCAA
* * * *
8303629 TTTAAGCTCGTGCTTAGGAGTATCATCATTTATTATGTATGAACAA
1 TTTAAGCTCGTGCTTAGGAGGATCATCATTTATT-TATATGAATAG
** * *
8303675 TTTAAATTCATGCTTAGGAGG-TCATCGTTTATTTCATATGAATAG
1 TTTAAGCTCGTGCTTAGGAGGATCATCATTTATTT-ATATGAATAG
* *
8303720 TTTAAGCTCGTGCTTCGGAGGATCATCATTTATTCTTTATGAATAG
1 TTTAAGCTCGTGCTTAGGAGGATCATCATTTATT-TATATGAATAG
* *
8303766 TTTAAGATTGTGCTTA
1 TTTAAGCTCGTGCTTA
8303782 AAGCATGACC
Statistics
Matches: 87, Mismatches: 17, Indels: 6
0.79 0.15 0.05
Matches are distributed among these distances:
44 1 0.01
45 35 0.40
46 50 0.57
47 1 0.01
ACGTcount: A:0.27, C:0.12, G:0.18, T:0.42
Consensus pattern (45 bp):
TTTAAGCTCGTGCTTAGGAGGATCATCATTTATTTATATGAATAG
Found at i:8305422 original size:15 final size:15
Alignment explanation
Indices: 8305398--8305427 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
8305388 TGACGAGATC
*
8305398 GAAGAGAAAGAAAAA
1 GAAGAAAAAGAAAAA
8305413 GAAGAAAAAGAAAAA
1 GAAGAAAAAGAAAAA
8305428 AATTAACTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (15 bp):
GAAGAAAAAGAAAAA
Found at i:8307721 original size:17 final size:17
Alignment explanation
Indices: 8307699--8307756 Score: 66
Period size: 17 Copynumber: 3.5 Consensus size: 17
8307689 ATCAGACACT
*
8307699 TATCCATC-TATATGTCA
1 TATCCATCATTTAT-TCA
*
8307716 TATCCATCGTTTATTCA
1 TATCCATCATTTATTCA
*
8307733 TACCCATCATTTATTCA
1 TATCCATCATTTATTCA
8307750 T-TCCATC
1 TATCCATC
8307757 TGCCACTTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
16 5 0.14
17 27 0.75
18 4 0.11
ACGTcount: A:0.26, C:0.28, G:0.03, T:0.43
Consensus pattern (17 bp):
TATCCATCATTTATTCA
Found at i:8307831 original size:20 final size:20
Alignment explanation
Indices: 8307765--8307829 Score: 62
Period size: 20 Copynumber: 3.1 Consensus size: 20
8307755 TCTGCCACTT
8307765 TTTATTCTATAATTTATTTATT-
1 TTTATTCT-TAA--TATTTATTA
*
8307787 TATTATTTTTAATATTTATTA
1 T-TTATTCTTAATATTTATTA
*
8307808 TTTATTCTTAA-ATTTCTTA
1 TTTATTCTTAATATTTATTA
8307827 TTT
1 TTT
8307830 TAGTTTTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
19 10 0.26
20 17 0.45
21 1 0.03
22 4 0.11
23 6 0.16
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTATTCTTAATATTTATTA
Found at i:8313745 original size:15 final size:16
Alignment explanation
Indices: 8313725--8313762 Score: 60
Period size: 17 Copynumber: 2.4 Consensus size: 16
8313715 ACCTGGATCA
8313725 CATAAT-CACAATACT
1 CATAATACACAATACT
8313740 CATAATGACACAATACT
1 CATAAT-ACACAATACT
8313757 CATAAT
1 CATAAT
8313763 GACCCTAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 6 0.29
17 15 0.71
ACGTcount: A:0.47, C:0.24, G:0.03, T:0.26
Consensus pattern (16 bp):
CATAATACACAATACT
Found at i:8313753 original size:17 final size:17
Alignment explanation
Indices: 8313731--8313765 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
8313721 ATCACATAAT
8313731 CACAATACTCATAATGA
1 CACAATACTCATAATGA
8313748 CACAATACTCATAATGA
1 CACAATACTCATAATGA
8313765 C
1 C
8313766 CCTAGTGACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.46, C:0.26, G:0.06, T:0.23
Consensus pattern (17 bp):
CACAATACTCATAATGA
Found at i:8314851 original size:13 final size:13
Alignment explanation
Indices: 8314833--8314866 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
8314823 CCAAACGTCA
*
8314833 AAATTTTTGAACG
1 AAATTTTCGAACG
*
8314846 AAATTTTCGAATG
1 AAATTTTCGAACG
8314859 AAATTTTC
1 AAATTTTC
8314867 AAAAAGGCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.38, C:0.09, G:0.12, T:0.41
Consensus pattern (13 bp):
AAATTTTCGAACG
Found at i:8318628 original size:16 final size:17
Alignment explanation
Indices: 8318593--8318633 Score: 57
Period size: 16 Copynumber: 2.4 Consensus size: 17
8318583 GTTTTAAATA
*
8318593 TTTTATAAAATATTTAAT
1 TTTTA-AAAATATATAAT
8318611 TTTTAAAAATATAT-AT
1 TTTTAAAAATATATAAT
8318627 TTTTAAA
1 TTTTAAA
8318634 GGGAAATTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 9 0.41
17 8 0.36
18 5 0.23
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
TTTTAAAAATATATAAT
Found at i:8319212 original size:18 final size:18
Alignment explanation
Indices: 8319189--8319251 Score: 69
Period size: 18 Copynumber: 3.5 Consensus size: 18
8319179 AACTTTTCGA
8319189 GTGAAATAAAATTTCTTT
1 GTGAAATAAAATTTCTTT
8319207 GTGAAAT--AATTT-TTT
1 GTGAAATAAAATTTCTTT
*
8319222 CGAGTGAAATAAAATTTCTTA
1 ---GTGAAATAAAATTTCTTT
8319243 GTGAAATAA
1 GTGAAATAA
8319252 TTTTTGGTAT
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
15 3 0.08
16 5 0.13
18 23 0.61
20 5 0.13
21 2 0.05
ACGTcount: A:0.41, C:0.05, G:0.14, T:0.40
Consensus pattern (18 bp):
GTGAAATAAAATTTCTTT
Found at i:8319229 original size:36 final size:36
Alignment explanation
Indices: 8319182--8319256 Score: 141
Period size: 36 Copynumber: 2.1 Consensus size: 36
8319172 AAACATTAAC
*
8319182 TTTTCGAGTGAAATAAAATTTCTTTGTGAAATAATT
1 TTTTCGAGTGAAATAAAATTTCTTAGTGAAATAATT
8319218 TTTTCGAGTGAAATAAAATTTCTTAGTGAAATAATT
1 TTTTCGAGTGAAATAAAATTTCTTAGTGAAATAATT
8319254 TTT
1 TTT
8319257 GGTATCTTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.36, C:0.05, G:0.13, T:0.45
Consensus pattern (36 bp):
TTTTCGAGTGAAATAAAATTTCTTAGTGAAATAATT
Found at i:8322340 original size:626 final size:614
Alignment explanation
Indices: 8320969--8322569 Score: 2310
Period size: 626 Copynumber: 2.6 Consensus size: 614
8320959 CAGGTTCCAT
* * * *
8320969 CTTCCATCTTCAAGATTTCTTCTTTGAAAGCTATT-AGTCTCTCCAGCAATAGCCTATCAGGTAG
1 CTTCGATCTTCAACATTTCTTCTTTGAGA-CTATTGA-TCTCTCCAACAATAGCCTATCAGGTAG
*
8321033 TTTGCCTAATGATATGTGTCAACATCTTCCCAAGCTTGAAGGGCTTTACTTGAGTTGGAATGAAT
64 TTTGCCTAGTGATATGTGTCAACATCTTCCCAAGCTTGAAGGGCTTTACTTGAGTTGGAATGAAT
* *
8321098 TATCTGGTAACATTACATTTGGCATGGGCAAATGCAACAACCTTAAAAATTTGTCATTGTCTTAT
129 TATCTGGTAACATTCCATTTGGCATGGGCAAATGCAACAACCTT-AAAATTTGTCATTGTCCTAT
8321163 AATCAATTTACGGGAATCATTCCAAGAAGTATTGGAAATATGACTCTACTTGAAGAATTATATTT
193 AATCAATTTACGGGAATCATTCCAAGAAGTATTGGAAATATGACTCTACTTGAAGAATTATATTT
*
8321228 GGGGTTTAATAATCTAGAAGGTACTGAATTTCTTTGGTTTCTTTAGTTTAAAGTATTTTCTTTAT
258 GGGGTTTAATAATCTAGAAGGTACTGAATTTCTTTGGTTTTTTTAGTTTAAAGTATTTTCTTTAT
* * **
8321293 ATAAGAGTTTGATTTGTAATAGATAACAAAAACTAAGAACTTTTTATTTCATTGGAGGAAAAATA
323 ATAAGAGTTTGATTTGTAATAGATAAC-AAAAGTAAGAACATTTTATTTCATTCAAGGAAAAATA
* * * * *
8321358 GATACTTTGATGAAAAATAAATGCTGAAATATATTAAAGTCTAACATCTCCAAATTATTGTAGAA
387 AATACTTTGATGAAAAATAAATGATGAAAAATATTAAAATCTAACATCTCCAAATTATCGTAGAA
*
8321423 CAGAAAAGAAAACCTCTTTGACTTATGCTAAAAAAGTAGGTAGTTTAACACATTGATTTTTCGAC
452 CAGAAAAGAAAACCTCTTTGACTTATGCTAAAAAAGTAGGTAGTTTAACACATTGATTTCTCGAC
* * *
8321488 TATGTCTGTAGGTCAAATTCCTGAGGAAATCGGTAATCTTCTTGGTTTGGAACTGCTTAATATTA
517 TATGTCTGCAGGTCAAATTCCTAAGGAAATCGGTAATCTTCTTGGTTTGGAAATGCTTAATATTA
* * *
8321553 AAGCAATTAAAGGCCTTACTGGTCAGATTCCGA
582 AAGCAATTAAAGGCCTTACAGGTCAGATACCAA
*
8321586 CTTCGATCTTCAACATTACTTCTTTGAAGACTATTGATCTCTCCAACAATAGCCTATCAGGTAGT
1 CTTCGATCTTCAACATTTCTTCTTTG-AGACTATTGATCTCTCCAACAATAGCCTATCAGGTAGT
8321651 TTGCCTAGTGATATGTGTCAACATCTTCCCAAGCTTGAAGGGCTTTACTTGAGTTGGAATGAATT
65 TTGCCTAGTGATATGTGTCAACATCTTCCCAAGCTTGAAGGGCTTTACTTGAGTTGGAATGAATT
* *
8321716 ATCTGGTAGCATTCCATTTGGCATGGGCAAATGCAACAACCTTAAAGATTTGTCGTTGTCCTATA
130 ATCTGGTAACATTCCATTTGGCATGGGCAAATGCAACAACCTTAAA-ATTTGTCATTGTCCTATA
*
8321781 ATCAATTTATGGGAATCATTCCAAGAAGTATTGGAAATATGACTCTACTTGAAGAATTATATTTG
194 ATCAATTTACGGGAATCATTCCAAGAAGTATTGGAAATATGACTCTACTTGAAGAATTATATTTG
8321846 GGGTTTAATAATCTAGAAGGTACTGAATTTCTTTGGTTTTTTTAGTTTAAAGTATTTTCTTTATA
259 GGGTTTAATAATCTAGAAGGTACTGAATTTCTTTGGTTTTTTTAGTTTAAAGTATTTTCTTTATA
* * *
8321911 TAAGTGTTTGATTTGTAATAGATAACAAAAGTAAGAGCATTTTATTTTATTCAAGGCAAAATAGT
324 TAAGAGTTTGATTTGTAATAGATAACAAAAGTAAGAACATTTTATTTCATTCAAGG-AAAA-A--
* * *
8321976 TCAAAATAGTTAAATTGATGAAAACA-AATATGATTAAAAATATTAAAATCTAACATCTGCAAAT
385 T--AAATA-CT---TTGATGAAAA-ATAA-ATGATGAAAAATATTAAAATCTAACATCTCCAAAT
* *
8322040 TA-CGTAGAACAGAAAAGAAAACCTCTTTGACTTATGCTAACAAAA-TAGGTAGTTTGACACCTT
442 TATCGTAGAACAGAAAAGAAAACCTCTTTGACTTATGCTAA-AAAAGTAGGTAGTTTAACACATT
*
8322103 GATTTCTCGACTATGTGTGCAGGTCAAATTCCTAAGGAAATCGGTAATCTTCTTGGTTTGGAAAT
506 GATTTCTCGACTATGTCTGCAGGTCAAATTCCTAAGGAAATCGGTAATCTTCTTGGTTTGGAAAT
8322168 GCTTAATATTAAAGCAATTAAAGGCCTTACAGGTCAGATACCAA
571 GCTTAATATTAAAGCAATTAAAGGCCTTACAGGTCAGATACCAA
*
8322212 CTTCGATCTTCAACATTTCTTCTCTAGAGACTATTGATCTCTCCAACAATAGCCTATCAGGTAGT
1 CTTCGATCTTCAACATTTCTTCT-TTGAGACTATTGATCTCTCCAACAATAGCCTATCAGGTAGT
* * *
8322277 TTGCCTAGTGATATGTGTCAACATCTTCCCAAGCTTGAAGTGCTTTACTTGCA-TAGAAATGAAT
65 TTGCCTAGTGATATGTGTCAACATCTTCCCAAGCTTGAAGGGCTTTACTTG-AGTTGGAATGAAT
* ** * * *
8322341 TATCTGGTAACATTCCGTTAAGTATGGACAAATGCAACAACCTTAAAATGTTGGCATTGTCCGT-
129 TATCTGGTAACATTCCATTTGGCATGGGCAAATGCAACAACCTTAAAAT-TTGTCATTGTCC-TA
* * * * * * *
8322405 GAATCAATTTACGGGGATCATTCCAAGAAGTATTGGAAATCTGACACAACTCGAA-AGATTAGAT
192 TAATCAATTTACGGGAATCATTCCAAGAAGTATTGGAAATATGACTCTACTTGAAGA-ATTATAT
** ** * * *
8322469 TTGGCATGGAATAA-CTTAGAAGGTATTAAATTTTCTTT-G-TTTCTT--TTTAAAGTATTTT-T
256 TTGGGGTTTAATAATC-TAGAAGGTACTGAA-TTTCTTTGGTTTTTTTAGTTTAAAGTATTTTCT
*
8322528 TTCATAAAAGAGTTTGATTTGTAATAGATAACAAAAGTAAGA
319 TT-ATATAAGAGTTTGATTTGTAATAGATAACAAAAGTAAGA
8322570 TTTGATTTGT
Statistics
Matches: 893, Mismatches: 67, Indels: 42
0.89 0.07 0.04
Matches are distributed among these distances:
616 27 0.03
617 333 0.37
618 4 0.00
620 1 0.00
622 7 0.01
623 51 0.06
625 9 0.01
626 413 0.46
627 48 0.05
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (614 bp):
CTTCGATCTTCAACATTTCTTCTTTGAGACTATTGATCTCTCCAACAATAGCCTATCAGGTAGTT
TGCCTAGTGATATGTGTCAACATCTTCCCAAGCTTGAAGGGCTTTACTTGAGTTGGAATGAATTA
TCTGGTAACATTCCATTTGGCATGGGCAAATGCAACAACCTTAAAATTTGTCATTGTCCTATAAT
CAATTTACGGGAATCATTCCAAGAAGTATTGGAAATATGACTCTACTTGAAGAATTATATTTGGG
GTTTAATAATCTAGAAGGTACTGAATTTCTTTGGTTTTTTTAGTTTAAAGTATTTTCTTTATATA
AGAGTTTGATTTGTAATAGATAACAAAAGTAAGAACATTTTATTTCATTCAAGGAAAAATAAATA
CTTTGATGAAAAATAAATGATGAAAAATATTAAAATCTAACATCTCCAAATTATCGTAGAACAGA
AAAGAAAACCTCTTTGACTTATGCTAAAAAAGTAGGTAGTTTAACACATTGATTTCTCGACTATG
TCTGCAGGTCAAATTCCTAAGGAAATCGGTAATCTTCTTGGTTTGGAAATGCTTAATATTAAAGC
AATTAAAGGCCTTACAGGTCAGATACCAA
Found at i:8322574 original size:30 final size:31
Alignment explanation
Indices: 8322535--8322600 Score: 116
Period size: 30 Copynumber: 2.2 Consensus size: 31
8322525 TTTTTCATAA
8322535 AAGAGTTTGATTTGTAATAGATAACAAAAGT
1 AAGAGTTTGATTTGTAATAGATAACAAAAGT
*
8322566 AAGA-TTTGATTTGTAATAGATTACAAAAGT
1 AAGAGTTTGATTTGTAATAGATAACAAAAGT
8322596 AAGAG
1 AAGAG
8322601 CATTTTATTT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
30 29 0.88
31 4 0.12
ACGTcount: A:0.45, C:0.03, G:0.20, T:0.32
Consensus pattern (31 bp):
AAGAGTTTGATTTGTAATAGATAACAAAAGT
Found at i:8331757 original size:26 final size:26
Alignment explanation
Indices: 8331727--8331778 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
8331717 CACCAATGAA
*
8331727 TCGGGGAATCAGCACTTAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
8331753 TCGGGGAATCAGCACATAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
8331779 CTTTCACATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.29, C:0.35, G:0.23, T:0.13
Consensus pattern (26 bp):
TCGGGGAATCAGCACATAGCAACCCC
Found at i:8331812 original size:103 final size:104
Alignment explanation
Indices: 8331591--8331855 Score: 446
Period size: 103 Copynumber: 2.6 Consensus size: 104
8331581 TAACCGTTAT
* *
8331591 TGGTGGATCTCGCACTTAGCACCACCACTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATCACGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
8331656 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
8331695 TGGTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTC-GGG
1 TGGTGGATCA-CGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
8331758 GAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
65 GAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
* * **
8331798 TGGTGGATCACGCACATAGCACCACC-ATAAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGATCACGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
8331856 TTTATATACA
Statistics
Matches: 153, Mismatches: 6, Indels: 6
0.93 0.04 0.04
Matches are distributed among these distances:
102 29 0.19
103 66 0.43
104 58 0.38
ACGTcount: A:0.31, C:0.31, G:0.20, T:0.19
Consensus pattern (104 bp):
TGGTGGATCACGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
Found at i:8332216 original size:29 final size:29
Alignment explanation
Indices: 8332183--8332246 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
8332173 TAATCCACCA
8332183 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
8332212 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
8332242 CCCAA
1 CCCAA
8332247 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:8332220 original size:30 final size:30
Alignment explanation
Indices: 8332190--8332246 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
8332180 CCACCCAACT
8332190 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
8332219 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
8332247 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:8339235 original size:26 final size:26
Alignment explanation
Indices: 8339205--8339255 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
8339195 ACCAATGAAC
*
8339205 CGGGGAATCAGCACTTAGCAACCCCT
1 CGGGGAATCAGCACATAGCAACCCCT
8339231 CGGGGAATCAGCACATAGCAACCCC
1 CGGGGAATCAGCACATAGCAACCCC
8339256 CTTTCACATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.35, G:0.24, T:0.12
Consensus pattern (26 bp):
CGGGGAATCAGCACATAGCAACCCCT
Found at i:8339289 original size:103 final size:104
Alignment explanation
Indices: 8339068--8339332 Score: 437
Period size: 103 Copynumber: 2.6 Consensus size: 104
8339058 TAACCGTTAT
* *
8339068 TGGTGGATCTCGCACTTAGCACCACCACTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATCACGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
8339133 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
*
8339172 TGGTGGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTC-GGG
1 TGGTGGATCA-CGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
8339235 GAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
65 GAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
* * **
8339275 TGGTGGATCACGCACATAGCACCACC-ATAAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGATCACGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
8339333 TTATATACAA
Statistics
Matches: 151, Mismatches: 8, Indels: 6
0.92 0.05 0.04
Matches are distributed among these distances:
102 28 0.19
103 66 0.44
104 57 0.38
ACGTcount: A:0.31, C:0.31, G:0.20, T:0.18
Consensus pattern (104 bp):
TGGTGGATCACGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
Found at i:8339689 original size:29 final size:29
Alignment explanation
Indices: 8339656--8339719 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
8339646 TAATCCACCA
8339656 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
8339685 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
8339715 CCCAA
1 CCCAA
8339720 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:8339693 original size:30 final size:30
Alignment explanation
Indices: 8339663--8339719 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
8339653 CCACCCAACT
8339663 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
8339692 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
8339720 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:8342729 original size:3 final size:3
Alignment explanation
Indices: 8342694--8342798 Score: 54
Period size: 3 Copynumber: 34.0 Consensus size: 3
8342684 CTTCCTTTAC
* * * *
8342694 TAT TAT TTT TAT T-T TTT TAT TTT TAT CATT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT
* * * *
8342739 TAT TAT CAT TGA- TAT GTCGT TAT TAT T-T TAT TGT CTCAT CAT TAT
1 TAT TAT TAT T-AT TAT -T-AT TAT TAT TAT TAT TAT -T-AT TAT TAT
*
8342784 TGT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT
8342799 CATCTTGTTT
Statistics
Matches: 76, Mismatches: 17, Indels: 18
0.68 0.15 0.16
Matches are distributed among these distances:
2 5 0.07
3 63 0.83
4 6 0.08
5 2 0.03
ACGTcount: A:0.25, C:0.06, G:0.05, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:8345318 original size:15 final size:15
Alignment explanation
Indices: 8345298--8345344 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
8345288 TAATATATAT
8345298 TTCAATCAATATAAA
1 TTCAATCAATATAAA
* * *
8345313 TTCAATCAAAATGAT
1 TTCAATCAATATAAA
8345328 TTCAATCAATATAAA
1 TTCAATCAATATAAA
8345343 TT
1 TT
8345345 TGATAAATTC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.49, C:0.13, G:0.02, T:0.36
Consensus pattern (15 bp):
TTCAATCAATATAAA
Found at i:8352110 original size:26 final size:26
Alignment explanation
Indices: 8352074--8352157 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
8352064 CATGAAATTC
*
8352074 TTATCATGAAACATTTACTTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
8352100 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
8352126 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
8352152 TTATCA
1 TTATCA
8352158 ATTTGTATCA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:8352512 original size:15 final size:15
Alignment explanation
Indices: 8352492--8352538 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
8352482 AGCGTTACAT
8352492 TTCAATCAATATAAA
1 TTCAATCAATATAAA
* * *
8352507 TTCAATCAAAATGAT
1 TTCAATCAATATAAA
8352522 TTCAATCAATATAAA
1 TTCAATCAATATAAA
8352537 TT
1 TT
8352539 TGATAAATTC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.49, C:0.13, G:0.02, T:0.36
Consensus pattern (15 bp):
TTCAATCAATATAAA
Found at i:8354034 original size:13 final size:13
Alignment explanation
Indices: 8354016--8354040 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8354006 ATAATAAGTA
8354016 AATACATGTGTAT
1 AATACATGTGTAT
8354029 AATACATGTGTA
1 AATACATGTGTA
8354041 CCATTTATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.08, G:0.16, T:0.36
Consensus pattern (13 bp):
AATACATGTGTAT
Found at i:8356159 original size:26 final size:26
Alignment explanation
Indices: 8356130--8356179 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
8356120 TAATAATAAA
8356130 AATG-TAATAATAATAATATTAATATT
1 AATGATAA-AATAATAATATTAATATT
* *
8356156 AATGATCAAATCATAATATTAATA
1 AATGATAAAATAATAATATTAATA
8356180 AAATAAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 19 0.90
27 2 0.10
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.38
Consensus pattern (26 bp):
AATGATAAAATAATAATATTAATATT
Found at i:8356328 original size:9 final size:8
Alignment explanation
Indices: 8356275--8356339 Score: 51
Period size: 8 Copynumber: 7.9 Consensus size: 8
8356265 ATAATAAAAG
8356275 AAATAATA
1 AAATAATA
*
8356283 AAATAACGA
1 AAATAA-TA
*
8356292 GAATAATA
1 AAATAATA
* *
8356300 AAAAAATT
1 AAATAATA
8356308 AAA-AATA
1 AAATAATA
8356315 AAATAATA
1 AAATAATA
*
8356323 ACAATAACA
1 A-AATAATA
8356332 ATAATAAT
1 A-AATAAT
8356340 GCACAAGTAA
Statistics
Matches: 44, Mismatches: 10, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
7 6 0.14
8 20 0.45
9 18 0.41
ACGTcount: A:0.71, C:0.05, G:0.03, T:0.22
Consensus pattern (8 bp):
AAATAATA
Found at i:8356334 original size:20 final size:19
Alignment explanation
Indices: 8356275--8356335 Score: 59
Period size: 20 Copynumber: 3.1 Consensus size: 19
8356265 ATAATAAAAG
* *
8356275 AAATAATAAAATAACGAGA
1 AAATAATAAAATAACAATA
* *
8356294 ATAATAAAAAAATTAAAAATA
1 A-AATAATAAAA-TAACAATA
8356315 AAATAATAACAATAACAATA
1 AAATAATAA-AATAACAATA
8356335 A
1 A
8356336 TAATGCACAA
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
19 1 0.03
20 24 0.73
21 8 0.24
ACGTcount: A:0.72, C:0.05, G:0.03, T:0.20
Consensus pattern (19 bp):
AAATAATAAAATAACAATA
Found at i:8357444 original size:15 final size:14
Alignment explanation
Indices: 8357410--8357443 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
8357400 AAAGATTACC
8357410 TTTTTTCTTTTCAA
1 TTTTTTCTTTTCAA
* *
8357424 ATTTTTCTTTTCTA
1 TTTTTTCTTTTCAA
8357438 TTTTTT
1 TTTTTT
8357444 TATTGCTTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTTTTCTTTTCAA
Found at i:8360088 original size:15 final size:15
Alignment explanation
Indices: 8360068--8360098 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
8360058 AATCTATTGG
8360068 CTTATAAATGAAAAC
1 CTTATAAATGAAAAC
8360083 CTTATAAATGAAAAC
1 CTTATAAATGAAAAC
8360098 C
1 C
8360099 AATTCTCATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.52, C:0.16, G:0.06, T:0.26
Consensus pattern (15 bp):
CTTATAAATGAAAAC
Found at i:8364697 original size:23 final size:23
Alignment explanation
Indices: 8364671--8364743 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
8364661 AGTGCCACAT
8364671 TGATATGTAGCCGAAGCTACCAC
1 TGATATGTAGCCGAAGCTACCAC
*
8364694 TGATATGTAGCCGTAGCTACCAC
1 TGATATGTAGCCGAAGCTACCAC
* *
8364717 TAAAATGTAGCCGAAGCTACCAC
1 TGATATGTAGCCGAAGCTACCAC
8364740 TGAT
1 TGAT
8364744 CAATAACACT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.23
Consensus pattern (23 bp):
TGATATGTAGCCGAAGCTACCAC
Found at i:8364843 original size:8 final size:8
Alignment explanation
Indices: 8364830--8364858 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
8364820 ACCCGGGACT
8364830 CACTGTAA
1 CACTGTAA
8364838 CACTGTAA
1 CACTGTAA
8364846 CACTGTAA
1 CACTGTAA
8364854 CACTG
1 CACTG
8364859 GTCTCTAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (8 bp):
CACTGTAA
Found at i:8371571 original size:17 final size:18
Alignment explanation
Indices: 8371536--8371573 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
8371526 TATGCAGATT
*
8371536 GCCTGTGTGGGCTCACAC
1 GCCTGTGTGGGCCCACAC
8371554 GCCTGTGT-GGCCCACAC
1 GCCTGTGTGGGCCCACAC
8371571 GCC
1 GCC
8371574 CGATTTGGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.11, C:0.39, G:0.32, T:0.18
Consensus pattern (18 bp):
GCCTGTGTGGGCCCACAC
Done.