Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018397254.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_30.0, whole genome shotgun sequence
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: 15579451
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 73860 characters in sequence are not A, C, G, or T
File 16 of 32
Found at i:8656067 original size:6 final size:6
Alignment explanation
Indices: 8656056--8656121 Score: 50
Period size: 5 Copynumber: 11.0 Consensus size: 6
8656046 AAAAATTAAT
* *
8656056 AATATA AATATA AATAT- ATTAAA AATA-A AATATAA AATATTA TAATAATA
1 AATATA AATATA AATATA AATATA AATATA AATAT-A AATA-TA -AAT-ATA
8656106 AATA-A AATA-A AATATA
1 AATATA AATATA AATATA
8656122 TGACATTAAA
Statistics
Matches: 50, Mismatches: 3, Indels: 14
0.75 0.04 0.21
Matches are distributed among these distances:
5 18 0.36
6 16 0.32
7 9 0.18
8 6 0.12
9 1 0.02
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
AATATA
Found at i:8656073 original size:12 final size:12
Alignment explanation
Indices: 8656056--8656121 Score: 50
Period size: 11 Copynumber: 5.5 Consensus size: 12
8656046 AAAAATTAAT
8656056 AATATAAATATA
1 AATATAAATATA
* *
8656068 AATAT-ATTAAA
1 AATATAAATATA
8656079 AATA-AAATATAA
1 AATATAAATAT-A
8656091 AATATTATAATAATA
1 AATA-TA-AAT-ATA
8656106 AATA-AAATA-A
1 AATATAAATATA
8656116 AATATA
1 AATATA
8656122 TGACATTAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 15
0.69 0.06 0.24
Matches are distributed among these distances:
10 5 0.12
11 13 0.30
12 13 0.30
13 1 0.02
14 1 0.02
15 8 0.19
16 2 0.05
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AATATAAATATA
Found at i:8656080 original size:30 final size:28
Alignment explanation
Indices: 8655962--8656304 Score: 159
Period size: 27 Copynumber: 12.1 Consensus size: 28
8655952 ATTAAAGAAA
* *
8655962 TAAAAATAA-AATATATAA-A-ATTATAA
1 TAAAAATAATAATATA-AATATAATATAT
* *
8655988 TAATAAATAAAAATA-AAATAT-ATGACAT
1 TAA-AAATAATAATATAAATATAAT-ATAT
* *
8656016 TAAAAAT-AT-ATTTAAAATATGATATTAT
1 TAAAAATAATAATAT-AAATATAATA-TAT
8656044 ATAAAAATTAATAATATAAATATAAATATAT
1 -TAAAAA-TAATAATATAAATAT-AATATAT
* *
8656075 TAAAAATAA-AATATAAA-ATATTATAA
1 TAAAAATAATAATATAAATATAATATAT
*
8656101 TAATAAATAA-AATA-AAATAT-ATGACAT
1 TAA-AAATAATAATATAAATATAAT-ATAT
* * *
8656128 TAAAAAT-AT-ATTTAAGAAATGATATTAT
1 TAAAAATAATAATATAA-ATATAATA-TAT
*
8656156 ATAAAAATTAATAATAAAAATATAAATATAT
1 -TAAAAA-TAATAATATAAATAT-AATATAT
* *
8656187 TAAAAATAA-AATATAAA-ATATTATAA
1 TAAAAATAATAATATAAATATAATATAT
*
8656213 TAATAAATAAAAATA-AAATAT-ATGATAT
1 TAA-AAATAATAATATAAATATAAT-ATAT
* * *
8656241 TAAAAAT-AT-ATTTAAGAAATGATATTAT
1 TAAAAATAATAATATAA-ATATAATA-TAT
*
8656269 ATAAAAACTAATAATAAAAAATATGAATATAT
1 -TAAAAA-TAATAAT-ATAAATAT-AATATAT
8656301 TAAA
1 TAAA
8656305 TTTATATTTT
Statistics
Matches: 244, Mismatches: 32, Indels: 77
0.69 0.09 0.22
Matches are distributed among these distances:
25 7 0.03
26 35 0.14
27 63 0.26
28 49 0.20
29 24 0.10
30 15 0.06
31 25 0.10
32 21 0.09
33 5 0.02
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (28 bp):
TAAAAATAATAATATAAATATAATATAT
Found at i:8656142 original size:112 final size:113
Alignment explanation
Indices: 8655962--8656304 Score: 602
Period size: 112 Copynumber: 3.0 Consensus size: 113
8655952 ATTAAAGAAA
8655962 TAAAAATAAAATATATAAA-ATTATAATAATAAATAAAAATAAAATATATGACATTAAAAATATA
1 TAAAAATAAAATATA-AAATATTATAATAATAAATAAAAATAAAATATATGACATTAAAAATATA
*
8656026 TTTAA-AATATGATATTATATAAAAATTAATAATATAAATATAAATATAT
65 TTTAAGAA-ATGATATTATATAAAAATTAATAATAAAAATATAAATATAT
8656075 TAAAAATAAAATATAAAATATTATAATAATAAAT-AAAATAAAATATATGACATTAAAAATATAT
1 TAAAAATAAAATATAAAATATTATAATAATAAATAAAAATAAAATATATGACATTAAAAATATAT
8656139 TTAAGAAATGATATTATATAAAAATTAATAATAAAAATATAAATATAT
66 TTAAGAAATGATATTATATAAAAATTAATAATAAAAATATAAATATAT
*
8656187 TAAAAATAAAATATAAAATATTATAATAATAAATAAAAATAAAATATATGATATTAAAAATATAT
1 TAAAAATAAAATATAAAATATTATAATAATAAATAAAAATAAAATATATGACATTAAAAATATAT
* *
8656252 TTAAGAAATGATATTATATAAAAACTAATAATAAAAAATATGAATATAT
66 TTAAGAAATGATATTATATAAAAATTAATAAT-AAAAATATAAATATAT
8656301 TAAA
1 TAAA
8656305 TTTATATTTT
Statistics
Matches: 222, Mismatches: 4, Indels: 7
0.95 0.02 0.03
Matches are distributed among these distances:
112 111 0.50
113 92 0.41
114 19 0.09
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (113 bp):
TAAAAATAAAATATAAAATATTATAATAATAAATAAAAATAAAATATATGACATTAAAAATATAT
TTAAGAAATGATATTATATAAAAATTAATAATAAAAATATAAATATAT
Found at i:8656168 original size:63 final size:61
Alignment explanation
Indices: 8656101--8656287 Score: 198
Period size: 63 Copynumber: 3.2 Consensus size: 61
8656091 AATATTATAA
8656101 TAATAAATAAAATAAAATATATGACATTAAAAATATATTTAAGAAATGATATTATATAAAAAT
1 TAAT-AATAAAATAAAATATATGA-ATTAAAAATATATTTAAGAAATGATATTATATAAAAAT
* ** * *
8656164 TAATAATAAAAATATAA-ATAT--ATTAAAAATA-AAAT-ATAAA--ATA-T-TATAATAAT
1 TAATAAT-AAAATAAAATATATGAATTAAAAATATATTTAAGAAATGATATTATATAAAAAT
* *
8656217 AAAT-A-AAAATAAAATATATGATATTAAAAATATATTTAAGAAATGATATTATATAAAAAC
1 TAATAATAAAATAAAATATATGA-ATTAAAAATATATTTAAGAAATGATATTATATAAAAAT
8656277 TAATAATAAAA
1 TAATAATAAAA
8656288 AATATGAATA
Statistics
Matches: 98, Mismatches: 13, Indels: 27
0.71 0.09 0.20
Matches are distributed among these distances:
50 8 0.08
51 4 0.04
52 1 0.01
53 11 0.11
54 11 0.11
55 5 0.05
56 4 0.04
57 4 0.04
58 5 0.05
59 11 0.11
60 10 0.10
61 1 0.01
62 11 0.11
63 12 0.12
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (61 bp):
TAATAATAAAATAAAATATATGAATTAAAAATATATTTAAGAAATGATATTATATAAAAAT
Found at i:8656179 original size:23 final size:22
Alignment explanation
Indices: 8656154--8656227 Score: 93
Period size: 21 Copynumber: 3.5 Consensus size: 22
8656144 AAATGATATT
8656154 ATATAAAA-ATTAATAATAAAA
1 ATATAAAATATTAATAATAAAA
*
8656175 ATATAAATATATTAAAAAT-AAA
1 ATATAAA-ATATTAATAATAAAA
8656197 ATATAAAATATT-ATAATAATAA
1 ATATAAAATATTAATAATAA-AA
8656219 ATA-AAAATA
1 ATATAAAATA
8656228 AAATATATGA
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
20 4 0.09
21 19 0.40
22 16 0.34
23 8 0.17
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (22 bp):
ATATAAAATATTAATAATAAAA
Found at i:8656234 original size:23 final size:23
Alignment explanation
Indices: 8656164--8656234 Score: 74
Period size: 23 Copynumber: 3.0 Consensus size: 23
8656154 ATATAAAAAT
*
8656164 TAAT-AATAAAAATATAAATATAT
1 TAATAAATAAAAATA-AAATATAA
8656187 TAA-AAATAAAATATAAAATATTATAA
1 TAATAAATAAAA-AT-AAA-A-TATAA
8656213 TAATAAATAAAAATAAAATATA
1 TAATAAATAAAAATAAAATATA
8656235 TGATATTAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
23 14 0.34
24 5 0.12
25 5 0.12
26 9 0.22
27 8 0.20
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (23 bp):
TAATAAATAAAAATAAAATATAA
Found at i:8656473 original size:15 final size:15
Alignment explanation
Indices: 8656453--8656506 Score: 72
Period size: 15 Copynumber: 3.6 Consensus size: 15
8656443 TTTTCTCTGT
*
8656453 AATCACATTGCTTAC
1 AATCACATTACTTAC
*
8656468 AATCACATTACTTGC
1 AATCACATTACTTAC
* *
8656483 AATCACATTACCTAT
1 AATCACATTACTTAC
8656498 AATCACATT
1 AATCACATT
8656507 GCATTGTAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 34 1.00
ACGTcount: A:0.37, C:0.26, G:0.04, T:0.33
Consensus pattern (15 bp):
AATCACATTACTTAC
Found at i:8669024 original size:41 final size:41
Alignment explanation
Indices: 8668960--8669039 Score: 115
Period size: 41 Copynumber: 2.0 Consensus size: 41
8668950 TGTGAATCTG
* * *
8668960 ATCAATGTCTTAAAATGCCTGTTTAATCATGATAAAACATT
1 ATCAATGTCTAAAAATACCTGTTTAATCATAATAAAACATT
* *
8669001 ATCAATGTCTAAAAATACGTGTTTAATTATAATAAAACA
1 ATCAATGTCTAAAAATACCTGTTTAATCATAATAAAACA
8669040 AAGTAGAATG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.44, C:0.12, G:0.09, T:0.35
Consensus pattern (41 bp):
ATCAATGTCTAAAAATACCTGTTTAATCATAATAAAACATT
Found at i:8669091 original size:3 final size:3
Alignment explanation
Indices: 8669083--8669109 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
8669073 ATGGAAGTTA
8669083 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
8669110 TGACCAAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:8674886 original size:2 final size:2
Alignment explanation
Indices: 8674873--8674906 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
8674863 CAAGCAAAGC
*
8674873 AT AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8674907 GTTTGGCTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:8675136 original size:5 final size:5
Alignment explanation
Indices: 8675128--8675170 Score: 61
Period size: 5 Copynumber: 8.6 Consensus size: 5
8675118 GTTTTTAAAT
*
8675128 TTTTA TTTTA TTTTA TTTTA ATTTA TTTTA -TTTA TTCTTA TTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TT-TTA TTT
8675171 CTCGTCTGAC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
4 4 0.12
5 25 0.74
6 5 0.15
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (5 bp):
TTTTA
Found at i:8676450 original size:2 final size:2
Alignment explanation
Indices: 8676443--8676467 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8676433 TTTTCATTAC
8676443 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
8676468 TGTATTTCAA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8677617 original size:2 final size:2
Alignment explanation
Indices: 8677604--8677638 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
8677594 TATGGTGGTA
*
8677604 AT AT AC AT AT AT AT AT AT AT AT AT A- AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8677639 TCTTACTTGA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:8678387 original size:108 final size:108
Alignment explanation
Indices: 8678275--8678480 Score: 322
Period size: 108 Copynumber: 1.9 Consensus size: 108
8678265 AGAATTTTTT
* * *
8678275 AGTAAATTTAAATAAAAGGTAAATTAGGTAAGAGTTGAATAATTTCAAAAAAATGTATATTTGTA
1 AGTAAATTTAAATAAAAGATAAATTAGATAAGAATTGAATAATTTCAAAAAAATGTATATTTGTA
*
8678340 AATCGTAAAAATTGTAACTAAATCAACATATTTTTCTAATTTA
66 AATCGTAAAAATTATAACTAAATCAACATATTTTTCTAATTTA
** *
8678383 AGTAAATTTAAATAAAAGATAAATTAGATAAGAATTGAATAATTTTGAAAAAATGTGTATTTGTA
1 AGTAAATTTAAATAAAAGATAAATTAGATAAGAATTGAATAATTTCAAAAAAATGTATATTTGTA
* * *
8678448 AATTGTAAAAGTTATAACTAAATCAATATATTT
66 AATCGTAAAAATTATAACTAAATCAACATATTT
8678481 AGTCATTTTA
Statistics
Matches: 88, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
108 88 1.00
ACGTcount: A:0.49, C:0.04, G:0.11, T:0.36
Consensus pattern (108 bp):
AGTAAATTTAAATAAAAGATAAATTAGATAAGAATTGAATAATTTCAAAAAAATGTATATTTGTA
AATCGTAAAAATTATAACTAAATCAACATATTTTTCTAATTTA
Found at i:8682579 original size:31 final size:32
Alignment explanation
Indices: 8682531--8682605 Score: 107
Period size: 31 Copynumber: 2.3 Consensus size: 32
8682521 TAAATAAATT
8682531 TTTATATTTTATAATATTTAATTAAGCTTTTA
1 TTTATATTTTATAATATTTAATTAAGCTTTTA
* *
8682563 TTTAT-TTTTATTATATTTAATTAAGTTTTTA
1 TTTATATTTTATAATATTTAATTAAGCTTTTA
*
8682594 TTTTTTATTTTA
1 -TTTATATTTTA
8682606 AGTTAAATAT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
31 24 0.63
32 9 0.24
33 5 0.13
ACGTcount: A:0.29, C:0.01, G:0.03, T:0.67
Consensus pattern (32 bp):
TTTATATTTTATAATATTTAATTAAGCTTTTA
Found at i:8682649 original size:29 final size:30
Alignment explanation
Indices: 8682585--8682653 Score: 83
Period size: 29 Copynumber: 2.4 Consensus size: 30
8682575 ATATTTAATT
8682585 AAGTTTTTAT-TTTTTATTTTAAGTTAAATA
1 AAGTTTTTATATTTTTATTTTAAG-TAAATA
*
8682615 TA-TTTTTATATTTTTATTTTGAA-TAAA-A
1 AAGTTTTTATATTTTTATTTT-AAGTAAATA
8682643 AAGTTTTTATA
1 AAGTTTTTATA
8682654 ATTAATGATT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
28 2 0.06
29 19 0.56
30 11 0.32
31 2 0.06
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (30 bp):
AAGTTTTTATATTTTTATTTTAAGTAAATA
Found at i:8687683 original size:13 final size:13
Alignment explanation
Indices: 8687665--8687690 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8687655 GAAGGAAACT
8687665 CAGGTATGTCTTA
1 CAGGTATGTCTTA
8687678 CAGGTATGTCTTA
1 CAGGTATGTCTTA
8687691 TTTGTGAATA
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:0.23, C:0.15, G:0.23, T:0.38
Consensus pattern (13 bp):
CAGGTATGTCTTA
Found at i:8698484 original size:7 final size:7
Alignment explanation
Indices: 8698472--8698496 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
8698462 AAAAATTCTC
8698472 TTAAATT
1 TTAAATT
8698479 TTAAATT
1 TTAAATT
8698486 TTAAATT
1 TTAAATT
8698493 TTAA
1 TTAA
8698497 TAAGCATAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
TTAAATT
Found at i:8699287 original size:25 final size:25
Alignment explanation
Indices: 8699259--8699306 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
8699249 ATATTGTAAT
*
8699259 ATTTAATATATAT-GAAAAATAATTA
1 ATTTAA-AAATATGGAAAAATAATTA
*
8699284 ATTTAAAAATTTGGAAAAATAAT
1 ATTTAAAAATATGGAAAAATAAT
8699307 ATTATCACAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (25 bp):
ATTTAAAAATATGGAAAAATAATTA
Found at i:8701278 original size:21 final size:20
Alignment explanation
Indices: 8701253--8701305 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 20
8701243 AAATTTAAAT
8701253 TTAAATAATAAAAATAAAT-A
1 TTAAA-AATAAAAATAAATAA
*
8701273 TCTAAAATATAAAATTAAATAA
1 T-TAAAA-ATAAAAATAAATAA
8701295 TTAAAAATAAA
1 TTAAAAATAAA
8701306 TATTCAAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
20 7 0.24
21 20 0.69
22 2 0.07
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (20 bp):
TTAAAAATAAAAATAAATAA
Found at i:8701291 original size:34 final size:33
Alignment explanation
Indices: 8701241--8701330 Score: 110
Period size: 34 Copynumber: 2.7 Consensus size: 33
8701231 AAACAAACAA
* *
8701241 TAAAATTTAAATTTAAATAATAAAAATAAATAT
1 TAAAATATAAAATTAAATAATAAAAATAAATAT
8701274 CTAAAATATAAAATTAAATAATTAAAAATAAATAT
1 -TAAAATATAAAATTAAATAA-TAAAAATAAATAT
* *
8701309 TCAAATA-ACAACTTAAATAATA
1 TAAAATATA-AAATTAAATAATA
8701331 TTACAAATTT
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
33 3 0.06
34 34 0.68
35 13 0.26
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.32
Consensus pattern (33 bp):
TAAAATATAAAATTAAATAATAAAAATAAATAT
Found at i:8704672 original size:15 final size:15
Alignment explanation
Indices: 8704652--8704686 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
8704642 TATTTTATAA
*
8704652 TTTAAATATTATTTT
1 TTTAAATATTATTAT
8704667 TTTAAATATTATTAT
1 TTTAAATATTATTAT
8704682 TTTAA
1 TTTAA
8704687 TTATGACACC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
TTTAAATATTATTAT
Found at i:8705400 original size:3 final size:3
Alignment explanation
Indices: 8705385--8705415 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
8705375 TTAACTTGAA
*
8705385 ATT ATT TTT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
8705416 AAGCTTAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
ATT
Found at i:8710763 original size:3 final size:3
Alignment explanation
Indices: 8710755--8710781 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
8710745 TTATAATGGC
8710755 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
8710782 ATGCTATCTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:8711060 original size:22 final size:22
Alignment explanation
Indices: 8711035--8711089 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
8711025 TCCCAAAAGA
*
8711035 TTTTTAAAAATAAGA-CATAATG
1 TTTTAAAAAATAA-ATCATAATG
*
8711057 TTTTAAAAAATAAATCATAATA
1 TTTTAAAAAATAAATCATAATG
*
8711079 CTTTAAAAAAT
1 TTTTAAAAAAT
8711090 TTATTCTTCT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 1 0.03
22 28 0.97
ACGTcount: A:0.55, C:0.05, G:0.04, T:0.36
Consensus pattern (22 bp):
TTTTAAAAAATAAATCATAATG
Found at i:8712642 original size:53 final size:56
Alignment explanation
Indices: 8712591--8712696 Score: 150
Period size: 51 Copynumber: 2.0 Consensus size: 56
8712581 TTATAATTAA
*
8712591 AATAAATATATAATATAGA-ATA-AAATTAAAAT-AAA-ATA-AATATAAAAAATT
1 AATAAATATATAATATAGATAAACAAATTAAAATAAAATATATAATATAAAAAATT
**
8712642 AATATTTATATAATATAGATAAACAAATTAAAATAAAATATATAATATAAAAAAT
1 AATAAATATATAATATAGATAAACAAATTAAAATAAAATATATAATATAAAAAAT
8712697 ATATTAAAGA
Statistics
Matches: 47, Mismatches: 3, Indels: 5
0.85 0.05 0.09
Matches are distributed among these distances:
51 17 0.36
52 2 0.04
53 10 0.21
54 3 0.06
55 3 0.06
56 12 0.26
ACGTcount: A:0.66, C:0.01, G:0.02, T:0.31
Consensus pattern (56 bp):
AATAAATATATAATATAGATAAACAAATTAAAATAAAATATATAATATAAAAAATT
Found at i:8712742 original size:26 final size:26
Alignment explanation
Indices: 8712674--8712747 Score: 77
Period size: 24 Copynumber: 3.0 Consensus size: 26
8712664 ACAAATTAAA
8712674 ATAAAATATATAAT-ATAA-AAAATAT
1 ATAAAAT-TATAATAATAATAAAATAT
* *
8712699 ATTAAA-GA-AATGAA-AATAAAATAT
1 ATAAAATTATAAT-AATAATAAAATAT
8712723 ATAAAATTATAATAATAATAAAATA
1 ATAAAATTATAATAATAATAAAATA
8712748 AAATATATGA
Statistics
Matches: 39, Mismatches: 4, Indels: 11
0.72 0.07 0.20
Matches are distributed among these distances:
22 3 0.08
23 3 0.08
24 13 0.33
25 8 0.21
26 12 0.31
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (26 bp):
ATAAAATTATAATAATAATAAAATAT
Found at i:8712743 original size:17 final size:17
Alignment explanation
Indices: 8712714--8712877 Score: 55
Period size: 14 Copynumber: 10.5 Consensus size: 17
8712704 AGAAATGAAA
8712714 ATAAAATATATAAAATT
1 ATAAAATATATAAAATT
8712731 ATAATAATA-AT-AAA--
1 ATAA-AATATATAAAATT
* *
8712745 ATAAAATATATGACATT
1 ATAAAATATATAAAATT
8712762 A-AAAATATATTAAGAA--
1 ATAAAATATA-TAA-AATT
* *
8712778 ATGATATTATATAAAA--
1 AT-AAAATATATAAAATT
*
8712794 AT-TAATA-ATAAAA-T
1 ATAAAATATATAAAATT
*
8712808 AT-AAATATATTAAA--
1 ATAAAATATATAAAATT
8712822 ATAAAATATA-AAATATT
1 ATAAAATATATAAA-ATT
*
8712839 ATAATAATAAATAAAA--
1 ATAA-AATATATAAAATT
*
8712855 AT-AAATATA-AGAATT
1 ATAAAATATATAAAATT
8712870 A-AAAATAT
1 ATAAAATAT
8712878 TTAAGAAATG
Statistics
Matches: 115, Mismatches: 12, Indels: 42
0.68 0.07 0.25
Matches are distributed among these distances:
13 13 0.11
14 25 0.22
15 23 0.20
16 18 0.16
17 16 0.14
18 17 0.15
19 3 0.03
ACGTcount: A:0.65, C:0.01, G:0.02, T:0.32
Consensus pattern (17 bp):
ATAAAATATATAAAATT
Found at i:8712828 original size:33 final size:35
Alignment explanation
Indices: 8712791--8712932 Score: 93
Period size: 33 Copynumber: 4.1 Consensus size: 35
8712781 ATATTATATA
8712791 AAAATTAATAATAAAAT-ATAAAT-ATATTAAAAT
1 AAAATTAATAATAAAATAATAAATAATATTAAAAT
* *
8712824 AAAATATAA-AATATTATAATAATAAATAAAAATAAATAT
1 AAAAT-TAATAATA--A-AATAATAAATAATATTAAA-AT
* ** * * *
8712863 AAGAATTAAAAAT-ATTTAAGAAATGATATTAATA-
1 AA-AATTAATAATAAAATAATAAATAATATTAAAAT
8712897 AAAATTAATAATAAAAT-AT-AAT-ATATTAAAAAT
1 AAAATTAATAATAAAATAATAAATAATATT-AAAAT
8712930 AAA
1 AAA
8712933 TAAAAAAATA
Statistics
Matches: 83, Mismatches: 14, Indels: 24
0.69 0.12 0.20
Matches are distributed among these distances:
31 5 0.06
32 6 0.07
33 22 0.27
34 7 0.08
35 2 0.02
36 15 0.18
37 7 0.08
38 6 0.07
39 7 0.08
40 6 0.07
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (35 bp):
AAAATTAATAATAAAATAATAAATAATATTAAAAT
Found at i:8712916 original size:106 final size:107
Alignment explanation
Indices: 8712711--8713143 Score: 641
Period size: 106 Copynumber: 4.0 Consensus size: 107
8712701 TAAAGAAATG
* *
8712711 AAAATAAAATATATAAA-ATTATAATAAT-AATAAAATAAAATATATGACATTAAAAATATATTA
1 AAAATAAAATATA-AAATATTATAATAATAAATAAAATAAAATATAAGATATTAAAAATAT-TTA
8712774 AGAAATGATATTATATAAAAATTAATAATAAAATATAAATATATT
64 AGAAATGATATTATATAAAAATTAATAATAAAATAT-AATATATT
8712819 AAAATAAAATATAAAATATTATAATAATAAATAAAA-ATAAATATAAGA-ATTAAAAATATTTAA
1 AAAATAAAATATAAAATATTATAATAATAAATAAAATA-AAATATAAGATATTAAAAATATTTAA
8712882 GAAATGATATTA-ATAAAAATTAATAATAAAATATAATATATT
65 GAAATGATATTATATAAAAATTAATAATAAAATATAATATATT
* *
8712924 AAAA-ATAAATAAAAAAATATTATAATAATAAATAAAAATAAAATATATGATATTAAAAAATATT
1 AAAATA-AAAT-ATAAAATATTATAATAATAAAT-AAAATAAAATATAAGATATT-AAAAATATT
8712988 TAAGAAATGATATTATATAAAAATTAA-AATAAAATATAATATATT
62 TAAGAAATGATATTATATAAAAATTAATAATAAAATATAATATATT
* *
8713033 AAAAAAAAATAT-AAATATTATAATAATAAATAAAATAAAATATAAGATATAAAAATATATTTAA
1 AAAATAAAATATAAAATATTATAATAATAAATAAAATAAAATATAAGATATTAAAA-ATATTTAA
*
8713097 GAAATGATATTATATAAAATTATAATAAT-AAATATAAATATATT
65 GAAATGATATTATATAAAAAT-TAATAATAAAATAT-AATATATT
8713141 AAA
1 AAA
8713144 CTTATATTTT
Statistics
Matches: 303, Mismatches: 7, Indels: 30
0.89 0.02 0.09
Matches are distributed among these distances:
104 1 0.00
105 20 0.07
106 89 0.29
107 60 0.20
108 55 0.18
109 66 0.22
110 12 0.04
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (107 bp):
AAAATAAAATATAAAATATTATAATAATAAATAAAATAAAATATAAGATATTAAAAATATTTAAG
AAATGATATTATATAAAAATTAATAATAAAATATAATATATT
Found at i:8712930 original size:24 final size:24
Alignment explanation
Indices: 8712903--8713076 Score: 83
Period size: 26 Copynumber: 6.8 Consensus size: 24
8712893 AATAAAAATT
8712903 AATAATAAAATATAATATATTAAA
1 AATAATAAAATATAATATATTAAA
* *
8712927 AATAAATAAAAAAATATTATAATAATAAA
1 AAT-AAT---AAAATATAAT-ATATTAAA
*
8712956 TAAAAATAAAATAT-ATGATATTAAAA
1 -AATAATAAAATATAAT-ATATT-AAA
* *
8712982 AATATTTAAGAA-ATGATATTATATAAA
1 AATA-ATAA-AATATAATA-TAT-TAAA
8713009 AATTAAAATAAAATATAATATATT--A
1 AA-T--AATAAAATATAATATATTAAA
8713034 AA-AA-AAAATATAA-ATATTATAA
1 AATAATAAAATATAATATATTA-AA
*
8713056 TAATAAATAAAATAAAATATA
1 -AAT-AATAAAATATAATATA
8713077 AGATATAAAA
Statistics
Matches: 116, Mismatches: 10, Indels: 45
0.68 0.06 0.26
Matches are distributed among these distances:
19 5 0.04
20 9 0.08
21 2 0.02
22 1 0.01
23 2 0.02
24 3 0.03
25 17 0.15
26 24 0.21
27 16 0.14
28 16 0.14
29 18 0.16
30 3 0.03
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.32
Consensus pattern (24 bp):
AATAATAAAATATAATATATTAAA
Found at i:8712953 original size:23 final size:23
Alignment explanation
Indices: 8712902--8712961 Score: 72
Period size: 21 Copynumber: 2.7 Consensus size: 23
8712892 TAATAAAAAT
* *
8712902 TAATAATAAA-ATATAATATATTA
1 TAATAATAAATA-AAAAAATATTA
8712925 -AA-AATAAATAAAAAAATATTA
1 TAATAATAAATAAAAAAATATTA
8712946 TAATAATAAATAAAAA
1 TAATAATAAATAAAAA
8712962 TAAAATATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
21 15 0.47
22 5 0.16
23 12 0.38
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (23 bp):
TAATAATAAATAAAAAAATATTA
Found at i:8712981 original size:216 final size:215
Alignment explanation
Indices: 8712711--8713143 Score: 675
Period size: 216 Copynumber: 2.0 Consensus size: 215
8712701 TAAAGAAATG
* *
8712711 AAAATAAAATATATAAAATTATAATAATAATAAAATAAAATATATGACATT-AAAAATATATTAA
1 AAAATAAAATAAAAAAAATTATAATAATAATAAAATAAAATATATGACATTAAAAAATAT-TTAA
*
8712775 GAAATGATATTATATAAAAATTAATAATAAAATATAAATATATTAAAATAAAATATAAAATATTA
65 GAAATGATATTATATAAAAATTAA-AATAAAATAT-AATATATTAAAAAAAAATAT-AAATATTA
*
8712840 TAATAATAAATAAAA-ATAAATATAAGA-ATTAAAA-ATATTTAAGAAATGATATTA-ATAAAAA
127 TAATAATAAATAAAATA-AAATATAAGATATAAAAATATATTTAAGAAATGATATTATATAAAAA
8712901 T-TAATAATAAA-ATATAATATATTA
191 TATAATAATAAATATA-AATATATTA
*
8712925 AAAAT-AAATAAAAAAATATTATAATAATAAATAAAAATAAAATATATGATATTAAAAAATATTT
1 AAAATAAAATAAAAAAA-ATTATAATAAT-AAT-AAAATAAAATATATGACATTAAAAAATATTT
8712989 AAGAAATGATATTATATAAAAATTAAAATAAAATATAATATATTAAAAAAAAATATAAATATTAT
63 AAGAAATGATATTATATAAAAATTAAAATAAAATATAATATATTAAAAAAAAATATAAATATTAT
*
8713054 AATAATAAATAAAATAAAATATAAGATATAAAAATATATTTAAGAAATGATATTATATAAAATTA
128 AATAATAAATAAAATAAAATATAAGATATAAAAATATATTTAAGAAATGATATTATATAAAAATA
8713119 TAATAATAAATATAAATATATTA
193 TAATAATAAATATAAATATATTA
8713142 AA
1 AA
8713144 CTTATATTTT
Statistics
Matches: 203, Mismatches: 6, Indels: 17
0.90 0.03 0.08
Matches are distributed among these distances:
213 42 0.21
214 42 0.21
215 33 0.16
216 54 0.27
217 29 0.14
218 3 0.01
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (215 bp):
AAAATAAAATAAAAAAAATTATAATAATAATAAAATAAAATATATGACATTAAAAAATATTTAAG
AAATGATATTATATAAAAATTAAAATAAAATATAATATATTAAAAAAAAATATAAATATTATAAT
AATAAATAAAATAAAATATAAGATATAAAAATATATTTAAGAAATGATATTATATAAAAATATAA
TAATAAATATAAATATATTA
Found at i:8713024 original size:19 final size:19
Alignment explanation
Indices: 8713002--8713088 Score: 81
Period size: 20 Copynumber: 4.5 Consensus size: 19
8712992 AAATGATATT
8713002 ATATAAAAATTAAAATAAA
1 ATATAAAAATTAAAATAAA
* *
8713021 ATATAATATATTAAAAAAAA
1 ATATAA-AAATTAAAATAAA
* *
8713041 ATATAAATATTATAATAATA
1 ATATAAAAATTAAAATAA-A
8713061 A-AT-AAAA-TAAAATATAA
1 ATATAAAAATTAAAATA-AA
8713078 GATATAAAAAT
1 -ATATAAAAAT
8713089 ATATTTAAGA
Statistics
Matches: 55, Mismatches: 6, Indels: 12
0.75 0.08 0.16
Matches are distributed among these distances:
17 7 0.13
18 5 0.09
19 20 0.36
20 23 0.42
ACGTcount: A:0.69, C:0.00, G:0.01, T:0.30
Consensus pattern (19 bp):
ATATAAAAATTAAAATAAA
Found at i:8713087 original size:46 final size:47
Alignment explanation
Indices: 8712997--8713092 Score: 115
Period size: 51 Copynumber: 2.0 Consensus size: 47
8712987 TTAAGAAATG
*
8712997 ATATTATATAAAAATTAAAATAAAATATAATATATTAAAAAAAAATATAA
1 ATATTATATAAAAATTAAAATAAAATATAAGATATT---AAAAAATATAA
8713047 ATATTATAATAATAAA-TAAAATAAAATATAAGATA-TAAAAATATAT
1 ATATTAT-ATAA-AAATTAAAATAAAATATAAGATATTAAAAA-ATAT
8713093 TTAAGAAATG
Statistics
Matches: 42, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
47 5 0.12
48 4 0.10
50 8 0.19
51 22 0.52
52 3 0.07
ACGTcount: A:0.67, C:0.00, G:0.01, T:0.32
Consensus pattern (47 bp):
ATATTATATAAAAATTAAAATAAAATATAAGATATTAAAAAATATAA
Found at i:8714296 original size:20 final size:20
Alignment explanation
Indices: 8714271--8714316 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
8714261 TTTATTTATC
*
8714271 GATAGATAGTATAATCTATT
1 GATAGATAATATAATCTATT
*
8714291 GATAGATAATATGATCTATT
1 GATAGATAATATAATCTATT
8714311 GATAGA
1 GATAGA
8714317 ATTTTCTATC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.41, C:0.04, G:0.17, T:0.37
Consensus pattern (20 bp):
GATAGATAATATAATCTATT
Found at i:8714423 original size:15 final size:15
Alignment explanation
Indices: 8714390--8714435 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
8714380 AAGGTGAAAA
8714390 TAAATATTTAATATTTT
1 TAAATATTTAATA--TT
*
8714407 TATATATTTAATATT
1 TAAATATTTAATATT
*
8714422 TAAATAATTAATAT
1 TAAATATTTAATAT
8714436 AAACATATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
15 14 0.54
17 12 0.46
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TAAATATTTAATATT
Found at i:8714525 original size:20 final size:20
Alignment explanation
Indices: 8714491--8714530 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
8714481 CATAAATTTG
*
8714491 AAATGTAAAATTTTATATTAA
1 AAATGTAAAAATTTAT-TTAA
8714512 AAAT-TAAAAATTTATTTAA
1 AAATGTAAAAATTTATTTAA
8714531 CTTATATGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 4 0.22
20 10 0.56
21 4 0.22
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (20 bp):
AAATGTAAAAATTTATTTAA
Found at i:8715845 original size:16 final size:16
Alignment explanation
Indices: 8715800--8715845 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
8715790 TTTTTCACAC
8715800 TTCTTTCTCTTTT-TCT
1 TTCTTT-TCTTTTCTCT
*
8715816 CT-TTTTCATTTTCTCT
1 TTCTTTTC-TTTTCTCT
8715832 TTCTTTTCTTTTCT
1 TTCTTTTCTTTTCT
8715846 TTTTATTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
14 2 0.08
15 7 0.28
16 11 0.44
17 5 0.20
ACGTcount: A:0.02, C:0.24, G:0.00, T:0.74
Consensus pattern (16 bp):
TTCTTTTCTTTTCTCT
Found at i:8715855 original size:28 final size:28
Alignment explanation
Indices: 8715801--8715854 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
8715791 TTTTCACACT
8715801 TCTTTCTCTTTTTCTCTTTTTCATTTTC
1 TCTTTCTCTTTTTCTCTTTTTCATTTTC
*
8715829 TCTTTCT-TTTCTTTTCTTTTT-ATTTT
1 TCTTTCTCTTT-TTCTCTTTTTCATTTT
8715855 TATTATACTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 8 0.33
28 16 0.67
ACGTcount: A:0.04, C:0.20, G:0.00, T:0.76
Consensus pattern (28 bp):
TCTTTCTCTTTTTCTCTTTTTCATTTTC
Found at i:8716031 original size:15 final size:15
Alignment explanation
Indices: 8716007--8716044 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
8715997 CTTCTTTCTA
8716007 TTTATATTA-TTATTAT
1 TTTAT-TTATTTATT-T
8716023 TTTATTTATTTATTT
1 TTTATTTATTTATTT
8716038 TTTATTT
1 TTTATTT
8716045 GCTCATATGC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 11 0.52
16 10 0.48
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTATTTATTTATTT
Found at i:8717174 original size:27 final size:27
Alignment explanation
Indices: 8717081--8717291 Score: 140
Period size: 27 Copynumber: 7.7 Consensus size: 27
8717071 CATAGCTTGC
* **
8717081 AACAACTAAATTTTTCAACATGGTATGT
1 AACAACTATATTTTT-AACATGGCGTGT
* * * **
8717109 AACAACTAGATTTTCAACATGACGTAC
1 AACAACTATATTTTTAACATGGCGTGT
* *
8717136 AATAACTA-ATTTTTAACATGGTGTGT
1 AACAACTATATTTTTAACATGGCGTGT
* *
8717162 AACAATTATATTTTTTCAACATAGCGTGT
1 AACAACTATA-TTTTT-AACATGGCGTGT
* *
8717191 AACAACTATATTTTTTCAATATAGCGTGT
1 AACAACTATA-TTTTT-AACATGGCGTGT
* * * * *
8717220 AACAACTAAATTTTCAATATGACGTAT
1 AACAACTATATTTTTAACATGGCGTGT
* * * *
8717247 AATAATTATATTTTTAACATGACATGT
1 AACAACTATATTTTTAACATGGCGTGT
*
8717274 AATAA-T-TATTTTTAACAT
1 AACAACTATATTTTTAACAT
8717292 AGTATGTAAT
Statistics
Matches: 149, Mismatches: 31, Indels: 9
0.79 0.16 0.05
Matches are distributed among these distances:
25 12 0.08
26 20 0.13
27 49 0.33
28 22 0.15
29 46 0.31
ACGTcount: A:0.39, C:0.13, G:0.09, T:0.39
Consensus pattern (27 bp):
AACAACTATATTTTTAACATGGCGTGT
Found at i:8717177 original size:29 final size:29
Alignment explanation
Indices: 8717063--8717233 Score: 140
Period size: 29 Copynumber: 6.1 Consensus size: 29
8717053 GTGTAACAAC
* * * *
8717063 TTTTTCATCATAGCTTGCAACAACTA-AA
1 TTTTTCAACATAGCGTGTAACAACTATAT
* ** *
8717091 TTTTTCAACATGGTATGTAACAACTAGA-
1 TTTTTCAACATAGCGTGTAACAACTATAT
** *
8717119 -TTTTCAACAT-GACGTACAATAACTA-A-
1 TTTTTCAACATAG-CGTGTAACAACTATAT
* * *
8717145 TTTTT-AACATGGTGTGTAACAATTATAT
1 TTTTTCAACATAGCGTGTAACAACTATAT
8717173 TTTTTCAACATAGCGTGTAACAACTATAT
1 TTTTTCAACATAGCGTGTAACAACTATAT
* *
8717202 TTTTTCAATATAGCGTGTAACAACTAAAT
1 TTTTTCAACATAGCGTGTAACAACTATAT
8717231 TTT
1 TTT
8717234 CAATATGACG
Statistics
Matches: 116, Mismatches: 20, Indels: 13
0.78 0.13 0.09
Matches are distributed among these distances:
26 15 0.13
27 24 0.21
28 26 0.22
29 51 0.44
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.39
Consensus pattern (29 bp):
TTTTTCAACATAGCGTGTAACAACTATAT
Found at i:8717244 original size:111 final size:111
Alignment explanation
Indices: 8717063--8717267 Score: 286
Period size: 111 Copynumber: 1.8 Consensus size: 111
8717053 GTGTAACAAC
* * * * *
8717063 TTTTTCATCATAGCTTGCAACAACTAAATTTTTCAACATGGTATGTAACAACTAGATTTTCAACA
1 TTTTTCAACATAGCGTGCAACAACTAAATTTTTCAACATAGCATGTAACAACTAAATTTTCAACA
8717128 TGACGTACAATAACTA-ATTTTTAACATGGTGTGTAACAATTATAT
66 TGACGTACAATAACTATATTTTTAACATGGTGTGTAACAATTATAT
* * * * *
8717173 TTTTTCAACATAGCGTGTAACAACTATATTTTTTCAATATAGCGTGTAACAACTAAATTTTCAAT
1 TTTTTCAACATAGCGTGCAACAACTA-AATTTTTCAACATAGCATGTAACAACTAAATTTTCAAC
* *
8717238 ATGACGTATAATAATTATATTTTTAACATG
65 ATGACGTACAATAACTATATTTTTAACATG
8717268 ACATGTAATA
Statistics
Matches: 81, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
110 23 0.28
111 46 0.57
112 12 0.15
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.39
Consensus pattern (111 bp):
TTTTTCAACATAGCGTGCAACAACTAAATTTTTCAACATAGCATGTAACAACTAAATTTTCAACA
TGACGTACAATAACTATATTTTTAACATGGTGTGTAACAATTATAT
Found at i:8717289 original size:25 final size:25
Alignment explanation
Indices: 8717246--8717306 Score: 79
Period size: 25 Copynumber: 2.4 Consensus size: 25
8717236 ATATGACGTA
8717246 TAATAATTATATTTTTAACAT-GACATG
1 TAATAA-T-TATTTTTAACATAG-CATG
*
8717273 TAATAATTATTTTTAACATAGTATG
1 TAATAATTATTTTTAACATAGCATG
8717298 TAATAATTA
1 TAATAATTA
8717307 AATTTTAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
25 24 0.75
26 2 0.06
27 6 0.19
ACGTcount: A:0.43, C:0.05, G:0.07, T:0.46
Consensus pattern (25 bp):
TAATAATTATTTTTAACATAGCATG
Found at i:8717319 original size:28 final size:25
Alignment explanation
Indices: 8717270--8717320 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 25
8717260 TTAACATGAC
*
8717270 ATGTAATAATTATTTTTAACATAGT
1 ATGTAATAATTATTTTAAACATAGT
8717295 ATGTAATAATTAAATTTTAAAACATA
1 ATGTAATAATT--ATTTT-AAACATA
8717321 ACGTGTAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 11 0.50
27 5 0.23
28 6 0.27
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.43
Consensus pattern (25 bp):
ATGTAATAATTATTTTAAACATAGT
Found at i:8724012 original size:12 final size:12
Alignment explanation
Indices: 8723995--8724019 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8723985 ACATTGATAT
8723995 AGAGAGAGAGAA
1 AGAGAGAGAGAA
8724007 AGAGAGAGAGAA
1 AGAGAGAGAGAA
8724019 A
1 A
8724020 AGTGTTTGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (12 bp):
AGAGAGAGAGAA
Found at i:8754101 original size:7 final size:7
Alignment explanation
Indices: 8754091--8754116 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
8754081 GAAAAGAGGC
8754091 AAGGGAG
1 AAGGGAG
8754098 AAGGGAG
1 AAGGGAG
8754105 AAGGGAG
1 AAGGGAG
8754112 AAGGG
1 AAGGG
8754117 TATGGCCAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.58, T:0.00
Consensus pattern (7 bp):
AAGGGAG
Found at i:8756978 original size:23 final size:24
Alignment explanation
Indices: 8756944--8756998 Score: 69
Period size: 23 Copynumber: 2.3 Consensus size: 24
8756934 ATTTAATTTT
*
8756944 AATTTAATTATTTT-TATT-TTTAA
1 AATTTAAATATTTTAT-TTATTTAA
8756967 AATTTAAATATTTTATTTATTTAA
1 AATTTAAATATTTTATTTATTTAA
8756991 AATATTAA
1 AAT-TTAA
8756999 TAATTCATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
23 15 0.54
24 9 0.32
25 4 0.14
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (24 bp):
AATTTAAATATTTTATTTATTTAA
Found at i:8756989 original size:78 final size:78
Alignment explanation
Indices: 8756815--8756968 Score: 195
Period size: 78 Copynumber: 2.0 Consensus size: 78
8756805 TATAATGTAT
* * * **
8756815 TTAAAATAATAATAAATTT-TAATTAAAACTTCAACATGATTGTTTATTTATTTTTCTCTATTTT
1 TTAAAATATTAA-AAATTTATAATTAAAACTTCAACATGATTATTTATTTAATTTAATCTATTTT
8756879 CATTTTTAAAACTA
65 CATTTTTAAAACTA
* *
8756893 TTAAAATATTAAAAATTTATAATTAAAACTTTAATATGATTATTTAATTTTAATTTAAT-TATTT
1 TTAAAATATTAAAAATTTATAATTAAAACTTCAACATGATTATTT-A-TTTAATTTAATCTATTT
*
8756957 TTATTTTTAAAA
64 TCATTTTTAAAA
8756969 TTTAAATATT
Statistics
Matches: 65, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
77 6 0.09
78 34 0.52
79 17 0.26
80 8 0.12
ACGTcount: A:0.42, C:0.05, G:0.02, T:0.51
Consensus pattern (78 bp):
TTAAAATATTAAAAATTTATAATTAAAACTTCAACATGATTATTTATTTAATTTAATCTATTTTC
ATTTTTAAAACTA
Found at i:8761041 original size:29 final size:29
Alignment explanation
Indices: 8760998--8761068 Score: 83
Period size: 29 Copynumber: 2.4 Consensus size: 29
8760988 TTAAATAATT
* *
8760998 TTAATTTTTTTTATTTTTA-TT-ATATTTAA
1 TTAAATTTTTATATTTTTAGTTGA-A-TTAA
8761027 TTAAATTTTTATATTTTTAGTTGAATTAA
1 TTAAATTTTTATATTTTTAGTTGAATTAA
*
8761056 ATAAATTTTTATA
1 TTAAATTTTTATA
8761069 ATTAATTATT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
29 33 0.89
30 3 0.08
31 1 0.03
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (29 bp):
TTAAATTTTTATATTTTTAGTTGAATTAA
Found at i:8761090 original size:14 final size:15
Alignment explanation
Indices: 8761066--8761094 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
8761056 ATAAATTTTT
8761066 ATAATTAATTATTAA
1 ATAATTAATTATTAA
8761081 ATAA-TAATTATTAA
1 ATAATTAATTATTAA
8761095 TTAAAATATT
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:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
ATAATTAATTATTAA
Found at i:8761378 original size:31 final size:30
Alignment explanation
Indices: 8761319--8761416 Score: 119
Period size: 30 Copynumber: 3.3 Consensus size: 30
8761309 GTTATATAAT
8761319 TTTATTTAATTTAAAATAAAAATATAAAAA
1 TTTATTTAATTTAAAATAAAAATATAAAAA
*
8761349 TTTATTTTATTTAAAATAAAAATATTAAAAA
1 TTTATTTAATTTAAAATAAAAATA-TAAAAA
* * *
8761380 -TTAATTAA-ATATAATAAAAATATAAAAA
1 TTTATTTAATTTAAAATAAAAATATAAAAA
* *
8761408 CTTGTTTAA
1 TTTATTTAA
8761417 AATTTATTGA
Statistics
Matches: 59, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
28 6 0.10
29 18 0.31
30 29 0.49
31 6 0.10
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (30 bp):
TTTATTTAATTTAAAATAAAAATATAAAAA
Found at i:8761416 original size:29 final size:28
Alignment explanation
Indices: 8761320--8761417 Score: 97
Period size: 29 Copynumber: 3.3 Consensus size: 28
8761310 TTATATAATT
*
8761320 TTATTTAATTTAAAATAAAAATATAAAAA
1 TTATTTAA-ATAAAATAAAAATATAAAAA
**
8761349 TTTATTTTATTTAAAATAAAAATATTAAAAA
1 -TTA-TTTAAATAAAATAAAAATA-TAAAAA
* *
8761380 TTAATTAAATATAATAAAAATATAAAAA
1 TTATTTAAATAAAATAAAAATATAAAAA
*
8761408 CTTGTTTAAA
1 -TTATTTAAA
8761418 ATTTATTGAA
Statistics
Matches: 58, Mismatches: 7, Indels: 7
0.81 0.10 0.10
Matches are distributed among these distances:
28 6 0.10
29 22 0.38
30 20 0.34
31 10 0.17
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.40
Consensus pattern (28 bp):
TTATTTAAATAAAATAAAAATATAAAAA
Found at i:8785154 original size:2 final size:2
Alignment explanation
Indices: 8785149--8785178 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
8785139 TTTTTTTGGG
8785149 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8785179 GGATGTGTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8790899 original size:2 final size:2
Alignment explanation
Indices: 8790892--8790922 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
8790882 TGTTTATGTG
8790892 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8790923 TGTAATTTCA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8791001 original size:29 final size:30
Alignment explanation
Indices: 8790960--8791032 Score: 105
Period size: 29 Copynumber: 2.5 Consensus size: 30
8790950 CACAGTCTCG
* **
8790960 CTTTTT-TCAATTAGTATTTTATGGATAT-
1 CTTTTTCTCAATTAGTATCTTATAAATATA
8790988 CTTTTTCTCAATTAGTATCTTATAAATATA
1 CTTTTTCTCAATTAGTATCTTATAAATATA
8791018 CTTTTTCTCAATTAG
1 CTTTTTCTCAATTAG
8791033 CACCATATGA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 6 0.15
29 19 0.47
30 15 0.38
ACGTcount: A:0.27, C:0.12, G:0.07, T:0.53
Consensus pattern (30 bp):
CTTTTTCTCAATTAGTATCTTATAAATATA
Found at i:8794632 original size:868 final size:862
Alignment explanation
Indices: 8792949--8794949 Score: 2876
Period size: 868 Copynumber: 2.3 Consensus size: 862
8792939 GAAATCAGCG
* * * * *
8792949 TAAAGGAGAAGTTAAGGACTGATGTGACAATAACATGCTTACATGGAAGAGAATTGAATACCCAT
1 TAAATGAGAAGTTAAGGACTGATGTGGCAATTATATGCTTACATGGAAGAGAATTGAATACCAAT
* *** * *
8793014 -TTCCATAATAAGAATAGAATTGAATGATTTTATTTTGAGAATAAAAATTTTTTAGTGTCTTTGA
66 CTTCGA-AATAAGAATAGAATTGAATGACCCTATTTTGAGAATAAAGATTTTTTAGTGCCTTTGA
* * * * *
8793078 GAAAAATTTCCGCTTCATAAGAACGCAGCAAATCTAGTTATTTTTTTAAAGGTAGTTTTTATTAT
130 GAAAAATTTCCGTTTTATATGAACGCAGCATATCTAATTATTTTTTTAAAGGTAGTTTTTATTAT
* **
8793143 CAAGTAAATGATTATAATCTAAAAGATAGTTTTATGATGTATTACATAATAAGAAGAAAGATGAA
195 CAAGTAAATGATCATAATCTAAAAGATAGTTTTATGACCTATTACATAATAAGAAGAAAGATGAA
* * *
8793208 CCCCACAATACACTAGTGCTCAAGGATATCTAGCACTTAAAAACAGTACACTAACGCCCCCATCA
260 CCCCACAATACACTAGTGCTAAAGGATATCTAGCACTTAAAAACAATACACTAACACCCCCATCA
*
8793273 CTCGTCAAGACTTGGTTCTCCACCCACAATCCAACATATATTATGATTTTCTTATTACTGCATCT
325 CTCGTCAAGACTTGGTTCTCCACCCACAATCCAACATATATCATGATTTTCTTATTACTGCATCT
* * * * *
8793338 ATTTAGATTGTTTGTTTGTGGATGTTTATGTTCTGTTTAGATAGAGAATTTTGTTCTGTTGCGTG
390 ATTGAGATTGTTTGTTTGTGCATGTTTATGTTCTATTTAGATAGAAAATTTTGTTC--TTGAGTG
* *
8793403 TTTCATTCCCCGCTATGAGAATACAATTCTCATTTTAACTTGCGGTTCATTATTTTTTAAGATCA
453 TTTCATTCCCCGCTATGAGAATACAATTCTCATTTTAACTTGCGGTTCATTATGTTTTAAGACCA
* * * *
8793468 TGAAGTTGTATTTCTATTAATGAATCTCTTGATGATTGAGCAAAGAAAACCTGACATCAATTAAA
518 TGAAGTTGTATTTCTATTAATGAATCTCATGATGATTGAGAAAAGAAAACATGACATAAATTAAA
* * *
8793533 ATTTCTCATATATTAAATTCTCTACACACTTTTTTGGGAAAAAATGTCCCGTCACGCACGTTTTT
583 ATTTCTCATATATTAAATTCTCTACACACTTTTTTGAGAAAAAATATCCCGTCACGCACGCTTTT
*
8793598 GAATTTGAGGTTTAGGAAGAGCAATGGTCTACACGCACCTCATTGGCAGACTGGGTGTGGGATTT
648 GAATTTGAGGTTTAGGAAGAGCAATGGTCTACACACACCTCATTGGCAGACTGGGTGTGGGATTT
* * **
8793663 GTATGGAAAGGTTATGATTCTTGATGTAGTCAATAGGAAACTAAGTAAGGACTTTGATAGTAAGC
713 GTATGGAAAGGATAAGATTCTTGATGTAACCAATAGGAAACTAAGTAAGGACTTTGATAGTAAGC
* * * * *
8793728 AGATGGCATGTGGTTAATGGTTGGACTATGGTGTGCCCATCCAAATCACAATTTAATACCGTCAA
778 AAATGGCATGTGATTAATCGTTGGACTATAGTGTGCCCATCCAAATCACAATTTAATACCCTCAA
*
8793793 TAAGGCAGGCAATTCAGGCT
843 TAAGGCAGGCAATTCAAGCT
*
8793813 TAAATGAGAAGTTAAGGACTGATGTGGCAATTATATGCTTACATGGAAAAGAATTGAATACCAAT
1 TAAATGAGAAGTTAAGGACTGATGTGGCAATTATATGCTTACATGGAAGAGAATTGAATACCAAT
* * *
8793878 CTTCGGAATAAGAGTAGAATTGAATGACCCCA-TTTGAGAATAAAGATTTTTTAGTGCCTTTGAG
66 CTTCGAAATAAGAATAGAATTGAATGACCCTATTTTGAGAATAAAGATTTTTTAGTGCCTTTGAG
* * * *
8793942 AAAAATTTCCGTTTTATATGAATGCAACATATTTAATTATTTTTTAAAAGGTAGTTTTTATTATC
131 AAAAATTTCCGTTTTATATGAACGCAGCATATCTAATTATTTTTTTAAAGGTAGTTTTTATTATC
*
8794007 AAGTAACTGATCATAATCTAAAAGATAGTTTTATGACCTATTACATAATAAGAAGAAAGATGAAC
196 AAGTAAATGATCATAATCTAAAAGATAGTTTTATGACCTATTACATAATAAGAAGAAAGATGAAC
*
8794072 CCCACAATACACTAGTGCTAAGATTGGGGATATCTAGGACTTAAAAACAATACACTAACACCCCC
261 CCCACAATACACTAGTGCTAA-A----GGATATCTAGCACTTAAAAACAATACACTAACACCCCC
* ** *
8794137 ATCACTCGTCAAGACTTGGTTCTCCCCCCACAATCCAATGTATATCATGATTTTCTTATTACTGT
321 ATCACTCGTCAAGACTTGGTTCTCCACCCACAATCCAACATATATCATGATTTTCTTATTACTGC
* *
8794202 ATCTGTTCGA-ATTGTTTGTTTGTGCATGTCTTTAT-TT-TATTTA-AGTGGAAAATTTTGTTC-
386 ATCTATT-GAGATTGTTTGTTTGTGCATG--TTTATGTTCTATTTAGA-TAGAAAATTTTGTTCT
* ** *
8794262 TGAGTGTTTTATTCCTTGCTATGAGAATACGATTCTCATTTTAA-TT-CATGGTTCATTATGTTT
447 TGAGTGTTTCATTCCCCGCTATGAGAATACAATTCTCATTTTAACTTGC--GGTTCATTATGTTT
* *
8794325 TAAGACCATGGAGTTGTATTTCTATTAATGAATCTCATGATGATTGAGAAAAGAAAAATTGATGA
510 TAAGACCATGAAGTTGTATTTCTATTAATGAATCTCATGATGATTGAGAAAAG-AAAA--CATGA
*
8794390 CATAAATTAAAATTTCTCATGTATTAAATT-TCTAC-CGACTTTTTTGTAGAAAAAATATCTCCG
572 CATAAATTAAAATTTCTCATATATTAAATTCTCTACAC-ACTTTTTTG-AGAAAAAATATC-CCG
** * ** * * *
8794453 TTGCGCACGCTTTTGATTTTGAGGTTTAGGCGGAGCAATGGTTTACACACACCTCATTGGTAGCC
634 TCACGCACGCTTTTGAATTTGAGGTTTAGGAAGAGCAATGGTCTACACACACCTCATTGGCAGAC
* **
8794518 TGGGTGTGGGATTTGTATGGAAAGGATAAGATTCTTGATGTAACCAATAGG-AGCTAAGTTCGGA
699 TGGGTGTGGGATTTGTATGGAAAGGATAAGATTCTTGATGTAACCAATAGGAAACTAAGTAAGGA
* *
8794582 CTTTGATAGTAAGCAAATGGCATGTGATTGATCGTTGGACTGTAGTGTGCCCATCCAAATCACAA
764 CTTTGATAGTAAGCAAATGGCATGTGATTAATCGTTGGACTATAGTGTGCCCATCCAAATCACAA
8794647 TTTAATACCCTCAATAAGGCAGGCAATTCAAGCT
829 TTTAATACCCTCAATAAGGCAGGCAATTCAAGCT
* *
8794681 TAAATGAGAAGTTAAAGACTGATGTGGCAATTATATGCTTACATGGAAGAGAATTGAATACCTAT
1 TAAATGAGAAGTTAAGGACTGATGTGGCAATTATATGCTTACATGGAAGAGAATTGAATACCAAT
* * *
8794746 CTCCGAAATAAGAATAGAATTGAATGACCCTATTTTGAAAATAAAGATTTTTTAGTGCATTTGAG
66 CTTCGAAATAAGAATAGAATTGAATGACCCTATTTTGAGAATAAAGATTTTTTAGTGCCTTTGAG
* *
8794811 AAAAATTTCC-TCTTTATATGAACACGGCATATCTAATTATTTTTTTAAAGGTAGTTTTTATTAT
131 AAAAATTTCCGT-TTTATATGAACGCAGCATATCTAATTATTTTTTTAAAGGTAGTTTTTATTAT
* *
8794875 CAAGTAATTGATCATAATCTAAAAGATAGTTTTATGACCTATTACATAATAAGAAAAAAGATGAA
195 CAAGTAAATGATCATAATCTAAAAGATAGTTTTATGACCTATTACATAATAAGAAGAAAGATGAA
*
8794940 CCTCACAATA
260 CCCCACAATA
8794950 TGTATTTTTT
Statistics
Matches: 1015, Mismatches: 102, Indels: 35
0.88 0.09 0.03
Matches are distributed among these distances:
863 168 0.17
864 83 0.08
865 104 0.10
866 5 0.00
867 15 0.01
868 369 0.36
869 266 0.26
870 5 0.00
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.34
Consensus pattern (862 bp):
TAAATGAGAAGTTAAGGACTGATGTGGCAATTATATGCTTACATGGAAGAGAATTGAATACCAAT
CTTCGAAATAAGAATAGAATTGAATGACCCTATTTTGAGAATAAAGATTTTTTAGTGCCTTTGAG
AAAAATTTCCGTTTTATATGAACGCAGCATATCTAATTATTTTTTTAAAGGTAGTTTTTATTATC
AAGTAAATGATCATAATCTAAAAGATAGTTTTATGACCTATTACATAATAAGAAGAAAGATGAAC
CCCACAATACACTAGTGCTAAAGGATATCTAGCACTTAAAAACAATACACTAACACCCCCATCAC
TCGTCAAGACTTGGTTCTCCACCCACAATCCAACATATATCATGATTTTCTTATTACTGCATCTA
TTGAGATTGTTTGTTTGTGCATGTTTATGTTCTATTTAGATAGAAAATTTTGTTCTTGAGTGTTT
CATTCCCCGCTATGAGAATACAATTCTCATTTTAACTTGCGGTTCATTATGTTTTAAGACCATGA
AGTTGTATTTCTATTAATGAATCTCATGATGATTGAGAAAAGAAAACATGACATAAATTAAAATT
TCTCATATATTAAATTCTCTACACACTTTTTTGAGAAAAAATATCCCGTCACGCACGCTTTTGAA
TTTGAGGTTTAGGAAGAGCAATGGTCTACACACACCTCATTGGCAGACTGGGTGTGGGATTTGTA
TGGAAAGGATAAGATTCTTGATGTAACCAATAGGAAACTAAGTAAGGACTTTGATAGTAAGCAAA
TGGCATGTGATTAATCGTTGGACTATAGTGTGCCCATCCAAATCACAATTTAATACCCTCAATAA
GGCAGGCAATTCAAGCT
Found at i:8799868 original size:15 final size:16
Alignment explanation
Indices: 8799839--8799868 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
8799829 ATTTTAAAAA
8799839 GAAAATAATAAATAAT
1 GAAAATAATAAATAAT
8799855 GAAAATAA-AAATAA
1 GAAAATAATAAATAA
8799869 AATGATACTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.73, C:0.00, G:0.07, T:0.20
Consensus pattern (16 bp):
GAAAATAATAAATAAT
Found at i:8811573 original size:18 final size:18
Alignment explanation
Indices: 8811546--8811588 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
8811536 TAATATTTGT
8811546 ATTA-TAAATT-ATAAATA
1 ATTATTAAATTAAT-AATA
8811563 ATTATTAAATTAATAATA
1 ATTATTAAATTAATAATA
8811581 ATTTATTA
1 A-TTATTA
8811589 CCAAAAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 4 0.17
18 11 0.48
19 8 0.35
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
ATTATTAAATTAATAATA
Found at i:8811588 original size:39 final size:39
Alignment explanation
Indices: 8811510--8811588 Score: 90
Period size: 39 Copynumber: 2.0 Consensus size: 39
8811500 AATATTTTAA
* * * *
8811510 ATAAATTATAAAATTTATTATTATTTTAATATTTGTATT
1 ATAAATTATAAAAATTATTATAATTATAATAATTGTATT
8811549 ATAAATTATAAATAATTATTA-AATTAATAATAATT-TATT
1 ATAAATTATAAA-AATTATTATAATT-ATAATAATTGTATT
8811588 A
1 A
8811589 CCAAAAATAT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
39 20 0.59
40 14 0.41
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (39 bp):
ATAAATTATAAAAATTATTATAATTATAATAATTGTATT
Found at i:8812099 original size:17 final size:16
Alignment explanation
Indices: 8812067--8812119 Score: 52
Period size: 18 Copynumber: 3.0 Consensus size: 16
8812057 TAAAAATATT
8812067 AAAATAAAATATATAATAA
1 AAAATAAAA-A-ATAA-AA
8812086 AAAATAAAAAATAAAA
1 AAAATAAAAAATAAAA
*
8812102 AAATATCAAAAATTAAAA
1 AAA-AT-AAAAAATAAAA
8812120 TTTATATAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
16 5 0.16
17 6 0.19
18 11 0.35
19 9 0.29
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (16 bp):
AAAATAAAAAATAAAA
Found at i:8812180 original size:27 final size:26
Alignment explanation
Indices: 8812056--8812223 Score: 96
Period size: 27 Copynumber: 6.3 Consensus size: 26
8812046 TATAATTAAG
*
8812056 ATAAAAATATTAAAATAAAATATAT-A
1 ATAAAAA-ATTAAATTAAAATATATAA
* *
8812082 ATAAAAAA-T-AA--AAAATAAAAAA
1 ATAAAAAATTAAATTAAAATATATAA
* *
8812104 ATATCAAAAATTAAAATTTATATAATATAA
1 ATA--AAAAATT-AAATTAAAAT-ATATAA
* *
8812134 GTAAACTAAATTAAAATAAAATATATAA
1 ATAAA--AAATTAAATTAAAATATATAA
* * *
8812162 TATAAAAAATTATATTAAAGAAATAAAA
1 -ATAAAAAATTAAATTAAA-ATATATAA
*
8812190 ATAAAAAATATAAGATTATAATA-ATAA
1 ATAAAAAAT-TAA-ATTAAAATATATAA
8812217 ATAAAAA
1 ATAAAAA
8812224 TGAAATATAT
Statistics
Matches: 108, Mismatches: 19, Indels: 29
0.69 0.12 0.19
Matches are distributed among these distances:
21 7 0.06
22 4 0.04
23 2 0.02
24 6 0.06
25 2 0.02
26 7 0.06
27 32 0.30
28 18 0.17
29 19 0.18
30 11 0.10
ACGTcount: A:0.69, C:0.01, G:0.02, T:0.28
Consensus pattern (26 bp):
ATAAAAAATTAAATTAAAATATATAA
Found at i:8812197 original size:84 final size:80
Alignment explanation
Indices: 8812064--8812215 Score: 184
Period size: 79 Copynumber: 1.9 Consensus size: 80
8812054 AGATAAAAAT
* *
8812064 ATTAAAATAAAATATATAATAAAAAATAAAAAATAAAAAAATATCAAAAAT-TAAAATT-TATAT
1 ATTAAAATAAAATATATAATAAAAAATAAAAAAGAAAAAAATATAAAAAATATAAAATTATA-AT
8812127 AATATAAGTAAACTAA
65 AATATAAGTAAACTAA
* *
8812143 ATTAAAATAAAATATATAATATAAAAAATTATATTAAAGAAATAAAA-ATAAAAAATATAAGATT
1 ATTAAAATAAAATATAT-A-ATAAAAAA-TA-A-AAAAGAAA-AAAATATAAAAAATATAAAATT
8812207 ATAATAATA
60 ATAATAATA
8812216 AATAAAAATG
Statistics
Matches: 61, Mismatches: 4, Indels: 10
0.81 0.05 0.13
Matches are distributed among these distances:
79 17 0.28
80 1 0.02
81 8 0.13
82 2 0.03
83 1 0.02
84 14 0.23
85 16 0.26
86 2 0.03
ACGTcount: A:0.68, C:0.01, G:0.02, T:0.29
Consensus pattern (80 bp):
ATTAAAATAAAATATATAATAAAAAATAAAAAAGAAAAAAATATAAAAAATATAAAATTATAATA
ATATAAGTAAACTAA
Found at i:8812201 original size:74 final size:78
Alignment explanation
Indices: 8812064--8812233 Score: 172
Period size: 79 Copynumber: 2.2 Consensus size: 78
8812054 AGATAAAAAT
*
8812064 ATTAAAATAAAATATATAATAAAAAATAAAAAATAAAAAAATATCAAAAATTAAAATTTATATAA
1 ATTAAAATAAAATATATAATAAAAAATAAAAAATAAAAAAATATCAAAAATTAAAA-TAATATAA
* *
8812129 TATAAGTAA-ACTAA
65 GATAA-TAATAATAA
** * * *
8812143 ATTAAAATAAAATATATAATATAAAAA-ATTATATTAAAGAA-AT-AAAAA-TAAAA-AATATAA
1 ATTAAAATAAAATATATAATA-AAAAATAAAAAATAAAAAAATATCAAAAATTAAAATAATATAA
*
8812203 GATTATAATAATAA
65 GATAATAATAATAA
* *
8812217 ATAAAAATGAAATATAT
1 ATTAAAATAAAATATAT
8812234 GACATTCAAA
Statistics
Matches: 78, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
73 3 0.04
74 28 0.36
76 5 0.06
77 5 0.06
78 2 0.03
79 30 0.38
80 5 0.06
ACGTcount: A:0.68, C:0.01, G:0.02, T:0.29
Consensus pattern (78 bp):
ATTAAAATAAAATATATAATAAAAAATAAAAAATAAAAAAATATCAAAAATTAAAATAATATAAG
ATAATAATAATAA
Found at i:8817345 original size:78 final size:77
Alignment explanation
Indices: 8817201--8817377 Score: 186
Period size: 78 Copynumber: 2.3 Consensus size: 77
8817191 AAGGCTCTTT
* * * *
8817201 AAGGGACTAGCT-ACTACAAAGCATAAAGCCTTTAATTCTGAGAATTGAAGAAGGTCTTCCATTG
1 AAGGGATTAGCTAACTA-AAAGCATAAACCCTTTAATTCTGAGAATTAAAGAAGGTCTTCCACTG
8817265 GATCCGG-CTTAAG-
65 GAT--GGACTTAAGA
*
8817278 AAGGGATTAGCTAACTAAAATGCTTAAACCCTTTAATTCTGAGAATTAAAG-AGG-C-TCACGTA
1 AAGGGATTAGCTAACTAAAA-GCATAAACCCTTTAATTCTGAGAATTAAAGAAGGTCTTC-C--A
8817340 CTGGATGGACTTAAGAA
62 CTGGATGGACTTAAG-A
*
8817357 AAGGGATTAGCTAGCTAAAAG
1 AAGGGATTAGCTAACTAAAAG
8817378 GTTTAGAGCC
Statistics
Matches: 86, Mismatches: 6, Indels: 15
0.80 0.06 0.14
Matches are distributed among these distances:
75 2 0.02
76 4 0.05
77 23 0.27
78 38 0.44
79 19 0.22
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (77 bp):
AAGGGATTAGCTAACTAAAAGCATAAACCCTTTAATTCTGAGAATTAAAGAAGGTCTTCCACTGG
ATGGACTTAAGA
Found at i:8818109 original size:13 final size:13
Alignment explanation
Indices: 8818091--8818120 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
8818081 AAATTATAAC
8818091 TTATAAAAAAAAT
1 TTATAAAAAAAAT
8818104 TTATAAAAAAAAT
1 TTATAAAAAAAAT
8818117 TTAT
1 TTAT
8818121 CAAACAACTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
TTATAAAAAAAAT
Found at i:8831411 original size:20 final size:20
Alignment explanation
Indices: 8831388--8831427 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
8831378 AATTTAATTA
*
8831388 TAAATAATCATTTTTAATAT
1 TAAATAATAATTTTTAATAT
**
8831408 TAAATTTTAATTTTTAATAT
1 TAAATAATAATTTTTAATAT
8831428 ATTATTTTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (20 bp):
TAAATAATAATTTTTAATAT
Found at i:8831451 original size:14 final size:14
Alignment explanation
Indices: 8831411--8831459 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
8831401 TTAATATTAA
*
8831411 ATTT-TAATTTTTA
1 ATTTATAATTTTTT
* *
8831424 ATATATTATTTTTT
1 ATTTATAATTTTTT
8831438 ATTTATAA-TTTTT
1 ATTTATAATTTTTT
8831451 -TTTATAATT
1 ATTTATAATT
8831460 AATATAATAT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
12 7 0.24
13 9 0.31
14 13 0.45
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (14 bp):
ATTTATAATTTTTT
Found at i:8831984 original size:20 final size:21
Alignment explanation
Indices: 8831938--8831984 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
8831928 TTTTAATTAC
8831938 AATAATATTTAAATTATAAAT
1 AATAATATTTAAATTATAAAT
*
8831959 AA-AATA-TTAATATTGTAAA-
1 AATAATATTTAA-ATTATAAAT
8831978 AATAATA
1 AATAATA
8831985 ATTTTAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
19 6 0.26
20 15 0.65
21 2 0.09
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (21 bp):
AATAATATTTAAATTATAAAT
Found at i:8831985 original size:43 final size:43
Alignment explanation
Indices: 8831915--8831997 Score: 105
Period size: 43 Copynumber: 1.9 Consensus size: 43
8831905 ATTAAGACAT
* * **
8831915 TAAAATTTTAATATTTTAATTACAATAATATTT-AAATTATAAA
1 TAAAATATTAATATTGTAAAAACAATAAT-TTTAAAATTATAAA
*
8831958 TAAAATATTAATATTGTAAAAATAATAATTTTAAAATTAT
1 TAAAATATTAATATTGTAAAAACAATAATTTTAAAATTAT
8831998 TAAGCGCAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 3 0.09
43 31 0.91
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (43 bp):
TAAAATATTAATATTGTAAAAACAATAATTTTAAAATTATAAA
Found at i:8832395 original size:17 final size:16
Alignment explanation
Indices: 8832353--8832434 Score: 63
Period size: 16 Copynumber: 5.3 Consensus size: 16
8832343 ATTTCAATGA
8832353 TTAAATTATTAAATA-
1 TTAAATTATTAAATAT
8832368 --AAATTA-T-AATAT
1 TTAAATTATTAAATAT
8832380 TTAAATTATTAAA-AT
1 TTAAATTATTAAATAT
8832395 ATTAATATT-TTAAATGAAT
1 -TTAA-ATTATTAAAT--AT
8832414 TATAAATTATT-AATAT
1 T-TAAATTATTAAATAT
8832430 TTAAA
1 TTAAA
8832435 AAATAAATCT
Statistics
Matches: 55, Mismatches: 0, Indels: 24
0.70 0.00 0.30
Matches are distributed among these distances:
11 4 0.07
12 1 0.02
13 6 0.11
14 6 0.11
15 7 0.13
16 14 0.25
17 3 0.05
18 7 0.13
19 7 0.13
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.46
Consensus pattern (16 bp):
TTAAATTATTAAATAT
Found at i:8832399 original size:43 final size:42
Alignment explanation
Indices: 8832267--8832468 Score: 109
Period size: 42 Copynumber: 4.8 Consensus size: 42
8832257 TATTTTGAAT
* * * *
8832267 TTAAA-TATTAATTAAAAGTATCAATATTTTAATCA-TAATTATA
1 TTAAATTATTAAATAAAATTAT-AATATTTAAAT-ATTAA-AATA
* * **
8832310 TTTAAATTA-TAAATAAAAATGTAATATTTTAAA-ATTTCAATGA
1 -TTAAATTATTAAATAAAATTATAATA-TTTAAATATTAAAAT-A
8832353 TTAAATTATTAAATAAAATTATAATATTTAAATTATTAAAATA
1 TTAAATTATTAAATAAAATTATAATATTTAAA-TATTAAAATA
* *
8832396 TTAATATT-TTAAAT-GAATTATAA-ATTATTAATATTTAAAA-A
1 TTAA-ATTATTAAATAAAATTATAATATT-TAAATA-TTAAAATA
* * * *
8832437 ATAAA-T-CTAAATAAACATAATAACATTTAAAT
1 TTAAATTATTAAATAAA-ATTATAATATTTAAAT
8832469 TATAAATAAT
Statistics
Matches: 127, Mismatches: 18, Indels: 29
0.73 0.10 0.17
Matches are distributed among these distances:
39 6 0.05
40 2 0.02
41 19 0.15
42 37 0.29
43 32 0.25
44 29 0.23
45 2 0.02
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (42 bp):
TTAAATTATTAAATAAAATTATAATATTTAAATATTAAAATA
Found at i:8832541 original size:26 final size:27
Alignment explanation
Indices: 8832498--8832548 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
8832488 TTTTATAATG
**
8832498 TTAATGATTAAATTAT-AAATAAAATA
1 TTAATGATTAAAAAATAAAATAAAATA
*
8832524 TTAATGTTTAAAAAATAAAATAAAA
1 TTAATGATTAAAAAATAAAATAAAA
8832549 ATAAATTATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 13 0.62
27 8 0.38
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (27 bp):
TTAATGATTAAAAAATAAAATAAAATA
Found at i:8832845 original size:21 final size:20
Alignment explanation
Indices: 8832821--8832874 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 20
8832811 TTTAAAAAAT
8832821 ATAAATAAATTTTTATAATTA
1 ATAAAT-AATTTTTATAATTA
*
8832842 ATAATTAATTATTTATAATTA
1 ATAAATAATT-TTTATAATTA
*
8832863 AAAAATAATTTT
1 ATAAATAATTTT
8832875 ATATTTTATA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
20 6 0.21
21 23 0.79
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (20 bp):
ATAAATAATTTTTATAATTA
Found at i:8833077 original size:30 final size:29
Alignment explanation
Indices: 8833043--8833149 Score: 121
Period size: 30 Copynumber: 3.7 Consensus size: 29
8833033 AACGTTAATA
8833043 ATAAAAATTTATTTAATTTAAAATAAAAAT
1 ATAAAAATTTATTTAATTTAAAAT-AAAAT
*
8833073 ATAAAAATTAATTTATATTTAAAATAAAAT
1 ATAAAAATTTATTTA-ATTTAAAATAAAAT
* * * *
8833103 ATAAAAACTTA-ATAA-ATAAAATAAACT
1 ATAAAAATTTATTTAATTTAAAATAAAAT
8833130 AATAAAAATTTATTT-ATTTA
1 -ATAAAAATTTATTTAATTTA
8833150 TTTTAATAAT
Statistics
Matches: 64, Mismatches: 9, Indels: 9
0.78 0.11 0.11
Matches are distributed among these distances:
27 10 0.16
28 12 0.19
29 5 0.08
30 28 0.44
31 9 0.14
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (29 bp):
ATAAAAATTTATTTAATTTAAAATAAAAT
Found at i:8841839 original size:6 final size:6
Alignment explanation
Indices: 8841828--8841857 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
8841818 GAAATTGACT
8841828 AGCCCC AGCCCC AGCCCC AGCCCC AGCCCC
1 AGCCCC AGCCCC AGCCCC AGCCCC AGCCCC
8841858 TATGATTTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.67, G:0.17, T:0.00
Consensus pattern (6 bp):
AGCCCC
Found at i:8843399 original size:27 final size:27
Alignment explanation
Indices: 8843314--8843404 Score: 80
Period size: 27 Copynumber: 3.3 Consensus size: 27
8843304 TTATAGATGA
* * *
8843314 ATACTTTTAACTATAAGAAA-TGGATAG
1 ATACTTTT-ATTATAAAAAAGTAGATAG
*
8843341 ACACTTTTATTCATAAAAAAGTAGAT-G
1 ATACTTTTATT-ATAAAAAAGTAGATAG
8843368 AATACTTTTATT-TACAAAAAGTAGATAG
1 -ATACTTTTATTATA-AAAAAGTAGATAG
*
8843396 ATACATTTA
1 ATACTTTTA
8843405 CCTATCACAA
Statistics
Matches: 53, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
26 4 0.08
27 34 0.64
28 15 0.28
ACGTcount: A:0.45, C:0.09, G:0.11, T:0.35
Consensus pattern (27 bp):
ATACTTTTATTATAAAAAAGTAGATAG
Found at i:8848000 original size:504 final size:511
Alignment explanation
Indices: 8847065--8848040 Score: 1384
Period size: 504 Copynumber: 1.9 Consensus size: 511
8847055 TCTTACTAAA
* * * *
8847065 TTTTTTTTATAAAGTTTTTAATGAGGTAGTATTTTAAAATTATATTTTTGAAAAAAATTATATAC
1 TTTTTTTTATAAAATTTTTAATGAGGTAGTATTTTAAAAGTATATTATTGAAAAAAAGTATATAC
* * * * *
8847130 TTTTTCTTTTTTTATTAAAATTTTTTATAAGTTTTTTTCTAATAAAATTTTAACTAAACATATTT
66 TATATATTTTTTTATTAAAATTTTTTATAAATTTTTTTCTAATAAAAGTTTAACTAAACATATTT
*
8847195 TTAATACAATAAACATTTAAGAAAATGATTATTAACCAAGAAATAGATCATTCACTTCATTTGTA
131 TTAATACAATAAACATTTAAGAAAATAATTATTAACCAAGAAATAGATCATTCACTTCATTTGTA
* **
8847260 AACATACTTTCTCAAATAGGACGTTGTTACTATTTTTAAATATTTTTTAATAATTATTTTTTTTA
196 AACACAC-TTCTCAAATAAAACGTTGTTACTATTTTTAAATATTTTTTAATAATTATTTTTTTTA
* *
8847325 ATTTATATTTCATAACAATTGTTAGATAATTAATTTTTATAAAAATTTAAAAAATCGGAAAAAAA
260 ATTTATATTTCATAACAATGGTTAGATAATTAATTTTTATAAAAATTTAAAAAATCAGAAAAAAA
* *
8847390 GGATGAAAGATTAGGTGAATGACGTGTTAGCGCACATGATTTGATTATGGCAAGTAAGTAGGCGA
325 GGATGAAAGATAAGGTGAATGACGTGTTAGCGCACATGATTTGATTATGACAAGTAAGTAGGCGA
* *
8847455 CGCGCCAGTCTGCGTTGACAATTTCATTATTCTACCTTTATCATTTATTATAAACAATGAAACAA
390 CGCGCCAGTCTGCGTTGACAATTTCATTATTCTAACTTTATCATTTATCATAAACAATGAAACAA
8847520 ACAAGATTCCTTCTCATTATATAATTTTTTCGATCATCCATATTTTTGCCATTTGAT
455 ACAAGATTCCTTCTCATTATATAATTTTTTCGATCATCCATATTTTTGCCATTTGAT
* * *
8847577 TTTTTTTTATAAAATTTTTAGTGATGTAGTATTTTAAAAGTATATTATTGAAAAGAAGTATATA-
1 TTTTTTTTATAAAATTTTTAATGAGGTAGTATTTTAAAAGTATATTATTGAAAAAAAGTATATAC
* ** **
8847641 TATATATTTTTTTATTGAGTTTTTTTATGAAATTTTTTT-T-AT-AAAGTTTAACTAGGCATATT
66 TATATATTTTTTTATTAAAATTTTTTAT-AAATTTTTTTCTAATAAAAGTTTAACTAAACATATT
* * * *
8847703 TTTAATACAATGAACATTTAA-AGAAATAATTATTAACTAATAAATTAG-TCATTCACTTTATTT
130 TTTAATACAATAAACATTTAAGA-AAATAATTATTAACCAAGAAA-TAGATCATTCACTTCATTT
* *
8847766 GTAAACACAC-T-T-AAATAAAATGTTGTTACTCTTTTT-AAT-TTTTTTAATAATTA-TTTTTT
193 GTAAACACACTTCTCAAATAAAACGTTGTTACTATTTTTAAATATTTTTTAATAATTATTTTTTT
** *
8847825 TAATTTATATTTCATAACGGTGGTTAGGTAATTAATTTTT-TAAAAATATTTAAAAAAATCAGAA
258 TAATTTATATTTCATAACAATGGTTAGATAATTAATTTTTAT-AAAA-ATTT-AAAAAATCAGAA
* * * *
8847889 AAAAAGGATGAAAGATAAGGTGAATGATGTGTTGGCGCACATGTTTTGATTATGACAAGTACGTA
320 AAAAAGGATGAAAGATAAGGTGAATGACGTGTTAGCGCACATGATTTGATTATGACAAGTAAGTA
* * * ** *
8847954 GGCGACGTGTCAGTCTGTGTTGGTAATTTCATTATTTTAACTTTATCATTTATCATAAACAATGA
385 GGCGACGCGCCAGTCTGCGTTGACAATTTCATTATTCTAACTTTATCATTTATCATAAACAATGA
8848019 AACAAACAAGATTCCTTCTCAT
450 AACAAACAAGATTCCTTCTCAT
8848041 ACGTTTCTTA
Statistics
Matches: 412, Mismatches: 46, Indels: 20
0.86 0.10 0.04
Matches are distributed among these distances:
501 1 0.00
502 46 0.11
503 18 0.04
504 152 0.37
505 20 0.05
506 1 0.00
507 1 0.00
508 1 0.00
509 78 0.19
510 5 0.01
511 23 0.06
512 66 0.16
ACGTcount: A:0.37, C:0.09, G:0.11, T:0.43
Consensus pattern (511 bp):
TTTTTTTTATAAAATTTTTAATGAGGTAGTATTTTAAAAGTATATTATTGAAAAAAAGTATATAC
TATATATTTTTTTATTAAAATTTTTTATAAATTTTTTTCTAATAAAAGTTTAACTAAACATATTT
TTAATACAATAAACATTTAAGAAAATAATTATTAACCAAGAAATAGATCATTCACTTCATTTGTA
AACACACTTCTCAAATAAAACGTTGTTACTATTTTTAAATATTTTTTAATAATTATTTTTTTTAA
TTTATATTTCATAACAATGGTTAGATAATTAATTTTTATAAAAATTTAAAAAATCAGAAAAAAAG
GATGAAAGATAAGGTGAATGACGTGTTAGCGCACATGATTTGATTATGACAAGTAAGTAGGCGAC
GCGCCAGTCTGCGTTGACAATTTCATTATTCTAACTTTATCATTTATCATAAACAATGAAACAAA
CAAGATTCCTTCTCATTATATAATTTTTTCGATCATCCATATTTTTGCCATTTGAT
Found at i:8858131 original size:19 final size:17
Alignment explanation
Indices: 8858084--8858135 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 17
8858074 TATGGACTAA
8858084 ATTTAAAAAA-AT--AT
1 ATTTAAAAAATATAAAT
8858098 ATTTAAAAAATATAAAT
1 ATTTAAAAAATATAAAT
*
8858115 ATTTAAATAGATAATAAAT
1 ATTTAAA-AAAT-ATAAAT
8858134 AT
1 AT
8858136 ACTTATTAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
14 10 0.31
15 2 0.06
17 9 0.28
18 3 0.09
19 8 0.25
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (17 bp):
ATTTAAAAAATATAAAT
Found at i:8880436 original size:13 final size:13
Alignment explanation
Indices: 8880407--8880442 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
8880397 TTAAAAACTC
*
8880407 TTAAAAAATATTTT
1 TTAAAAAA-ATTAT
8880421 TTAAAAAAATTAT
1 TTAAAAAAATTAT
8880434 TTAAAAAAA
1 TTAAAAAAA
8880443 CTTTAAATAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 13 0.62
14 8 0.38
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
TTAAAAAAATTAT
Found at i:8880447 original size:24 final size:24
Alignment explanation
Indices: 8880420--8880466 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
8880410 AAAAATATTT
*
8880420 TTTAAA-AAAATTATTTAAAAAAAC
1 TTTAAATAAAATT-TTAAAAAAAAC
*
8880444 TTTAAATAGAATTTTAAAAAAAA
1 TTTAAATAAAATTTTAAAAAAAA
8880467 AAACACATCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 15 0.75
25 5 0.25
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (24 bp):
TTTAAATAAAATTTTAAAAAAAAC
Found at i:8885996 original size:24 final size:26
Alignment explanation
Indices: 8885969--8886022 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 26
8885959 AGTACCGAAA
*
8885969 TTTGCT-A-TTTCTAATAAATAATCT
1 TTTGCTAATTTTCTAAAAAATAATCT
*
8885993 TTTGCTAATTTTTTTAAAAAATAATCT
1 TTTGCTAA-TTTTCTAAAAAATAATCT
8886020 TTT
1 TTT
8886023 ATTATTATCT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 6 0.24
25 1 0.04
27 18 0.72
ACGTcount: A:0.33, C:0.09, G:0.04, T:0.54
Consensus pattern (26 bp):
TTTGCTAATTTTCTAAAAAATAATCT
Found at i:8900267 original size:186 final size:185
Alignment explanation
Indices: 8899945--8900319 Score: 651
Period size: 186 Copynumber: 2.0 Consensus size: 185
8899935 GCATCCTAAC
* * * *
8899945 AGACAAAAGCAAATTTGAAGTGCACTTATAAAGCTGGGGAACAAACAATAGAAGTGCATTGGAGA
1 AGACAAAAGCAAATTTGAAGTGCACTTACAAAACTGGGAAACAAACAATAGAAGTGCATCGGAGA
* *
8900010 TGAGATAGTTCCTAATTTACCGGCTTGAGGAAAGCTCGCACACTTGTAGAATGCTACTATAATCT
66 TGAGATAGTTCCTAATTTACCAGCTTAAGGAAAGCTCGCACACTTGTAGAATGCTACTATAATCT
*
8900075 TTATTTATTTATCTTCTTAGTACCTCATCTCCAGAGCATACAATTAACTATTTTA
131 TTATTTATTTATCTTCTTAGTACCTCATATCCAGAGCATACAATTAACTATTTTA
*
8900130 AGACAAAAGGCAAATTTGAAGTGCACTTACAAAACTGGGAAACAAACAATTGAAGTGCATCGGAG
1 AGACAAAA-GCAAATTTGAAGTGCACTTACAAAACTGGGAAACAAACAATAGAAGTGCATCGGAG
* *
8900195 ATGAGATAGTTCCTAATTTACCAGCTTAAGGAAAGCTTGCACACTTGTAGAATGCTGCTATAATC
65 ATGAGATAGTTCCTAATTTACCAGCTTAAGGAAAGCTCGCACACTTGTAGAATGCTACTATAATC
8900260 TTTATTTATTTATCTTCTTAGTACCTCATATCCAGAGCATACAATTAACTATTTTA
130 TTTATTTATTTATCTTCTTAGTACCTCATATCCAGAGCATACAATTAACTATTTTA
8900316 AGAC
1 AGAC
8900320 CCTCAATCGA
Statistics
Matches: 179, Mismatches: 10, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
185 8 0.04
186 171 0.96
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.30
Consensus pattern (185 bp):
AGACAAAAGCAAATTTGAAGTGCACTTACAAAACTGGGAAACAAACAATAGAAGTGCATCGGAGA
TGAGATAGTTCCTAATTTACCAGCTTAAGGAAAGCTCGCACACTTGTAGAATGCTACTATAATCT
TTATTTATTTATCTTCTTAGTACCTCATATCCAGAGCATACAATTAACTATTTTA
Found at i:8916232 original size:36 final size:36
Alignment explanation
Indices: 8916079--8916360 Score: 157
Period size: 36 Copynumber: 7.8 Consensus size: 36
8916069 CAGATCAGGT
* * * * **
8916079 AAAGCCTCCTGAGAAACAACATTAATAGGTCTACGC
1 AAAGTCTCCTGCGGAACAACATCAATAGGTCTGTGC
*
8916115 AAGGAGTCT--TGCGGAACAACATCAATAGGTCTATGC
1 AA--AGTCTCCTGCGGAACAACATCAATAGGTCTGTGC
* *
8916151 AACGAG-C-CCTGTGGAACAACATCAATGGGTCTGTGC
1 AA--AGTCTCCTGCGGAACAACATCAATAGGTCTGTGC
* * * *
8916187 AATGGCTCCTGCGGAACACCCTCAATAGGTCTGTGC
1 AAAGTCTCCTGCGGAACAACATCAATAGGTCTGTGC
* ** * * *
8916223 AAAGTCTCCTGGGGAAGTACCTCAATAGCTCTGCGC
1 AAAGTCTCCTGCGGAACAACATCAATAGGTCTGTGC
* * * *
8916259 AAAGTCTCCTGAGGAAGTAA-GTCAATAGGCCTGTGC
1 AAAGTCTCCTGCGGAA-CAACATCAATAGGTCTGTGC
* * * * * *
8916295 AGAGTGTCCTGGGGAAGTAA-GTCAATAGGCCT-TCGC
1 AAAGTCTCCTGCGGAA-CAACATCAATAGGTCTGT-GC
* *
8916331 AAAGTCTCATGAGGAAGCAAC-TCAATAGGT
1 AAAGTCTCCTGCGGAA-CAACATCAATAGGT
8916361 TTACGCCAAG
Statistics
Matches: 199, Mismatches: 38, Indels: 18
0.78 0.15 0.07
Matches are distributed among these distances:
34 1 0.01
35 3 0.02
36 190 0.95
37 1 0.01
38 4 0.02
ACGTcount: A:0.30, C:0.23, G:0.26, T:0.21
Consensus pattern (36 bp):
AAAGTCTCCTGCGGAACAACATCAATAGGTCTGTGC
Found at i:8916332 original size:72 final size:72
Alignment explanation
Indices: 8916207--8916359 Score: 209
Period size: 72 Copynumber: 2.1 Consensus size: 72
8916197 GCGGAACACC
* * *
8916207 CTCAATAGGTCTGTGCAAAGTCTCCTGGGGAAGTACCTCAATAGCTCTGCGCAAAGTCTCCTGAG
1 CTCAATAGGCCTGTGCAAAGTCTCCTGGGGAAGTAACTCAATAGCTCTGCGCAAAGTCTCATGAG
*
8916272 GAAGTAA
66 GAAGCAA
* * * * *
8916279 GTCAATAGGCCTGTGCAGAGTGTCCTGGGGAAGTAAGTCAATAGGC-CTTCGCAAAGTCTCATGA
1 CTCAATAGGCCTGTGCAAAGTCTCCTGGGGAAGTAACTCAATA-GCTCTGCGCAAAGTCTCATGA
8916343 GGAAGCAA
65 GGAAGCAA
8916351 CTCAATAGG
1 CTCAATAGG
8916360 TTTACGCCAA
Statistics
Matches: 70, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
72 68 0.97
73 2 0.03
ACGTcount: A:0.29, C:0.22, G:0.27, T:0.22
Consensus pattern (72 bp):
CTCAATAGGCCTGTGCAAAGTCTCCTGGGGAAGTAACTCAATAGCTCTGCGCAAAGTCTCATGAG
GAAGCAA
Found at i:8918296 original size:3 final size:3
Alignment explanation
Indices: 8918288--8918331 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
8918278 ATATAAATAC
8918288 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
8918332 AGATATAAAC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:8922578 original size:2 final size:2
Alignment explanation
Indices: 8922571--8922609 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
8922561 TCTAATATCA
8922571 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
8922610 CCACCTTTGG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:8926755 original size:15 final size:15
Alignment explanation
Indices: 8926735--8926780 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
8926725 ACATCAGATC
*
8926735 CATCATCTGCATCAT
1 CATCATCTTCATCAT
8926750 CATCATCTTCATCAT
1 CATCATCTTCATCAT
8926765 CA-CAATCTTCATCAT
1 CATC-ATCTTCATCAT
8926780 C
1 C
8926781 TTCAGTACTC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
14 1 0.03
15 28 0.97
ACGTcount: A:0.28, C:0.35, G:0.02, T:0.35
Consensus pattern (15 bp):
CATCATCTTCATCAT
Found at i:8927746 original size:2 final size:2
Alignment explanation
Indices: 8927741--8927785 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
8927731 AAAATAAAAG
8927741 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
8927783 AC A
1 AC A
8927786 TATATATATA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:8930819 original size:15 final size:16
Alignment explanation
Indices: 8930792--8930821 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
8930782 AACATTATAC
8930792 TTTATATAAAATAATT
1 TTTATATAAAATAATT
8930808 TTTATA-AAAATAAT
1 TTTATATAAAATAAT
8930822 AAATTAATAA
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:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TTTATATAAAATAATT
Found at i:8941783 original size:13 final size:14
Alignment explanation
Indices: 8941765--8941793 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
8941755 GCCAACGAAC
8941765 AAGAAAAA-GAAAA
1 AAGAAAAAGGAAAA
8941778 AAGAAAAAGGAAAA
1 AAGAAAAAGGAAAA
8941792 AA
1 AA
8941794 AGAGTTCCCC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (14 bp):
AAGAAAAAGGAAAA
Found at i:8947083 original size:4 final size:4
Alignment explanation
Indices: 8947074--8947111 Score: 69
Period size: 4 Copynumber: 9.8 Consensus size: 4
8947064 TTTATGACAA
8947074 AAAG AAAG AAAG AAAG AAAG AAAG AAAG -AAG AAAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
8947112 CCAATAGAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 3 0.09
4 30 0.91
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:8971320 original size:15 final size:15
Alignment explanation
Indices: 8971300--8971336 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
8971290 GTTTTACAGC
8971300 TTGGATCTGTGATTT
1 TTGGATCTGTGATTT
8971315 TTGGATCTGTGATTT
1 TTGGATCTGTGATTT
8971330 TTGGATC
1 TTGGATC
8971337 CAACAGATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.14, C:0.08, G:0.27, T:0.51
Consensus pattern (15 bp):
TTGGATCTGTGATTT
Found at i:8986687 original size:2 final size:2
Alignment explanation
Indices: 8986680--8986709 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
8986670 CCCCAAAGCA
8986680 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8986710 TTAAAAGGCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8987131 original size:17 final size:17
Alignment explanation
Indices: 8987098--8987131 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
8987088 ATCAACTTGC
*
8987098 ACAAAATTACAATTCCT
1 ACAAAATTACAAGTCCT
*
8987115 ACAAAATTACTAGTCCT
1 ACAAAATTACAAGTCCT
8987132 TTCAGTCAGG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.44, C:0.24, G:0.03, T:0.29
Consensus pattern (17 bp):
ACAAAATTACAAGTCCT
Found at i:9001840 original size:51 final size:51
Alignment explanation
Indices: 9001771--9001869 Score: 153
Period size: 51 Copynumber: 1.9 Consensus size: 51
9001761 AGTTACCAAA
* *
9001771 GCCAGAGTTGCCTAAGCCTGAATTGCCCAAACCTCCTGAGTTGCCAAAAGT
1 GCCAGAGCTGCCAAAGCCTGAATTGCCCAAACCTCCTGAGTTGCCAAAAGT
* **
9001822 GCCAGAGCTGCCAAAGCCTGAATTGCCCCAAGTTCCTGAGTTGCCAAA
1 GCCAGAGCTGCCAAAGCCTGAATTGCCCAAACCTCCTGAGTTGCCAAA
9001870 GCCTGAGTTA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 43 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (51 bp):
GCCAGAGCTGCCAAAGCCTGAATTGCCCAAACCTCCTGAGTTGCCAAAAGT
Found at i:9001842 original size:33 final size:33
Alignment explanation
Indices: 9001805--9002143 Score: 315
Period size: 33 Copynumber: 10.2 Consensus size: 33
9001795 GCCCAAACCT
* * * *
9001805 CCTGAGTTGCCAAAAGTGCCAGAGCTGCCAAAG
1 CCTGAATTGCCCAAAGTTCCAGAGTTGCCAAAG
* *
9001838 CCTGAATTGCCCCAAGTTCCTGAGTTGCCAAAG
1 CCTGAATTGCCCAAAGTTCCAGAGTTGCCAAAG
* * * * * *
9001871 CCTGAGTTACCC-AAGTTGCCTGAATTGCAAAAA
1 CCTGAATTGCCCAAAGTT-CCAGAGTTGCCAAAG
** ** *
9001904 CCTGAAGAAG-TGAAAGTTCCAGAGTTTCCAAAG
1 CCTGAA-TTGCCCAAAGTTCCAGAGTTGCCAAAG
* *
9001937 CCTGAATTTCCTAAAGTTCCAGAGTTGCCCAAAG
1 CCTGAATTGCCCAAAGTTCCAGAGTTG-CCAAAG
* *
9001971 CTCCTGAATTGCCAAAAGTTCCCGAGTTGCCAAAG
1 --CCTGAATTGCCCAAAGTTCCAGAGTTGCCAAAG
*
9002006 CCTGAATTGCCCAAAGTTCCAGAGTTGCCAAAA
1 CCTGAATTGCCCAAAGTTCCAGAGTTGCCAAAG
* * *
9002039 CCTGAATTGCCTAAAGTTACAGAGTTACCAAAG
1 CCTGAATTGCCCAAAGTTCCAGAGTTGCCAAAG
* *
9002072 CCTGAGTTGCCCAAAGTTCCAGAGTTGCCCAAG
1 CCTGAATTGCCCAAAGTTCCAGAGTTGCCAAAG
* * * * *
9002105 CCAGAACTACCC-AAGTTGCCTGACTTGCCAAAG
1 CCTGAATTGCCCAAAGTT-CCAGAGTTGCCAAAG
9002138 CCTGAA
1 CCTGAA
9002144 ACGCCAAAGG
Statistics
Matches: 247, Mismatches: 51, Indels: 16
0.79 0.16 0.05
Matches are distributed among these distances:
32 10 0.04
33 196 0.79
34 11 0.04
35 6 0.02
36 24 0.10
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.22
Consensus pattern (33 bp):
CCTGAATTGCCCAAAGTTCCAGAGTTGCCAAAG
Found at i:9001884 original size:16 final size:15
Alignment explanation
Indices: 9001756--9001884 Score: 51
Period size: 15 Copynumber: 7.9 Consensus size: 15
9001746 TACCGAAGGT
*
9001756 GCCTGAGTTACCAAA
1 GCCTGAGTTCCCAAA
* * *
9001771 GCCAGAGTTGCCTAA
1 GCCTGAGTTCCCAAA
*
9001786 GCCTGAATTGCCCAAA
1 GCCTGAGTT-CCCAAA
* *
9001802 CCTCCTGAGTTGCCAAAA
1 --GCCTGAGTT-CCCAAA
* * *
9001820 GTGCCAGAGCTGCCAAA
1 --GCCTGAGTTCCCAAA
* *
9001837 GCCTGAATTGCCCCAA
1 GCCTGAGTT-CCCAAA
*
9001853 GTTCCTGAGTTGCCAAA
1 G--CCTGAGTTCCCAAA
9001870 GCCTGAGTTACCCAA
1 GCCTGAGTT-CCCAA
9001885 GTTGCCTGAA
Statistics
Matches: 81, Mismatches: 26, Indels: 13
0.68 0.22 0.11
Matches are distributed among these distances:
15 33 0.41
16 13 0.16
17 9 0.11
18 26 0.32
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (15 bp):
GCCTGAGTTCCCAAA
Found at i:9001982 original size:18 final size:18
Alignment explanation
Indices: 9001937--9002103 Score: 100
Period size: 18 Copynumber: 9.8 Consensus size: 18
9001927 GTTTCCAAAG
* *
9001937 CCTGAATTTCCTAAAGTT
1 CCTGAATTGCCCAAAGTT
* * *
9001955 CCAGAGTTGCCCAAAGCT
1 CCTGAATTGCCCAAAGTT
*
9001973 CCTGAATTGCCAAAAGTT
1 CCTGAATTGCCCAAAGTT
* *
9001991 CCCGAGTTG-CCAAAG--
1 CCTGAATTGCCCAAAGTT
9002006 CCTGAATTGCCCAAAGTT
1 CCTGAATTGCCCAAAGTT
* * *
9002024 CCAGAGTTG-CCAAA--A
1 CCTGAATTGCCCAAAGTT
*
9002039 CCTGAATTGCCTAAAGTT
1 CCTGAATTGCCCAAAGTT
* * * *
9002057 ACAGAGTT-ACCAAAG--
1 CCTGAATTGCCCAAAGTT
*
9002072 CCTGAGTTGCCCAAAGTT
1 CCTGAATTGCCCAAAGTT
* *
9002090 CCAGAGTTGCCCAA
1 CCTGAATTGCCCAA
9002104 GCCAGAACTA
Statistics
Matches: 110, Mismatches: 30, Indels: 18
0.70 0.19 0.11
Matches are distributed among these distances:
15 20 0.18
16 16 0.15
17 15 0.14
18 59 0.54
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (18 bp):
CCTGAATTGCCCAAAGTT
Found at i:9002003 original size:135 final size:132
Alignment explanation
Indices: 9001805--9002143 Score: 355
Period size: 135 Copynumber: 2.6 Consensus size: 132
9001795 GCCCAAACCT
* * * * ** *
9001805 CCTGAGTTGCCAAAAGTGCCAGAGCTG-CCAAAGCCTGAATTGCCCCAAGTTCCTGAGTTGCCAA
1 CCTGAATTGCCCAAAGTTCCAGAGTTGCCCAAAGCCTGAATTGCCAAAAGTTCCCGAGTTGCCAA
* * * * *
9001869 AGCCTGAGTTACCC-AAGTTGCCTGAATTGCAAAAACCTGAA-GAAGTGAAAGTTCCAGAGTTTC
66 AGCCTGAATTACCCAAAGTT-CCAGAATTGCAAAAACCTGAATG-ACT-AAAGTTACAGAGTTAC
9001932 CAAAG
128 CAAAG
* *
9001937 CCTGAATTTCCTAAAGTTCCAGAGTTGCCCAAAGCTCCTGAATTGCCAAAAGTTCCCGAGTTGCC
1 CCTGAATTGCCCAAAGTTCCAGAGTTGCCCAAAG--CCTGAATTGCCAAAAGTTCCCGAGTTGCC
* * * *
9002002 AAAGCCTGAATTGCCCAAAGTTCCAGAGTTGCCAAAACCTGAATTGCCTAAAGTTACAGAGTTAC
64 AAAGCCTGAATTACCCAAAGTTCCAGAATTGCAAAAACCTGAA-TGACTAAAGTTACAGAGTTAC
9002067 CAAAG
128 CAAAG
* * * * * * *
9002072 CCTGAGTTGCCCAAAGTTCCAGAGTTGCCC-AAGCCAGAACTACC-CAAGTTGCCTGACTTGCCA
1 CCTGAATTGCCCAAAGTTCCAGAGTTGCCCAAAGCCTGAATTGCCAAAAGTT-CCCGAGTTGCCA
9002135 AAGCCTGAA
65 AAGCCTGAA
9002144 ACGCCAAAGG
Statistics
Matches: 174, Mismatches: 26, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
131 5 0.03
132 49 0.28
133 6 0.03
134 3 0.02
135 104 0.60
136 6 0.03
137 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.22
Consensus pattern (132 bp):
CCTGAATTGCCCAAAGTTCCAGAGTTGCCCAAAGCCTGAATTGCCAAAAGTTCCCGAGTTGCCAA
AGCCTGAATTACCCAAAGTTCCAGAATTGCAAAAACCTGAATGACTAAAGTTACAGAGTTACCAA
AG
Found at i:9005818 original size:33 final size:32
Alignment explanation
Indices: 9005777--9006163 Score: 259
Period size: 33 Copynumber: 11.8 Consensus size: 32
9005767 CGAAGCCAGA
*
9005777 AATT-CCAAAAGTGCCTGAGTTGCCTAAGCCTG
1 AATTGCCAAAAGT-CCTGAGTTGCCAAAGCCTG
*
9005809 AATTGCCAAAAGTTCCTGAGTTGCCAAAGCCAG
1 AATTGCCAAAAG-TCCTGAGTTGCCAAAGCCTG
* * * *
9005842 AGTTGCCTAAAGTACCGGAGTTGCCTAAGCCTG
1 AATTGCCAAAAGT-CCTGAGTTGCCAAAGCCTG
*
9005875 AATTGTCCAAAACTCCTGAGTTGCCAAAGCCTG
1 AATTG-CCAAAAGTCCTGAGTTGCCAAAGCCTG
* * * *
9005908 AATTGCCCAAAGTGCCCGTGTTGCCTAAGCCTG
1 AATTGCCAAAAGT-CCTGAGTTGCCAAAGCCTG
* *
9005941 AATTGCCCAAAACTCCTGAGTTGCCAAAGTCTG
1 AATTG-CCAAAAGTCCTGAGTTGCCAAAGCCTG
*
9005974 AATTGCCCAAAGTTCCTGAGTCT-CCAAAGCCTG
1 AATTGCCAAAAG-TCCTGAGT-TGCCAAAGCCTG
* * * * * * *
9006007 AGTTACC-CAAGTTGTCTGAATTGCAAAAACCTG
1 AATTGCCAAAAG-T-CCTGAGTTGCCAAAGCCTG
** * * *
9006040 AAGAAG-AAAAAGCTCCAGAGTTTCCAAAGCCTG
1 AA-TTGCCAAAAG-TCCTGAGTTGCCAAAGCCTG
* *
9006073 AATTGCCTAAAGTTCCAGAGTTGCCCAAAGCTCCTG
1 AATTGCCAAAAG-TCCTGAGTTG-CCAAAG--CCTG
* *
9006109 AGTTGCC-AAAG-CCTGAATTGCCAAAAGTTCCTG
1 AATTGCCAAAAGTCCTGAGTTGCC-AAAG--CCTG
* *
9006142 AGTTGCC-AAAG-CCTGAATTGCC
1 AATTGCCAAAAGTCCTGAGTTGCC
9006164 TAAGTTGCCT
Statistics
Matches: 282, Mismatches: 56, Indels: 33
0.76 0.15 0.09
Matches are distributed among these distances:
32 25 0.09
33 219 0.78
34 24 0.09
35 4 0.01
36 10 0.04
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.24
Consensus pattern (32 bp):
AATTGCCAAAAGTCCTGAGTTGCCAAAGCCTG
Found at i:9005992 original size:51 final size:51
Alignment explanation
Indices: 9005937--9006148 Score: 136
Period size: 51 Copynumber: 4.2 Consensus size: 51
9005927 GTTGCCTAAG
*
9005937 CCTGAATTGCCCAAAACTCCTGAGTTGCCAAAGTCTGAATTGCCCAAAGTT
1 CCTGAATTGCCCAAAACTCCTGAGTTGCCAAAGCCTGAATTGCCCAAAGTT
* * * * * **
9005988 CCTG-AGT-CTCC-AAA-GCCTGAGTTACCCAAGTTGTCTGAATTG--CAAA-AA
1 CCTGAATTGC-CCAAAACTCCTGAGTT-GCCAA--AGCCTGAATTGCCCAAAGTT
*** * * *
9006036 CCTGAA--GAAGAAAAAGCTCCAGAGTTTCCAAAGCCTGAATTGCCTAAAGTT
1 CCTGAATTG-CCCAAAA-CTCCTGAGTTGCCAAAGCCTGAATTGCCCAAAGTT
* * * *
9006087 CCAGAGTTGCCCAAAGCTCCTGAGTTGCCAAAGCCTGAATTGCCAAAAGTT
1 CCTGAATTGCCCAAAACTCCTGAGTTGCCAAAGCCTGAATTGCCCAAAGTT
*
9006138 CCTGAGTTGCC
1 CCTGAATTGCC
9006149 AAAGCCTGAA
Statistics
Matches: 119, Mismatches: 27, Indels: 30
0.68 0.15 0.17
Matches are distributed among these distances:
48 21 0.18
49 16 0.13
50 11 0.09
51 67 0.56
52 3 0.03
53 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.24
Consensus pattern (51 bp):
CCTGAATTGCCCAAAACTCCTGAGTTGCCAAAGCCTGAATTGCCCAAAGTT
Found at i:9006004 original size:66 final size:66
Alignment explanation
Indices: 9005784--9006016 Score: 308
Period size: 66 Copynumber: 3.5 Consensus size: 66
9005774 AGAAATTCCA
* * *
9005784 AAAGTGCCTGAGTTGCCTAAGCCTGAATTG-CCAAAAGTTCCTGAGTTGCCAAAGCCAGAGTTGC
1 AAAGTGCCTGAGTTGCCTAAGCCTGAATTGCCCAAAA-CTCCTGAGTTGCCAAAGCCTGAATTGC
*
9005848 CT
65 CC
* * *
9005850 AAAGTACCGGAGTTGCCTAAGCCTGAATTGTCCAAAACTCCTGAGTTGCCAAAGCCTGAATTGCC
1 AAAGTGCCTGAGTTGCCTAAGCCTGAATTGCCCAAAACTCCTGAGTTGCCAAAGCCTGAATTGCC
9005915 C
66 C
* * *
9005916 AAAGTGCCCGTGTTGCCTAAGCCTGAATTGCCCAAAACTCCTGAGTTGCCAAAGTCTGAATTGCC
1 AAAGTGCCTGAGTTGCCTAAGCCTGAATTGCCCAAAACTCCTGAGTTGCCAAAGCCTGAATTGCC
9005981 C
66 C
* * * *
9005982 AAAGTTCCTGAGTCT-CCAAAGCCTGAGTTACCCAA
1 AAAGTGCCTGAGT-TGCCTAAGCCTGAATTGCCCAA
9006017 GTTGTCTGAA
Statistics
Matches: 148, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
66 141 0.95
67 7 0.05
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (66 bp):
AAAGTGCCTGAGTTGCCTAAGCCTGAATTGCCCAAAACTCCTGAGTTGCCAAAGCCTGAATTGCC
C
Found at i:9006097 original size:150 final size:150
Alignment explanation
Indices: 9005943--9006232 Score: 411
Period size: 150 Copynumber: 1.9 Consensus size: 150
9005933 TAAGCCTGAA
* *
9005943 TTGCCCAAAACTCCTGAGTTGCCAAAGTCTGAATTGCCCAAAGTTCCTGAGTCT-CCAAAGCCTG
1 TTGCCCAAAACTCCTGAGTTGCCAAAGCCTGAATTGCCAAAAGTTCCTGAGT-TGCCAAAGCCTG
* * * * *
9006007 AGTTACCCAAGTTGTCTGAATTGCAAAAACCTGAAGAAGAAAAAGCTCCAGAGTTTCCAAAGCCT
65 AATTACCCAAGTTGCCTGAAATGCAAAAACCTGAAGAACAAAAAGCTCCAGAGTTACCAAAGCCT
9006072 GAATTGCCTAAAGTTCCAGAG
130 GAATTGCCTAAAGTTCCAGAG
*
9006093 TTGCCCAAAGCTCCTGAGTTGCCAAAGCCTGAATTGCCAAAAGTTCCTGAGTTGCCAAAGCCTGA
1 TTGCCCAAAACTCCTGAGTTGCCAAAGCCTGAATTGCCAAAAGTTCCTGAGTTGCCAAAGCCTGA
* * * ** * * *
9006158 ATTGCCTAAGTTGCCTGAAATGCCAAAACCTGAAGAACCCAAGGTTCCTGAGTTACCAAAGCCTG
66 ATTACCCAAGTTGCCTGAAATGCAAAAACCTGAAGAACAAAAAGCTCCAGAGTTACCAAAGCCTG
*
9006223 AGTTGCCTAA
131 AATTGCCTAA
9006233 GCTGCCTGAC
Statistics
Matches: 122, Mismatches: 17, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
149 1 0.01
150 121 0.99
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.23
Consensus pattern (150 bp):
TTGCCCAAAACTCCTGAGTTGCCAAAGCCTGAATTGCCAAAAGTTCCTGAGTTGCCAAAGCCTGA
ATTACCCAAGTTGCCTGAAATGCAAAAACCTGAAGAACAAAAAGCTCCAGAGTTACCAAAGCCTG
AATTGCCTAAAGTTCCAGAG
Found at i:9006175 original size:18 final size:17
Alignment explanation
Indices: 9006119--9006183 Score: 55
Period size: 18 Copynumber: 3.8 Consensus size: 17
9006109 AGTTGCCAAA
9006119 GCCTGAATTGCCAAAAGTT
1 GCCTGAATTGCC--AAGTT
* *
9006138 -CCTGAGTTGCCAA--A
1 GCCTGAATTGCCAAGTT
9006152 GCCTGAATTGCCTAAGTT
1 GCCTGAATTGCC-AAGTT
*
9006170 GCCTGAAATGCCAA
1 GCCTGAATTGCCAA
9006184 AACCTGAAGA
Statistics
Matches: 37, Mismatches: 5, Indels: 10
0.71 0.10 0.19
Matches are distributed among these distances:
15 10 0.27
16 4 0.11
17 2 0.05
18 21 0.57
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.25
Consensus pattern (17 bp):
GCCTGAATTGCCAAGTT
Found at i:9006175 original size:33 final size:32
Alignment explanation
Indices: 9006104--9006233 Score: 143
Period size: 33 Copynumber: 4.0 Consensus size: 32
9006094 TGCCCAAAGC
*
9006104 TCCTGAGTTGCCAAAGCCTGAATTGCCAAAAGT
1 TCCTGAGTTGCCAAAGCCTGAATTGCC-TAAGT
9006137 TCCTGAGTTGCCAAAGCCTGAATTGCCTAAGT
1 TCCTGAGTTGCCAAAGCCTGAATTGCCTAAGT
** * *** *
9006169 TGCCTGAAATGCCAAAACCTGAAGAACCCAAGGT
1 T-CCTGAGTTGCCAAAGCCTGAATTGCCTAA-GT
* *
9006203 TCCTGAGTTACCAAAGCCTGAGTTGCCTAAG
1 TCCTGAGTTGCCAAAGCCTGAATTGCCTAAG
9006234 CTGCCTGACC
Statistics
Matches: 78, Mismatches: 17, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
32 6 0.08
33 69 0.88
34 3 0.04
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.23
Consensus pattern (32 bp):
TCCTGAGTTGCCAAAGCCTGAATTGCCTAAGT
Found at i:9006241 original size:33 final size:33
Alignment explanation
Indices: 9006090--9006241 Score: 121
Period size: 33 Copynumber: 4.6 Consensus size: 33
9006080 TAAAGTTCCA
9006090 GAGTTGCCCAAAGCT-CCTGAGTTGCCAAAGCCT
1 GAGTTG-CCAAAGCTGCCTGAGTTGCCAAAGCCT
* *
9006123 GAATTGCCAAAAG-TTCCTGAGTTGCCAAAGCCT
1 GAGTTGCC-AAAGCTGCCTGAGTTGCCAAAGCCT
* * * ** *
9006156 GAATTGCCTAAGTTGCCTGAAATGCCAAAACCT
1 GAGTTGCCAAAGCTGCCTGAGTTGCCAAAGCCT
** * * * *
9006189 GAAG-AACCCAAGGTTCCTGAGTTACCAAAGCCT
1 G-AGTTGCCAAAGCTGCCTGAGTTGCCAAAGCCT
*
9006222 GAGTTGCCTAAGCTGCCTGA
1 GAGTTGCCAAAGCTGCCTGA
9006242 CCTTCCAAAA
Statistics
Matches: 93, Mismatches: 21, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
32 8 0.09
33 84 0.90
34 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.22
Consensus pattern (33 bp):
GAGTTGCCAAAGCTGCCTGAGTTGCCAAAGCCT
Found at i:9006305 original size:66 final size:65
Alignment explanation
Indices: 9006132--9006316 Score: 210
Period size: 66 Copynumber: 2.8 Consensus size: 65
9006122 TGAATTGCCA
* *
9006132 AAAGTTCCTGAGTTGCCAAAGCCTGAATTGCCTAAGTTGCCTGAAATGCCAAAACCTGAAGAACC
1 AAAGTTCCTGAGTTGCCAAAGCCTGAATTGCCTAAGTTGCCTG-ACTTCCAAAACCTGAAGAACC
9006197 C
65 C
* * * *
9006198 AAGGTTCCTGAGTTACCAAAGCCTGAGTTGCCTAAGCTGCCTGACCTTCCAAAACAC-GAAGAAC
1 AAAGTTCCTGAGTTGCCAAAGCCTGAATTGCCTAAGTTGCCTGA-CTTCCAAAAC-CTGAAGAAC
9006262 CC
64 CC
* * * * * * *
9006264 AAAGTTCCGGAATTGCCCAAGCCAGAACTACCCAAGTTGCCTGACTTGCCAAA
1 AAAGTTCCTGAGTTGCCAAAGCCTGAATTGCCTAAGTTGCCTGACTT-CCAAA
9006317 GTCTGAAGCG
Statistics
Matches: 99, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
65 4 0.04
66 94 0.95
67 1 0.01
ACGTcount: A:0.32, C:0.29, G:0.19, T:0.20
Consensus pattern (65 bp):
AAAGTTCCTGAGTTGCCAAAGCCTGAATTGCCTAAGTTGCCTGACTTCCAAAACCTGAAGAACCC
Found at i:9006649 original size:16 final size:17
Alignment explanation
Indices: 9006623--9006654 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
9006613 ATATATAATT
9006623 TTTTAATAAATTTATAA
1 TTTTAATAAATTTATAA
9006640 TTTT-ATAAATTTATA
1 TTTTAATAAATTTATA
9006655 GTTCAGAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TTTTAATAAATTTATAA
Found at i:9008959 original size:33 final size:33
Alignment explanation
Indices: 9008917--9008994 Score: 120
Period size: 33 Copynumber: 2.4 Consensus size: 33
9008907 TACATAAGTT
* *
9008917 GCCAGAGCCAGAGGTGGCTAAATCAACTGAATC
1 GCCAAAGCCAGAGGTGCCTAAATCAACTGAATC
* *
9008950 GCCAAAGCCAGAGGTGCCTAAATCGACTGAATG
1 GCCAAAGCCAGAGGTGCCTAAATCAACTGAATC
9008983 GCCAAAGCCAGA
1 GCCAAAGCCAGA
9008995 AGAACCTAAG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.35, C:0.26, G:0.27, T:0.13
Consensus pattern (33 bp):
GCCAAAGCCAGAGGTGCCTAAATCAACTGAATC
Found at i:9009003 original size:33 final size:33
Alignment explanation
Indices: 9008934--9009003 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
9008924 CCAGAGGTGG
* **
9008934 CTAAATCAACTGAATCGCCAAAGCCAGAGGTGC
1 CTAAATCAACTGAATCGCCAAAGCCAGAAGAAC
* *
9008967 CTAAATCGACTGAATGGCCAAAGCCAGAAGAAC
1 CTAAATCAACTGAATCGCCAAAGCCAGAAGAAC
9009000 CTAA
1 CTAA
9009004 GTGGCCCGAG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.40, C:0.26, G:0.20, T:0.14
Consensus pattern (33 bp):
CTAAATCAACTGAATCGCCAAAGCCAGAAGAAC
Found at i:9009048 original size:33 final size:33
Alignment explanation
Indices: 9009011--9009102 Score: 96
Period size: 33 Copynumber: 2.8 Consensus size: 33
9009001 TAAGTGGCCC
*
9009011 GAGTTTCCAAAGCCGGAAATGCCCAAGGTGCCT
1 GAGTTTCCAAAGCCAGAAATGCCCAAGGTGCCT
* * *
9009044 GAGTTTCCAATGGCAGAAATGCCTAAGGTGCC-
1 GAGTTTCCAAAGCCAGAAATGCCCAAGGTGCCT
** * *
9009076 GCAGTGGCCAAAGCTAGAAGTGCCCAA
1 G-AGTTTCCAAAGCCAGAAATGCCCAA
9009103 ATTTCCTGAA
Statistics
Matches: 47, Mismatches: 11, Indels: 2
0.78 0.18 0.03
Matches are distributed among these distances:
32 1 0.02
33 46 0.98
ACGTcount: A:0.29, C:0.25, G:0.28, T:0.17
Consensus pattern (33 bp):
GAGTTTCCAAAGCCAGAAATGCCCAAGGTGCCT
Found at i:9012006 original size:6 final size:6
Alignment explanation
Indices: 9011997--9012071 Score: 53
Period size: 6 Copynumber: 11.8 Consensus size: 6
9011987 TATTATAATT
* * *
9011997 AAAATA AAAATA TTAAAATA AAATATA TAATATA AGAATCA AAAATT AAAAT-
1 AAAATA AAAATA --AAAATA AAA-ATA -AAAATA AAAAT-A AAAATA AAAATA
* *
9012049 AAAATA AATATA AAAATT AAAAT
1 AAAATA AAAATA AAAATA AAAAT
9012072 TTATATAATA
Statistics
Matches: 55, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
5 5 0.09
6 31 0.56
7 11 0.20
8 8 0.15
ACGTcount: A:0.71, C:0.01, G:0.01, T:0.27
Consensus pattern (6 bp):
AAAATA
Found at i:9012010 original size:20 final size:19
Alignment explanation
Indices: 9011985--9012138 Score: 62
Period size: 19 Copynumber: 8.2 Consensus size: 19
9011975 AATATTTTAT
*
9011985 AATATTATAATTAAAATAAA
1 AATATTA-AAATAAAATAAA
9012005 AATATTAAAATAAAAT---
1 AATATTAAAATAAAATAAA
* *
9012021 -ATA-TAATATAAGAATCAA
1 AATATTAAAATAA-AATAAA
9012039 AA-ATTAAAATAAAAT--A
1 AATATTAAAATAAAATAAA
*
9012055 AATATAAAAATTAAAATTTATATA
1 AATATTAAAA-TAAAA--TA-A-A
*
9012079 ATATAAGTAAAATAAAAT-AA
1 A-AT-ATTAAAATAAAATAAA
* *
9012099 AATATATAATATAAAA-AAT
1 AATAT-TAAAATAAAATAAA
*
9012118 TATATT-AAA-AAAATAAA
1 AATATTAAAATAAAATAAA
9012135 AATA
1 AATA
9012139 AAATATATTA
Statistics
Matches: 102, Mismatches: 13, Indels: 41
0.65 0.08 0.26
Matches are distributed among these distances:
14 7 0.07
15 6 0.06
16 7 0.07
17 13 0.13
18 11 0.11
19 32 0.31
20 10 0.10
21 1 0.01
23 1 0.01
24 2 0.02
25 7 0.07
26 5 0.05
ACGTcount: A:0.68, C:0.01, G:0.01, T:0.31
Consensus pattern (19 bp):
AATATTAAAATAAAATAAA
Found at i:9012011 original size:14 final size:15
Alignment explanation
Indices: 9011994--9012179 Score: 80
Period size: 14 Copynumber: 12.1 Consensus size: 15
9011984 TAATATTATA
9011994 ATTAAAATAAAA-AT
1 ATTAAAATAAAATAT
9012008 ATTAAAATAAAATAT
1 ATTAAAATAAAATAT
* *
9012023 A-TAATATAAGAATCAAAA
1 ATTAAAATAA-AAT---AT
9012041 ATTAAAATAAAATAAAT
1 ATTAAAATAAAAT--AT
* *
9012058 ATAAAAATTAAAATTT
1 ATTAAAA-TAAAATAT
* * *
9012074 A-TATAATATAAGTAA
1 ATTAAAATA-AAATAT
*
9012089 AATAAAATAAAATAT
1 ATTAAAATAAAATAT
*
9012104 A-TAATATAAAA-A-
1 ATTAAAATAAAATAT
* * *
9012116 ATTATATTAAAA-AA
1 ATTAAAATAAAATAT
*
9012130 ATAAAAATAAAATAT
1 ATTAAAATAAAATAT
* *
9012145 ATTAGATTATAATAATAC
1 ATTA-A-AATAA-AATAT
*
9012163 ATGAAAATAAAATAT
1 ATTAAAATAAAATAT
9012178 AT
1 AT
9012180 GACATTCAAA
Statistics
Matches: 129, Mismatches: 28, Indels: 29
0.69 0.15 0.16
Matches are distributed among these distances:
12 1 0.01
13 9 0.07
14 39 0.30
15 28 0.22
16 13 0.10
17 14 0.11
18 18 0.14
19 7 0.05
ACGTcount: A:0.66, C:0.01, G:0.02, T:0.31
Consensus pattern (15 bp):
ATTAAAATAAAATAT
Found at i:9012018 original size:5 final size:5
Alignment explanation
Indices: 9011996--9012143 Score: 54
Period size: 5 Copynumber: 28.4 Consensus size: 5
9011986 ATATTATAAT
* * * *
9011996 TAAAA TAAAA -ATAT TAAAA TAAAA T-ATA TAATA TAAGAA TCAAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAA-AA T--AAAA
** * *
9012042 TTAAAA TAAAA TAAATA TAAAAA TTAAAA T-TTA TATAA TATAAG TAAAA
1 -TAAAA TAAAA TAAA-A T-AAAA -TAAAA TAAAA TAAAA TA-AAA TAAAA
* * * *
9012091 TAAAA TAAAA TATATAA TATAA -AAAA TTATA TTAAA -AAAA TAAAAA
1 TAAAA TAAAA TA-A-AA TAAAA TAAAA TAAAA TAAAA TAAAA T-AAAA
9012137 TAAAA TA
1 TAAAA TA
9012144 TATTAGATTA
Statistics
Matches: 109, Mismatches: 18, Indels: 32
0.69 0.11 0.20
Matches are distributed among these distances:
4 13 0.12
5 61 0.56
6 22 0.20
7 10 0.09
8 3 0.03
ACGTcount: A:0.69, C:0.01, G:0.01, T:0.29
Consensus pattern (5 bp):
TAAAA
Found at i:9012045 original size:33 final size:33
Alignment explanation
Indices: 9011985--9012054 Score: 99
Period size: 33 Copynumber: 2.1 Consensus size: 33
9011975 AATATTTTAT
9011985 AATATTATAATTAAAATAAAAATATTAAAATAA
1 AATATTATAATTAAAATAAAAATATTAAAATAA
*
9012018 AATA-TATAATATAAGAATCAAAA-ATTAAAATAA
1 AATATTATAAT-TAA-AATAAAAATATTAAAATAA
9012051 AATA
1 AATA
9012055 AATATAAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
32 6 0.18
33 21 0.62
34 7 0.21
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.30
Consensus pattern (33 bp):
AATATTATAATTAAAATAAAAATATTAAAATAA
Found at i:9012055 original size:24 final size:23
Alignment explanation
Indices: 9012037--9012143 Score: 71
Period size: 23 Copynumber: 4.6 Consensus size: 23
9012027 TATAAGAATC
9012037 AAAAATTAAAATAAAATAAATAT
1 AAAAATTAAAATAAAATAAATAT
**
9012060 AAAAATTAAAAT-TTATATAATAT
1 AAAAATTAAAATAAAATA-AATAT
*
9012083 AAGTAAAATAAAATAAAATATATAATAT
1 AA--AAATTAAAAT-AAA-ATA-AATAT
* *
9012111 AAAAAATT-ATATTAAA-AAA-AT
1 -AAAAATTAAAATAAAATAAATAT
9012132 AAAAA-TAAAATA
1 AAAAATTAAAATA
9012144 TATTAGATTA
Statistics
Matches: 66, Mismatches: 10, Indels: 19
0.69 0.11 0.20
Matches are distributed among these distances:
19 1 0.02
20 8 0.12
21 2 0.03
22 5 0.08
23 20 0.30
24 1 0.02
25 11 0.17
26 3 0.05
27 4 0.06
28 9 0.14
29 2 0.03
ACGTcount: A:0.70, C:0.00, G:0.01, T:0.29
Consensus pattern (23 bp):
AAAAATTAAAATAAAATAAATAT
Done.