Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167937.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_2, 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: 35885061
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 165000 characters in sequence are not A, C, G, or T
File 188 of 195
Found at i:33227100 original size:2 final size:2
Alignment explanation
Indices: 33227093--33227118 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
33227083 TCTTTTGTAA
33227093 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
33227119 TTAAGTTTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:33233622 original size:4 final size:4
Alignment explanation
Indices: 33233613--33233641 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
33233603 TTGTTATATC
33233613 AATA AATA AATA AATA AATA AATA AATA A
1 AATA AATA AATA AATA AATA AATA AATA A
33233642 TTAACACTAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:33234620 original size:222 final size:219
Alignment explanation
Indices: 33234232--33234893 Score: 911
Period size: 222 Copynumber: 3.0 Consensus size: 219
33234222 TGACCTCATA
* * * * *
33234232 ATTTTGTCTTACAAAAAGGACCTCACAATGAAGAGGTAGTGTGAACCCTTTTATATCTCAGTGAC
1 ATTTTGTCCTACAAAAAGGACCTCACAAGGAAGAGGTGGTGTGAA-CCTTTTATACCCCAGTGAC
* **
33234297 CCTTCTATTATGTTCGATGTGGGATTCAGGACTCTTCCTTACGTCTC-TGACATTCTTTCCCACC
65 CCTTCTATTATGTTCGATGTGGGATTCAGGACTCTTCCTTAAGTC-CGTGACATTCTCCCCCACC
* * *
33234361 CAATCTCGTGACGCTCTCGTCACAGAGGCTAGCCACCTTGCCTACCTCCCTCGAGGCGCTTGACG
129 CAATCTCGTGACGC-CTCGTCACGGAGGCTGGCCACCTTGCCTACCTCCCTCGAGG-GCTTGGCG
*
33234426 TAGATCGAACGGTTTAAGGCTGGCTCTG
192 TAGATCGAACGGTTTAGGGCTGGCTCTG
* * * *
33234454 GTTTTGTCCTACAAAAAGGACCTCACAAGGAAGAGATGGTATGAACCTTTTTATACCCCAGCGAC
1 ATTTTGTCCTACAAAAAGGACCTCACAAGGAAGAGGTGGTGTGAACC-TTTTATACCCCAGTGAC
* * * *
33234519 CCTTCTATTATGTTCGATGTGAGATTCAGGACTCTTCTTTAGGTCCGTGATATTCTCCCCCACCC
65 CCTTCTATTATGTTCGATGTGGGATTCAGGACTCTTCCTTAAGTCCGTGACATTCTCCCCCACCC
*
33234584 AATCTCGTGACGGCCTCGTCACGGAGGCTGGCCACCTTGCCTACCTCCCTTGAGAGGCTTGGCGT
130 AATCTCGTGAC-GCCTCGTCACGGAGGCTGGCCACCTTGCCTACCTCCCTCGAG-GGCTTGGCGT
*
33234649 AGATCGAACGGTTTAGGGTTGGCTCTG
193 AGATCGAACGGTTTAGGGCTGGCTCTG
* * *
33234676 ATTTTGTCCTACAAAAAGGACCTCACAAGAAAGAGGTGGTGTGAACC-CTTATACCCCAGTGATC
1 ATTTTGTCCTACAAAAAGGACCTCACAAGGAAGAGGTGGTGTGAACCTTTTATACCCCAGTGACC
* *
33234740 CTTCTATTATGTTTGATGTGGGATTCAGGACTCTTCCTTAAGTCCGTGACATTCTCCCCCACTCA
66 CTTCTATTATGTTCGATGTGGGATTCAGGACTCTTCCTTAAGTCCGTGACATTCTCCCCCACCCA
* ** * * *
33234805 ATCTCGTGACGCC-C-TC-TGGAGGCTGATCACCCTGCCTACCTCTCTCGAGATGCTTGGCGTAG
131 ATCTCGTGACGCCTCGTCACGGAGGCTGGCCACCTTGCCTACCTCCCTCGAG-GGCTTGGCGTAG
*
33234867 ATCGAACAGTTTAGGGCTGGCTCTG
195 ATCGAACGGTTTAGGGCTGGCTCTG
33234892 AT
1 AT
33234894 ACCACTTGTA
Statistics
Matches: 393, Mismatches: 43, Indels: 14
0.87 0.10 0.03
Matches are distributed among these distances:
216 64 0.16
217 2 0.01
218 1 0.00
219 3 0.01
220 83 0.21
221 3 0.01
222 234 0.60
223 3 0.01
ACGTcount: A:0.21, C:0.27, G:0.22, T:0.29
Consensus pattern (219 bp):
ATTTTGTCCTACAAAAAGGACCTCACAAGGAAGAGGTGGTGTGAACCTTTTATACCCCAGTGACC
CTTCTATTATGTTCGATGTGGGATTCAGGACTCTTCCTTAAGTCCGTGACATTCTCCCCCACCCA
ATCTCGTGACGCCTCGTCACGGAGGCTGGCCACCTTGCCTACCTCCCTCGAGGGCTTGGCGTAGA
TCGAACGGTTTAGGGCTGGCTCTG
Found at i:33241872 original size:162 final size:162
Alignment explanation
Indices: 33241595--33241917 Score: 565
Period size: 162 Copynumber: 2.0 Consensus size: 162
33241585 ACAGCTGACC
*
33241595 TTTTGCTTGTTGCAGAAGTCAGTTTTCTCTGGTAATGTCTGTTGATCAATACTATTTTCCTCCTT
1 TTTTGCTTGTTGCAGAAGTCAGTTTTCTCTGGTAATGTCTGGTGATCAATACTATTTTCCTCCTT
* *
33241660 ATCATGTGCAGAAAAGTGAAACTGGTTTTCGTCATCATTAATCCTTTCCTCCTTATCATGTAGAG
66 ATCATGTGCAGAAAAGTGAAACTGGTTTTCGTCATCACTAATCCTTTCCTCCTGATCATGTAGAG
*
33241725 AAGAGTGAAGTTGGTTTTCTTCATCATTAATT
131 AAGAGTGAAATTGGTTTTCTTCATCATTAATT
*
33241757 TTTTGCTTGTTGCAGAGGTCAGTTTTCTCTGGTAATGTCTGGTGATCAATACTATTTTCCTCCTT
1 TTTTGCTTGTTGCAGAAGTCAGTTTTCTCTGGTAATGTCTGGTGATCAATACTATTTTCCTCCTT
* * * *
33241822 ATTATGTGCAGAAGAGTGAAACTGGTTTTCTTCATCACTAATCTTTTCCTCCTGATCATGTAGAG
66 ATCATGTGCAGAAAAGTGAAACTGGTTTTCGTCATCACTAATCCTTTCCTCCTGATCATGTAGAG
33241887 AAGAGTGAAATTGGTTTTCTTCATCATTAAT
131 AAGAGTGAAATTGGTTTTCTTCATCATTAAT
33241918 CTGTATCTCC
Statistics
Matches: 152, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
162 152 1.00
ACGTcount: A:0.23, C:0.17, G:0.18, T:0.42
Consensus pattern (162 bp):
TTTTGCTTGTTGCAGAAGTCAGTTTTCTCTGGTAATGTCTGGTGATCAATACTATTTTCCTCCTT
ATCATGTGCAGAAAAGTGAAACTGGTTTTCGTCATCACTAATCCTTTCCTCCTGATCATGTAGAG
AAGAGTGAAATTGGTTTTCTTCATCATTAATT
Found at i:33241889 original size:54 final size:54
Alignment explanation
Indices: 33241649--33241919 Score: 214
Period size: 54 Copynumber: 5.0 Consensus size: 54
33241639 ATCAATACTA
* *
33241649 TTTTCCTCCTTATCATGT-GCAGAAAAGTGAAACTGGTTTTCGTCATCATTAATC
1 TTTTCCTCCTTATCATGTAG-AGAAGAGTGAAACTGGTTTTCTTCATCATTAATC
* **
33241703 CTTTCCTCCTTATCATGTAGAGAAGAGTGAAGTTGGTTTTCTTCATCATTAAT-
1 TTTTCCTCCTTATCATGTAGAGAAGAGTGAAACTGGTTTTCTTCATCATTAATC
* * * *** **** * * * * *
33241756 TTTT--TGCTTGT--TGCAGAGGTCAGTTTTCTCTGGTAATGTCTGGTGATCAATACTA
1 TTTTCCTCCTTATCATGTAGAGAAGAG-TGAAACTGGT--TTTCT--TCATCATTAATC
* *
33241811 TTTTCCTCCTTATTATGT-GCAGAAGAGTGAAACTGGTTTTCTTCATCACTAATC
1 TTTTCCTCCTTATCATGTAG-AGAAGAGTGAAACTGGTTTTCTTCATCATTAATC
* *
33241865 TTTTCCTCCTGATCATGTAGAGAAGAGTGAAATTGGTTTTCTTCATCATTAATC
1 TTTTCCTCCTTATCATGTAGAGAAGAGTGAAACTGGTTTTCTTCATCATTAATC
33241919 T
1 T
33241920 GTATCTCCTC
Statistics
Matches: 164, Mismatches: 40, Indels: 26
0.71 0.17 0.11
Matches are distributed among these distances:
49 8 0.05
50 5 0.03
51 5 0.03
52 4 0.02
53 3 0.02
54 111 0.68
55 6 0.04
56 4 0.02
57 5 0.03
58 7 0.04
59 6 0.04
ACGTcount: A:0.24, C:0.18, G:0.17, T:0.41
Consensus pattern (54 bp):
TTTTCCTCCTTATCATGTAGAGAAGAGTGAAACTGGTTTTCTTCATCATTAATC
Found at i:33249229 original size:2 final size:2
Alignment explanation
Indices: 33249222--33249246 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
33249212 GGAGGCAGTG
33249222 GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA G
33249247 GGAGGGAGGG
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:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:33254876 original size:14 final size:15
Alignment explanation
Indices: 33254838--33254876 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
33254828 CAATTAAAAG
33254838 AGAAAAAAATCTACTT
1 AGAAAAAAATCTAC-T
33254854 A-AAAAAAATCTAC-
1 AGAAAAAAATCTACT
33254867 AGAAAAAAAT
1 AGAAAAAAAT
33254877 TAACTCTTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 1 0.05
14 8 0.36
15 12 0.55
16 1 0.05
ACGTcount: A:0.67, C:0.10, G:0.05, T:0.18
Consensus pattern (15 bp):
AGAAAAAAATCTACT
Found at i:33267170 original size:33 final size:33
Alignment explanation
Indices: 33267128--33267233 Score: 105
Period size: 33 Copynumber: 3.3 Consensus size: 33
33267118 TATAATTAAT
33267128 AATTATTTTAACCTACACTTCAAAAAATATATA
1 AATTATTTTAACCTACACTTCAAAAAATATATA
* ** * *
33267161 AATTATTTT-ACAT-CA-TATTTATAATTA-AT-
1 AATTATTTTAACCTACACT-TCAAAAAATATATA
* *
33267190 AATTATTTTAACCTACGCTTCATAAAATATATA
1 AATTATTTTAACCTACACTTCAAAAAATATATA
33267223 AATTATTTTAA
1 AATTATTTTAA
33267234 TCTATATTAT
Statistics
Matches: 55, Mismatches: 12, Indels: 12
0.70 0.15 0.15
Matches are distributed among these distances:
29 9 0.16
30 6 0.11
31 14 0.25
32 6 0.11
33 20 0.36
ACGTcount: A:0.44, C:0.11, G:0.01, T:0.43
Consensus pattern (33 bp):
AATTATTTTAACCTACACTTCAAAAAATATATA
Found at i:33267181 original size:62 final size:62
Alignment explanation
Indices: 33267109--33267241 Score: 223
Period size: 62 Copynumber: 2.1 Consensus size: 62
33267099 ATTCTCAGTG
*
33267109 CATCACATTTATAATTAATAATTATTTTAACCTACACTTCAAAAAATATATAAATTATTTTA
1 CATCATATTTATAATTAATAATTATTTTAACCTACACTTCAAAAAATATATAAATTATTTTA
* *
33267171 CATCATATTTATAATTAATAATTATTTTAACCTACGCTTCATAAAATATATAAATTATTTTA
1 CATCATATTTATAATTAATAATTATTTTAACCTACACTTCAAAAAATATATAAATTATTTTA
33267233 -ATCTATATT
1 CATC-ATATT
33267242 ATTTTAAATT
Statistics
Matches: 67, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
61 3 0.04
62 64 0.96
ACGTcount: A:0.43, C:0.12, G:0.01, T:0.44
Consensus pattern (62 bp):
CATCATATTTATAATTAATAATTATTTTAACCTACACTTCAAAAAATATATAAATTATTTTA
Found at i:33270014 original size:18 final size:20
Alignment explanation
Indices: 33269993--33270031 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
33269983 TGTTAACATC
33269993 TAAAATT-TT-TTTATATTT
1 TAAAATTATTGTTTATATTT
33270011 TAAAATTATTGTTTATATTT
1 TAAAATTATTGTTTATATTT
33270031 T
1 T
33270032 TTATTTGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 7 0.37
19 2 0.11
20 10 0.53
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (20 bp):
TAAAATTATTGTTTATATTT
Found at i:33270606 original size:17 final size:16
Alignment explanation
Indices: 33270574--33270607 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
33270564 TTAGACTTCA
*
33270574 AACATTAAACTTAAAT
1 AACATTAAAATTAAAT
33270590 AACATTAAAAATTAAAT
1 AACATT-AAAATTAAAT
33270607 A
1 A
33270608 TATTCATCCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.62, C:0.09, G:0.00, T:0.29
Consensus pattern (16 bp):
AACATTAAAATTAAAT
Found at i:33272131 original size:19 final size:21
Alignment explanation
Indices: 33272109--33272153 Score: 53
Period size: 19 Copynumber: 2.3 Consensus size: 21
33272099 TTTATGAGTC
33272109 TAATTAAAATTTT-A-TATTT
1 TAATTAAAATTTTAATTATTT
*
33272128 TAA-T-ATATTTTAATTATTT
1 TAATTAAAATTTTAATTATTT
33272147 TAATTAA
1 TAATTAA
33272154 TAAAATATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 6
0.75 0.04 0.21
Matches are distributed among these distances:
17 6 0.29
18 2 0.10
19 11 0.52
20 1 0.05
21 1 0.05
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (21 bp):
TAATTAAAATTTTAATTATTT
Found at i:33272136 original size:10 final size:10
Alignment explanation
Indices: 33272121--33272150 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
33272111 ATTAAAATTT
33272121 TATATTTTAA
1 TATATTTTAA
33272131 TATATTTTAA
1 TATATTTTAA
33272141 T-TATTTTAA
1 TATATTTTAA
33272150 T
1 T
33272151 TAATAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (10 bp):
TATATTTTAA
Found at i:33272147 original size:9 final size:9
Alignment explanation
Indices: 33272123--33272152 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
33272113 TAAAATTTTA
33272123 TATTTTAAT
1 TATTTTAAT
33272132 ATATTTTAAT
1 -TATTTTAAT
33272142 TATTTTAAT
1 TATTTTAAT
33272151 TA
1 TA
33272153 ATAAAATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (9 bp):
TATTTTAAT
Found at i:33272578 original size:14 final size:14
Alignment explanation
Indices: 33272525--33272581 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
33272515 TAGTATATAT
*
33272525 ATTTTCATAAATAA
1 ATTTTCAAAAATAA
*
33272539 ATTTTGAAAGATTATAA
1 ATTTTCAAA-A--ATAA
33272556 ACTTTTTCAAAAATAA
1 A--TTTTCAAAAATAA
33272572 ATTTTCAAAA
1 ATTTTCAAAA
33272582 GCTAAAATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 16 0.46
15 1 0.03
16 5 0.14
17 5 0.14
18 1 0.03
19 7 0.20
ACGTcount: A:0.49, C:0.07, G:0.04, T:0.40
Consensus pattern (14 bp):
ATTTTCAAAAATAA
Found at i:33288216 original size:30 final size:30
Alignment explanation
Indices: 33288180--33288255 Score: 75
Period size: 30 Copynumber: 2.5 Consensus size: 30
33288170 GATAATTTAT
33288180 ATTAAAATTTATTTAAG-TATAAATTAAAAA
1 ATTAAAATTTATTTAAGATATAAATT-AAAA
* * * *
33288210 ATTAAAAATCATTT-GGATATAAATTAAAT
1 ATTAAAATTTATTTAAGATATAAATTAAAA
*
33288239 TTTAAACATTTATTTAA
1 ATTAAA-ATTTATTTAA
33288256 ATGCAACAAT
Statistics
Matches: 35, Mismatches: 8, Indels: 5
0.73 0.17 0.10
Matches are distributed among these distances:
29 9 0.26
30 26 0.74
ACGTcount: A:0.51, C:0.03, G:0.04, T:0.42
Consensus pattern (30 bp):
ATTAAAATTTATTTAAGATATAAATTAAAA
Found at i:33289294 original size:24 final size:28
Alignment explanation
Indices: 33289236--33289287 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
33289226 ATATTATCAT
*
33289236 AATAATATCTTTATTTTGTCATATTTTG
1 AATAATATATTTATTTTGTCATATTTTG
33289264 AATAATATATTT-TTTTG-CATATTT
1 AATAATATATTTATTTTGTCATATTT
33289288 ATTAATAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 7 0.30
27 5 0.22
28 11 0.48
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.58
Consensus pattern (28 bp):
AATAATATATTTATTTTGTCATATTTTG
Found at i:33289299 original size:26 final size:28
Alignment explanation
Indices: 33289235--33289299 Score: 82
Period size: 26 Copynumber: 2.4 Consensus size: 28
33289225 AATATTATCA
*
33289235 TAATAATATCTTTATTTTGTCATATTTT
1 TAATAATATATTTATTTTGTCATATTTT
*
33289263 GAATAATATATTT-TTTTG-CATATTTAT
1 TAATAATATATTTATTTTGTCATATTT-T
33289290 TAATAA-ATAT
1 TAATAATATAT
33289300 GATAAAACAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
26 11 0.33
27 11 0.33
28 11 0.33
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.55
Consensus pattern (28 bp):
TAATAATATATTTATTTTGTCATATTTT
Found at i:33291457 original size:106 final size:106
Alignment explanation
Indices: 33291306--33291505 Score: 285
Period size: 106 Copynumber: 1.9 Consensus size: 106
33291296 GTCCCTGACA
* * *
33291306 TAATTAGGAATCAGGAACGTCAAATTCACGTAATTCAATATAAAAACCCAAGGGCTAATGAGATT
1 TAATTAGGAATCAGGAAAGTCAAATTCACGTAATTCAATAAAAAAACCCAAGGGCTAAAGAGATT
*
33291371 TAGTTGACATTTGCATCAACTTAATTTATTATCTCCTAACC
66 TAGTTGACATCTGCATCAACTTAATTTATTATCTCCTAACC
** ** * *
33291412 TAATTAGGAATTGGGAAAGTCGCATTCTCGTAATTC-ATAAAAAAAATCCAAGGGCTAAAGAGAT
1 TAATTAGGAATCAGGAAAGTCAAATTCACGTAATTCAAT-AAAAAAACCCAAGGGCTAAAGAGAT
*
33291476 TTAGTTGACATCTGCATCGACTTAATTTAT
65 TTAGTTGACATCTGCATCAACTTAATTTAT
33291506 CAATATCTCA
Statistics
Matches: 82, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
105 2 0.02
106 80 0.98
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.31
Consensus pattern (106 bp):
TAATTAGGAATCAGGAAAGTCAAATTCACGTAATTCAATAAAAAAACCCAAGGGCTAAAGAGATT
TAGTTGACATCTGCATCAACTTAATTTATTATCTCCTAACC
Found at i:33298842 original size:184 final size:185
Alignment explanation
Indices: 33298533--33298898 Score: 556
Period size: 184 Copynumber: 2.0 Consensus size: 185
33298523 AGCGGAGAAC
* ** *
33298533 TTGATCACTCGATTGGCTGCTTTTCACGATAGGGATATGCTTCCTTTCATTTGATGGTTACAATT
1 TTGATCACTCGATTGGCTGCTTTTCACAATAGGGATATGCTAACTTTCATTTGATGGTCACAATT
*
33298598 GGACTGTTTGCTTAAATAATTTGTTTGAACTCCCATTTTAATAATGCCGTTAATTTACTTCTATC
66 GGACTGTTTGCTTAAATAATTTGTTTGAACTCCCATTTTAATAATGCCATTAATTTACTTCTATC
* * *
33298663 ATCAATTGAAATGATGTGCTACAAGCTTTAGTTTTTG-ATGGTGTTTAAGGTGCA
131 ATCAATTGAAATGATGTGCTAAAACCTTTAGTTTTTGAATGGTATTTAAGGTGCA
* *
33298717 TTGATCATTCGATTGGCTGCTTTTCACAATAGGGATATGAC-AACTTTCATTTGATGGTCACTAT
1 TTGATCACTCGATTGGCTGCTTTTCACAATAGGGATATG-CTAACTTTCATTTGATGGTCACAAT
* * *
33298781 TGGATTGTTTGCTTAAATAATTTGTTTGAACTCCCATTTTGATAATGCTATTAATTTACTTCTAT
65 TGGACTGTTTGCTTAAATAATTTGTTTGAACTCCCATTTTAATAATGCCATTAATTTACTTCTAT
* * * *
33298846 TATCAATTGAAATTATTTGCTAAAACCTTTGGTTTTTGAATGGTATTTAAGGT
130 CATCAATTGAAATGATGTGCTAAAACCTTTAGTTTTTGAATGGTATTTAAGGT
33298899 TTAATTTTTT
Statistics
Matches: 163, Mismatches: 17, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
184 149 0.91
185 14 0.09
ACGTcount: A:0.26, C:0.14, G:0.17, T:0.43
Consensus pattern (185 bp):
TTGATCACTCGATTGGCTGCTTTTCACAATAGGGATATGCTAACTTTCATTTGATGGTCACAATT
GGACTGTTTGCTTAAATAATTTGTTTGAACTCCCATTTTAATAATGCCATTAATTTACTTCTATC
ATCAATTGAAATGATGTGCTAAAACCTTTAGTTTTTGAATGGTATTTAAGGTGCA
Found at i:33300394 original size:14 final size:14
Alignment explanation
Indices: 33300375--33300414 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 14
33300365 ATAAAGGGTA
33300375 TATTATTTTATAAT
1 TATTATTTTATAAT
*
33300389 TATTATATTATAAT
1 TATTATTTTATAAT
33300403 TAATTAATTTTA
1 T-ATT-ATTTTA
33300415 GTTTAAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 14 0.64
15 3 0.14
16 5 0.23
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
TATTATTTTATAAT
Found at i:33314446 original size:23 final size:23
Alignment explanation
Indices: 33314420--33314469 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
33314410 ATAAAGTTGA
*
33314420 ATTTGTTATTTG-GTTTGTGGAAT
1 ATTTCTTATTTGAGTTTG-GGAAT
* *
33314443 ATTTCTTGTTTGAGTTTGGGACT
1 ATTTCTTATTTGAGTTTGGGAAT
33314466 ATTT
1 ATTT
33314470 ACATTTTGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 18 0.78
24 5 0.22
ACGTcount: A:0.16, C:0.04, G:0.24, T:0.56
Consensus pattern (23 bp):
ATTTCTTATTTGAGTTTGGGAAT
Found at i:33321221 original size:156 final size:158
Alignment explanation
Indices: 33320905--33321221 Score: 620
Period size: 156 Copynumber: 2.0 Consensus size: 158
33320895 ATTTGATTGG
33320905 ATAGAAATCAGAATTTTCTCTGATCATCTCCTTGATTACTTCTCTCATAGCAACTGAAGTCTGAA
1 ATAGAAATCAGAATTTTCTCTGATCATCTCCTTGATTACTTCTCTCATAGCAACTGAAGTCTGAA
33320970 AGGACACAAAAAAAAAAAAAAACTTGTAAAAGAAATTAATATTGTGAATATTGCTTTGAATTGCA
66 AGGACACAAAAAAAAAAAAAAACTTGTAAAAGAAATTAATATTGTGAATATTGCTTTGAATTGCA
33321035 CACAAAATTTAAGAAATAATTTATATAA
131 CACAAAATTTAAGAAATAATTTATATAA
33321063 ATAGAAATCAGAATTTTCTCTGATCATCTCCTTGATTACTTCTCTCATAGCAACTGAAGTCTGAA
1 ATAGAAATCAGAATTTTCTCTGATCATCTCCTTGATTACTTCTCTCATAGCAACTGAAGTCTGAA
33321128 AGGACAC-AAAAAAAAAAAAAA-TTGTAAAAGAAATTAATATTGTGAATATTGCTTTGAATTGCA
66 AGGACACAAAAAAAAAAAAAAACTTGTAAAAGAAATTAATATTGTGAATATTGCTTTGAATTGCA
33321191 CACAAAATTTAAGAAATAATTTATATAA
131 CACAAAATTTAAGAAATAATTTATATAA
33321219 ATA
1 ATA
33321222 CCGGATTATT
Statistics
Matches: 159, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
156 73 0.46
157 14 0.09
158 72 0.45
ACGTcount: A:0.44, C:0.13, G:0.11, T:0.31
Consensus pattern (158 bp):
ATAGAAATCAGAATTTTCTCTGATCATCTCCTTGATTACTTCTCTCATAGCAACTGAAGTCTGAA
AGGACACAAAAAAAAAAAAAAACTTGTAAAAGAAATTAATATTGTGAATATTGCTTTGAATTGCA
CACAAAATTTAAGAAATAATTTATATAA
Found at i:33323506 original size:2 final size:2
Alignment explanation
Indices: 33323501--33323533 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
33323491 CTATGCTGGA
33323501 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
33323534 CACACACGTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:33325662 original size:60 final size:60
Alignment explanation
Indices: 33325591--33325746 Score: 285
Period size: 60 Copynumber: 2.6 Consensus size: 60
33325581 TAAAAAAAAT
*
33325591 ATAAATTTAGTCGTCTTAAATGCATGCATCCACGTGTATATAAAAAATTTTAATAAATAA
1 ATAAATTTAGTCGTCTTAAATGCATGCATCCACGTGTATATAAAAAAATTTAATAAATAA
33325651 ATAAATTTAGTCGTCTTAAATGCATGCATCCACGTGTATATAAAAAAATTTAATAAATAA
1 ATAAATTTAGTCGTCTTAAATGCATGCATCCACGTGTATATAAAAAAATTTAATAAATAA
* *
33325711 ATAAATTTAGTAGTCTTAAATGCCTGCATCCACGTG
1 ATAAATTTAGTCGTCTTAAATGCATGCATCCACGTG
33325747 CTGATTACGC
Statistics
Matches: 93, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 93 1.00
ACGTcount: A:0.41, C:0.13, G:0.12, T:0.34
Consensus pattern (60 bp):
ATAAATTTAGTCGTCTTAAATGCATGCATCCACGTGTATATAAAAAAATTTAATAAATAA
Found at i:33327758 original size:20 final size:20
Alignment explanation
Indices: 33327735--33327772 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
33327725 TATAGGCTTG
* *
33327735 TTTTAATTTATTTTTAAAAT
1 TTTTAATCTACTTTTAAAAT
33327755 TTTTAATCTACTTTTAAA
1 TTTTAATCTACTTTTAAA
33327773 CCTCTCACCC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (20 bp):
TTTTAATCTACTTTTAAAAT
Found at i:33339044 original size:2 final size:2
Alignment explanation
Indices: 33339037--33339063 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
33339027 CCTGCATTGT
33339037 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
33339064 TGTTTGCAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:33340385 original size:19 final size:18
Alignment explanation
Indices: 33340358--33340394 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
33340348 GATTGAGGGG
33340358 AAGGGAAAGAAAAGCAAAA
1 AAGGGAAAGAAAA-CAAAA
*
33340377 AAGGTAAAGAAAACAAAA
1 AAGGGAAAGAAAACAAAA
33340395 TTATTCTATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.70, C:0.05, G:0.22, T:0.03
Consensus pattern (18 bp):
AAGGGAAAGAAAACAAAA
Found at i:33348240 original size:2 final size:2
Alignment explanation
Indices: 33348233--33348259 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
33348223 GGGTTATTTG
33348233 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
33348260 AGAAGAAGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:33352508 original size:21 final size:21
Alignment explanation
Indices: 33352482--33352521 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
33352472 ATACCTACAG
33352482 ATAAACCACAGTGTATGAGCA
1 ATAAACCACAGTGTATGAGCA
33352503 ATAAACCACAGTGTATGAG
1 ATAAACCACAGTGTATGAG
33352522 ATTACTTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.42, C:0.17, G:0.20, T:0.20
Consensus pattern (21 bp):
ATAAACCACAGTGTATGAGCA
Found at i:33356260 original size:22 final size:21
Alignment explanation
Indices: 33356219--33356262 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 21
33356209 GACTTTGGAT
*
33356219 TTTGTAAAATTTTAGGTAAAA
1 TTTGTAAAATTTTAGCTAAAA
33356240 TTTGTAAAAGTTTTTA-CTAAAA
1 TTTGTAAAA--TTTTAGCTAAAA
33356262 T
1 T
33356263 AATTAATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 9 0.45
22 6 0.30
23 5 0.25
ACGTcount: A:0.41, C:0.02, G:0.11, T:0.45
Consensus pattern (21 bp):
TTTGTAAAATTTTAGCTAAAA
Found at i:33362465 original size:16 final size:16
Alignment explanation
Indices: 33362437--33362474 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
33362427 GGTTTAAGTT
*
33362437 TAATTTTTGTTATTAA
1 TAATTTTTGTTATGAA
33362453 TACATTTTT-TTATGAA
1 TA-ATTTTTGTTATGAA
33362469 TAATTT
1 TAATTT
33362475 ATAAACCTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 4 0.20
16 10 0.50
17 6 0.30
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.61
Consensus pattern (16 bp):
TAATTTTTGTTATGAA
Found at i:33365876 original size:68 final size:67
Alignment explanation
Indices: 33365767--33365896 Score: 224
Period size: 68 Copynumber: 1.9 Consensus size: 67
33365757 AGGTTCAAAG
* *
33365767 TTTGTTTTGAATAAATGAATTTGGAAAAATTTTATGGAAATAATTTCTAGTTTCGCAGTTTGCGA
1 TTTGTTTTGAATAAATAAAATTGGAAAAATTTTATGGAAATAATTTCTA-TTTCGCAGTTTGCGA
33365832 GGA
65 GGA
*
33365835 TTTGTTTTGAATAAATAAAATTGGAAAAATTTTATGGAAATAATTTCTATTTTGCAGTTTGC
1 TTTGTTTTGAATAAATAAAATTGGAAAAATTTTATGGAAATAATTTCTATTTCGCAGTTTGC
33365897 TATGATTGAA
Statistics
Matches: 59, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
67 12 0.20
68 47 0.80
ACGTcount: A:0.34, C:0.05, G:0.18, T:0.43
Consensus pattern (67 bp):
TTTGTTTTGAATAAATAAAATTGGAAAAATTTTATGGAAATAATTTCTATTTCGCAGTTTGCGAG
GA
Found at i:33366310 original size:27 final size:24
Alignment explanation
Indices: 33366265--33366335 Score: 70
Period size: 27 Copynumber: 2.8 Consensus size: 24
33366255 ATATATTTAG
* *
33366265 TAAATAAATTTTTTATTAAATAATA
1 TAAATATA-TTTTTATTAAATAAAA
*
33366290 TAAATTATTATTTTATATTAATTAAAA
1 TAAA-TA-TATTTT-TATTAAATAAAA
*
33366317 TTAATATATTTTTATTAAA
1 TAAATATATTTTTATTAAA
33366336 ATATATATTA
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
24 6 0.16
25 10 0.26
26 8 0.21
27 14 0.37
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (24 bp):
TAAATATATTTTTATTAAATAAAA
Found at i:33366345 original size:26 final size:24
Alignment explanation
Indices: 33366274--33366351 Score: 84
Period size: 26 Copynumber: 3.0 Consensus size: 24
33366264 GTAAATAAAT
*
33366274 TTTTTATTAAATAATATAAATTATTA
1 TTTTTATTAAATAATATTAA-TA-TA
* *
33366300 TTTTATATTAATTAAAATTAATATA
1 TTTT-TATTAAATAATATTAATATA
33366325 TTTTTATTAAAATATATATTAATATA
1 TTTTTATT-AAATA-ATATTAATATA
33366351 T
1 T
33366352 ATATTTATAA
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
24 4 0.09
25 10 0.23
26 17 0.39
27 13 0.30
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (24 bp):
TTTTTATTAAATAATATTAATATA
Found at i:33367090 original size:42 final size:42
Alignment explanation
Indices: 33367042--33367121 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 42
33367032 AATTTATATT
* *
33367042 TCAATTAAGGCATTTGACATGAAAAAACGCCTTAATTGTAGA
1 TCAATTAAGGCATTTGACATAAAAAAAAGCCTTAATTGTAGA
* * * *
33367084 TCAATTATGGCGTTTGGCTTAAAAAAAAGCCTTAATTG
1 TCAATTAAGGCATTTGACATAAAAAAAAGCCTTAATTG
33367122 ATGATTTAAG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 32 1.00
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (42 bp):
TCAATTAAGGCATTTGACATAAAAAAAAGCCTTAATTGTAGA
Found at i:33373998 original size:30 final size:30
Alignment explanation
Indices: 33373963--33374020 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
33373953 TGATCTGTAT
33373963 TAAAAGTTTATTTAGATATAAATTAAAAGA
1 TAAAAGTTTATTTAGATATAAATTAAAAGA
*
33373993 TAAAAGTTTATTTGGATATAAATTAAAA
1 TAAAAGTTTATTTAGATATAAATTAAAA
33374021 TTTAGGGATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.38
Consensus pattern (30 bp):
TAAAAGTTTATTTAGATATAAATTAAAAGA
Found at i:33374072 original size:29 final size:29
Alignment explanation
Indices: 33373969--33374068 Score: 85
Period size: 30 Copynumber: 3.4 Consensus size: 29
33373959 GTATTAAAAG
*
33373969 TTTATTTAGATATAAATTAAAAGATAAAA
1 TTTATTTAGATATAAATTAAAAGATAAGA
* ** *
33373998 GTTTATTTGGATATAAATTAAAATTTAGGGA
1 -TTTATTTAGATATAAATTAAAAGATA-AGA
* * * *
33374029 TTTATTTGGGTGTAAATT-AAAGGTAATGA
1 TTTATTTAGATATAAATTAAAAGATAA-GA
33374058 TTTATTTAGAT
1 TTTATTTAGAT
33374069 GTAATAAAAT
Statistics
Matches: 56, Mismatches: 12, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
29 16 0.29
30 39 0.70
31 1 0.02
ACGTcount: A:0.41, C:0.00, G:0.16, T:0.43
Consensus pattern (29 bp):
TTTATTTAGATATAAATTAAAAGATAAGA
Found at i:33374627 original size:2 final size:2
Alignment explanation
Indices: 33374620--33374689 Score: 117
Period size: 2 Copynumber: 35.5 Consensus size: 2
33374610 AGATTTTGTT
33374620 TA TA TA TA TA TA TA TA -A TA TA TA TA TA T- TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
33374660 TA TA TA TA TA TA TA TA TA TA TA TA CTA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA -TA TA T
33374690 TTACTCCACT
Statistics
Matches: 65, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
1 2 0.03
2 61 0.94
3 2 0.03
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:33376938 original size:282 final size:282
Alignment explanation
Indices: 33376434--33376997 Score: 1128
Period size: 282 Copynumber: 2.0 Consensus size: 282
33376424 ATAAAATCCT
33376434 CTCAATTAGTTCAATTAGTGGCGGGACCCTACTAAATTATGTCTCTGGATGATATGTGGTTCATG
1 CTCAATTAGTTCAATTAGTGGCGGGACCCTACTAAATTATGTCTCTGGATGATATGTGGTTCATG
33376499 ATTAAGCTTCGGGATAACAACATTTGTTAGTTGGTTTTGCCTGTGGGAAAGCATTTGTTAATTGT
66 ATTAAGCTTCGGGATAACAACATTTGTTAGTTGGTTTTGCCTGTGGGAAAGCATTTGTTAATTGT
33376564 TTGAAAATAAGAGTCGAATGGGATATTCTTAGAGAAGTGGACCATCCCCATTTTGGACTCTTTCC
131 TTGAAAATAAGAGTCGAATGGGATATTCTTAGAGAAGTGGACCATCCCCATTTTGGACTCTTTCC
33376629 TAGCCGGACTCGGTTACCAAGCTTATCAAACGACTTGATGATCCCTGTCGGGTCCCTTGTTTCTA
196 TAGCCGGACTCGGTTACCAAGCTTATCAAACGACTTGATGATCCCTGTCGGGTCCCTTGTTTCTA
33376694 CCATGCGTGAGGAACACTCAGG
261 CCATGCGTGAGGAACACTCAGG
33376716 CTCAATTAGTTCAATTAGTGGCGGGACCCTACTAAATTATGTCTCTGGATGATATGTGGTTCATG
1 CTCAATTAGTTCAATTAGTGGCGGGACCCTACTAAATTATGTCTCTGGATGATATGTGGTTCATG
33376781 ATTAAGCTTCGGGATAACAACATTTGTTAGTTGGTTTTGCCTGTGGGAAAGCATTTGTTAATTGT
66 ATTAAGCTTCGGGATAACAACATTTGTTAGTTGGTTTTGCCTGTGGGAAAGCATTTGTTAATTGT
33376846 TTGAAAATAAGAGTCGAATGGGATATTCTTAGAGAAGTGGACCATCCCCATTTTGGACTCTTTCC
131 TTGAAAATAAGAGTCGAATGGGATATTCTTAGAGAAGTGGACCATCCCCATTTTGGACTCTTTCC
33376911 TAGCCGGACTCGGTTACCAAGCTTATCAAACGACTTGATGATCCCTGTCGGGTCCCTTGTTTCTA
196 TAGCCGGACTCGGTTACCAAGCTTATCAAACGACTTGATGATCCCTGTCGGGTCCCTTGTTTCTA
33376976 CCATGCGTGAGGAACACTCAGG
261 CCATGCGTGAGGAACACTCAGG
33376998 AGTAAACTAG
Statistics
Matches: 282, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
282 282 1.00
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.33
Consensus pattern (282 bp):
CTCAATTAGTTCAATTAGTGGCGGGACCCTACTAAATTATGTCTCTGGATGATATGTGGTTCATG
ATTAAGCTTCGGGATAACAACATTTGTTAGTTGGTTTTGCCTGTGGGAAAGCATTTGTTAATTGT
TTGAAAATAAGAGTCGAATGGGATATTCTTAGAGAAGTGGACCATCCCCATTTTGGACTCTTTCC
TAGCCGGACTCGGTTACCAAGCTTATCAAACGACTTGATGATCCCTGTCGGGTCCCTTGTTTCTA
CCATGCGTGAGGAACACTCAGG
Found at i:33388085 original size:27 final size:26
Alignment explanation
Indices: 33388045--33388095 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
33388035 GTCGAAAATC
*
33388045 AAGCAGAGAAAGAAGAAAAGCCAAGAA
1 AAGCAGAGAAAGAA-AAAAGACAAGAA
*
33388072 AAGCAGAGAGAGAAAAAAGACAAG
1 AAGCAGAGAAAGAAAAAAGACAAG
33388096 GGAGAGTTGG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 9 0.41
27 13 0.59
ACGTcount: A:0.63, C:0.10, G:0.27, T:0.00
Consensus pattern (26 bp):
AAGCAGAGAAAGAAAAAAGACAAGAA
Found at i:33397542 original size:7 final size:7
Alignment explanation
Indices: 33397530--33397559 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
33397520 AAAAAAATTA
33397530 TTTTTAT
1 TTTTTAT
33397537 TTTTTAT
1 TTTTTAT
33397544 TTTTTAT
1 TTTTTAT
33397551 TTTTT-T
1 TTTTTAT
33397557 TTT
1 TTT
33397560 AAAATAAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.17
7 19 0.83
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (7 bp):
TTTTTAT
Found at i:33405217 original size:30 final size:30
Alignment explanation
Indices: 33405142--33405255 Score: 121
Period size: 31 Copynumber: 3.8 Consensus size: 30
33405132 AAAAGTCTTG
*
33405142 AATTTTATAATTT-TATTTAGATAAATTTTT
1 AATTTT-TAATTTATATTTAAATAAATTTTT
33405172 ATATTTTT-A-TTATATTTAAATAAATTTTT
1 A-ATTTTTAATTTATATTTAAATAAATTTTT
33405201 AATTTTTAATTTATATTTATAGA-AAATTTTT
1 AATTTTTAATTTATATTTA-A-ATAAATTTTT
* *
33405232 -ATCTTTTAATTTGTATGTAAATAA
1 AAT-TTTTAATTTATATTTAAATAA
33405256 GTCGTTAAAA
Statistics
Matches: 73, Mismatches: 3, Indels: 16
0.79 0.03 0.17
Matches are distributed among these distances:
28 8 0.11
29 20 0.27
30 16 0.22
31 28 0.38
32 1 0.01
ACGTcount: A:0.38, C:0.01, G:0.04, T:0.58
Consensus pattern (30 bp):
AATTTTTAATTTATATTTAAATAAATTTTT
Found at i:33405343 original size:12 final size:12
Alignment explanation
Indices: 33405326--33405350 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
33405316 ATAAAGATTT
33405326 ATTAAAATATAA
1 ATTAAAATATAA
33405338 ATTAAAATATAA
1 ATTAAAATATAA
33405350 A
1 A
33405351 AATAAAAAAA
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
ATTAAAATATAA
Found at i:33406725 original size:3 final size:3
Alignment explanation
Indices: 33406717--33406748 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
33406707 GTATCCTTGG
*
33406717 GAA GAA GAA GAA GAA GAA GAA GAA AAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
33406749 GAAACAACAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:33421853 original size:93 final size:94
Alignment explanation
Indices: 33421744--33421925 Score: 251
Period size: 94 Copynumber: 1.9 Consensus size: 94
33421734 GAAATAAAAT
* * *
33421744 TTTATTTCAAACAAAAAATTAATTTATACTAA-AATTTATTTGAATATAAATT-AAATTTTAAGT
1 TTTATTTCAAACAAAAAATTAATTTATACTAAGAATTTATTTAAACATAAATTAAAATTTAAAG-
33421807 ATTTATTTAAATACAAAATAAAATTAAGAG
65 ATTTATTTAAATACAAAATAAAATTAAGAG
* ** * *
33421837 TTTATTTCAAATAAAAAATTAATTTATGTTAAGATTTTGTTTAAACATAAATTAAAATTTAAAGA
1 TTTATTTCAAACAAAAAATTAATTTATACTAAGAATTTATTTAAACATAAATTAAAATTTAAAGA
* *
33421902 TTTATTTAAATATAAATTAAAATT
66 TTTATTTAAATACAAAATAAAATT
33421926 TAAAAGCTTA
Statistics
Matches: 77, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
93 29 0.38
94 39 0.51
95 9 0.12
ACGTcount: A:0.49, C:0.03, G:0.04, T:0.43
Consensus pattern (94 bp):
TTTATTTCAAACAAAAAATTAATTTATACTAAGAATTTATTTAAACATAAATTAAAATTTAAAGA
TTTATTTAAATACAAAATAAAATTAAGAG
Found at i:33421929 original size:30 final size:30
Alignment explanation
Indices: 33421773--33421929 Score: 135
Period size: 30 Copynumber: 5.1 Consensus size: 30
33421763 TAATTTATAC
*
33421773 TAAA-ATTTATTTGAATATAAATT-AAATT
1 TAAAGATTTATTTAAATATAAATTAAAATT
* * *
33421801 TTAAGTATTTATTTAAATACAAAATAAAA-T
1 TAAAG-ATTTATTTAAATATAAATTAAAATT
* *
33421831 T-AAGAGTTTATTTCAAATAAAAAATTAATTTATGT
1 TAAAGA-TTTATTT-AAAT-ATAAATTAA--AAT-T
* *
33421866 T-AAGATTTTGTTTAAACATAAATTAAAATT
1 TAAAGA-TTTATTTAAATATAAATTAAAATT
33421896 TAAAGATTTATTTAAATATAAATTAAAATT
1 TAAAGATTTATTTAAATATAAATTAAAATT
33421926 TAAA
1 TAAA
33421930 AGCTTATATA
Statistics
Matches: 104, Mismatches: 14, Indels: 20
0.75 0.10 0.14
Matches are distributed among these distances:
28 4 0.04
29 10 0.10
30 50 0.48
31 16 0.15
33 9 0.09
34 3 0.03
35 12 0.12
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43
Consensus pattern (30 bp):
TAAAGATTTATTTAAATATAAATTAAAATT
Found at i:33422192 original size:30 final size:27
Alignment explanation
Indices: 33422158--33422225 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 27
33422148 AATAAAATAT
*
33422158 TTAATGTAATATTTAAATTTAAAAAATTTG
1 TTAAT-TAATATTTAAA-TT-AAAAATTTA
* *
33422188 TTAA-TAATATATAAATTATAAATTTA
1 TTAATTAATATTTAAATTAAAAATTTA
33422214 TTAATTAATATT
1 TTAATTAATATT
33422226 ATACTTACTT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
26 11 0.33
27 8 0.24
28 10 0.30
30 4 0.12
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (27 bp):
TTAATTAATATTTAAATTAAAAATTTA
Found at i:33422343 original size:20 final size:20
Alignment explanation
Indices: 33422303--33422354 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
33422293 AAAATTTAAA
*
33422303 TTTAAATATTATATAAAATT
1 TTTAAAAATTATATAAAATT
* *
33422323 TTTAAAAATTATTTAATATT
1 TTTAAAAATTATATAAAATT
*
33422343 TATTATAAATTA
1 T-TTAAAAATTA
33422355 AAATCATTCG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 18 0.67
21 9 0.33
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
TTTAAAAATTATATAAAATT
Found at i:33425802 original size:46 final size:46
Alignment explanation
Indices: 33425749--33425842 Score: 188
Period size: 46 Copynumber: 2.0 Consensus size: 46
33425739 AAAATATATA
33425749 TATAATGACTAAGCCAAGCTGGTTTGTGTTTTTTCTTTTTTATGTC
1 TATAATGACTAAGCCAAGCTGGTTTGTGTTTTTTCTTTTTTATGTC
33425795 TATAATGACTAAGCCAAGCTGGTTTGTGTTTTTTCTTTTTTATGTC
1 TATAATGACTAAGCCAAGCTGGTTTGTGTTTTTTCTTTTTTATGTC
33425841 TA
1 TA
33425843 GTTTTGGAAG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.20, C:0.13, G:0.17, T:0.50
Consensus pattern (46 bp):
TATAATGACTAAGCCAAGCTGGTTTGTGTTTTTTCTTTTTTATGTC
Found at i:33438631 original size:23 final size:24
Alignment explanation
Indices: 33438587--33438631 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
33438577 GGACATCAAG
*
33438587 AAACAGGCAAAAAACAACCAAAGA
1 AAACAGGCAAAAAACAAACAAAGA
* *
33438611 AAACAGG-AAAGAAGAAACAAA
1 AAACAGGCAAAAAACAAACAAA
33438632 TGGACTTCAC
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 11 0.61
24 7 0.39
ACGTcount: A:0.69, C:0.16, G:0.16, T:0.00
Consensus pattern (24 bp):
AAACAGGCAAAAAACAAACAAAGA
Found at i:33454970 original size:26 final size:26
Alignment explanation
Indices: 33454930--33454990 Score: 88
Period size: 26 Copynumber: 2.3 Consensus size: 26
33454920 CAAATATTTC
*
33454930 TTTTTTTTTTGTTTTCTATTTTAATAA
1 TTTTTATTTTGTTTTCTATTTTAAT-A
33454957 TTTTTATTTT-TTTTCTATTTTAATA
1 TTTTTATTTTGTTTTCTATTTTAATA
*
33454982 TTTTGATTT
1 TTTTTATTT
33454991 GATGCTTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
25 9 0.28
26 14 0.44
27 9 0.28
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.75
Consensus pattern (26 bp):
TTTTTATTTTGTTTTCTATTTTAATA
Found at i:33456727 original size:17 final size:18
Alignment explanation
Indices: 33456707--33456740 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
33456697 TTAATTTAAA
*
33456707 ATTTTAATAAAT-TAATC
1 ATTTTAAAAAATATAATC
33456724 ATTTTAAAAAATATAAT
1 ATTTTAAAAAATATAAT
33456741 TTTTTCTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (18 bp):
ATTTTAAAAAATATAATC
Found at i:33456759 original size:7 final size:7
Alignment explanation
Indices: 33456747--33456772 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
33456737 TAATTTTTTC
33456747 TCAAATT
1 TCAAATT
33456754 TCAAATT
1 TCAAATT
33456761 TCAAATT
1 TCAAATT
33456768 TCAAA
1 TCAAA
33456773 AGCTATGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (7 bp):
TCAAATT
Found at i:33471840 original size:30 final size:30
Alignment explanation
Indices: 33471784--33471841 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
33471774 AACTCTTGGT
* **
33471784 ATAATTATTTGACCCAGAGGTTACAAAAGC
1 ATAATTATTTAACCCAGAGGAAACAAAAGC
*
33471814 ATAATTATTTAACCCAGATGAAACAAAA
1 ATAATTATTTAACCCAGAGGAAACAAAA
33471842 AGAGGCCAAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.47, C:0.16, G:0.12, T:0.26
Consensus pattern (30 bp):
ATAATTATTTAACCCAGAGGAAACAAAAGC
Found at i:33474818 original size:19 final size:19
Alignment explanation
Indices: 33474794--33474830 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
33474784 TTTATCCATC
33474794 ATTTTAGGTATCAAATATT
1 ATTTTAGGTATCAAATATT
* *
33474813 ATTTTATGTATTAAATAT
1 ATTTTAGGTATCAAATAT
33474831 GATCTTAAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.08, T:0.51
Consensus pattern (19 bp):
ATTTTAGGTATCAAATATT
Found at i:33483056 original size:13 final size:13
Alignment explanation
Indices: 33483040--33483064 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33483030 AAATTGAACT
33483040 TTTATTTTGATTC
1 TTTATTTTGATTC
33483053 TTTATTTTGATT
1 TTTATTTTGATT
33483065 AATCAAATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.04, G:0.08, T:0.72
Consensus pattern (13 bp):
TTTATTTTGATTC
Found at i:33483084 original size:27 final size:27
Alignment explanation
Indices: 33483053--33483136 Score: 104
Period size: 27 Copynumber: 3.2 Consensus size: 27
33483043 ATTTTGATTC
33483053 TTTATTTTGATTAATCAAATTTTTAAT
1 TTTATTTTGATTAATCAAATTTTTAAT
* *
33483080 TTTATATTTCG--TAATTAAA-CTTT-AT
1 TTTAT-TTT-GATTAATCAAATTTTTAAT
33483105 TTTATTTTGATTAATCAAATTTTTAAT
1 TTTATTTTGATTAATCAAATTTTTAAT
33483132 TTTAT
1 TTTAT
33483137 ATTTCGTAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
23 1 0.02
24 3 0.06
25 14 0.30
26 6 0.13
27 19 0.40
28 3 0.06
29 1 0.02
ACGTcount: A:0.32, C:0.05, G:0.04, T:0.60
Consensus pattern (27 bp):
TTTATTTTGATTAATCAAATTTTTAAT
Found at i:33483125 original size:52 final size:52
Alignment explanation
Indices: 33483053--33483154 Score: 204
Period size: 52 Copynumber: 2.0 Consensus size: 52
33483043 ATTTTGATTC
33483053 TTTATTTTGATTAATCAAATTTTTAATTTTATATTTCGTAATTAAACTTTAT
1 TTTATTTTGATTAATCAAATTTTTAATTTTATATTTCGTAATTAAACTTTAT
33483105 TTTATTTTGATTAATCAAATTTTTAATTTTATATTTCGTAATTAAACTTT
1 TTTATTTTGATTAATCAAATTTTTAATTTTATATTTCGTAATTAAACTTT
33483155 TAATTTGATG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.32, C:0.06, G:0.04, T:0.58
Consensus pattern (52 bp):
TTTATTTTGATTAATCAAATTTTTAATTTTATATTTCGTAATTAAACTTTAT
Found at i:33483146 original size:27 final size:27
Alignment explanation
Indices: 33483064--33483160 Score: 112
Period size: 27 Copynumber: 3.7 Consensus size: 27
33483054 TTATTTTGAT
33483064 TAATCAAATTTTTAATTTTATATTTCG
1 TAATCAAATTTTTAATTTTATATTTCG
* *
33483091 TAATTAAA-CTTT-ATTTTAT-TTT-G
1 TAATCAAATTTTTAATTTTATATTTCG
33483114 ATTAATCAAATTTTTAATTTTATATTTCG
1 --TAATCAAATTTTTAATTTTATATTTCG
* *
33483143 TAATTAAACTTTTAATTT
1 TAATCAAATTTTTAATTT
33483161 GATGAAATCT
Statistics
Matches: 58, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
23 1 0.02
24 3 0.05
25 14 0.24
26 6 0.10
27 30 0.52
28 3 0.05
29 1 0.02
ACGTcount: A:0.34, C:0.06, G:0.03, T:0.57
Consensus pattern (27 bp):
TAATCAAATTTTTAATTTTATATTTCG
Found at i:33483182 original size:52 final size:49
Alignment explanation
Indices: 33483053--33483169 Score: 119
Period size: 52 Copynumber: 2.3 Consensus size: 49
33483043 ATTTTGATTC
* * **
33483053 TTTATTTTGATTAATCAAATTTTTAATTTTATATTTCGTAATTAAACTTTAT
1 TTTAATTTGATAAATCAAAGATTTAATTTTATATTTCGTAATTAAAC--T-T
* * **
33483105 TTTATTTTGATTAATCAAATTTTTAATTTTATATTTCGTAATTAAAC-T
1 TTTAATTTGATAAATCAAAGATTTAATTTTATATTTCGTAATTAAACTT
33483153 TTTAATTTGATGAAATC
1 TTTAATTTGAT-AAATC
33483170 TAATACGATT
Statistics
Matches: 62, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
48 11 0.18
49 4 0.06
52 47 0.76
ACGTcount: A:0.33, C:0.06, G:0.05, T:0.56
Consensus pattern (49 bp):
TTTAATTTGATAAATCAAAGATTTAATTTTATATTTCGTAATTAAACTT
Found at i:33483194 original size:21 final size:22
Alignment explanation
Indices: 33483165--33483208 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
33483155 TAATTTGATG
*
33483165 AAATCTAATACGATTTAA-AATT
1 AAATCTAAT-CAATTTAAGAATT
33483187 AAAT-TAATCAATTTAAGAATT
1 AAATCTAATCAATTTAAGAATT
33483208 A
1 A
33483209 TAGTCAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 7 0.35
21 9 0.45
22 4 0.20
ACGTcount: A:0.52, C:0.07, G:0.05, T:0.36
Consensus pattern (22 bp):
AAATCTAATCAATTTAAGAATT
Found at i:33483573 original size:27 final size:28
Alignment explanation
Indices: 33483509--33483567 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 28
33483499 TATTTTATAA
*
33483509 TAATAC-ATAAAAAGTATGTATAATTTTT
1 TAATACAATTAAAAGTATGTAT-ATTTTT
33483537 TAATACAATTAAAAG-ATGTAT-TTTTGT
1 TAATACAATTAAAAGTATGTATATTTT-T
33483564 TAAT
1 TAAT
33483568 TAAATTTTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
26 4 0.14
27 5 0.18
28 12 0.43
29 7 0.25
ACGTcount: A:0.44, C:0.03, G:0.08, T:0.44
Consensus pattern (28 bp):
TAATACAATTAAAAGTATGTATATTTTT
Found at i:33487604 original size:132 final size:132
Alignment explanation
Indices: 33487365--33487627 Score: 472
Period size: 132 Copynumber: 2.0 Consensus size: 132
33487355 TCCGTTAGTT
*
33487365 AAAAAATAAGTAAATTATCGGACTAGTTCCCAGTGGAAATTTGTTTGCAGAATGGAGGGTATTTT
1 AAAAAATAAGTAAATTATCCGACTAGTTCCCAGTGGAAATTTGTTTGCAGAATGGAGGGTATTTT
* * *
33487430 AGGGGATTTATACCAGCCACACTCTTTCAGCATTCGGGTTTGACTTTGACCACCAATGGTATTTT
66 AGGGGATTTATACCACCCACACGCTTTCAGCATTCAGGTTTGACTTTGACCACCAATGGTATTTT
33487495 TA
131 TA
*
33487497 AAAAAATAAGTAAATTATCCGACTGGTTCCCAGTGGAAATTTGTTTGCAGAATGGAGGGTATTTT
1 AAAAAATAAGTAAATTATCCGACTAGTTCCCAGTGGAAATTTGTTTGCAGAATGGAGGGTATTTT
*
33487562 AGGGGATTTATACCACCCACACGCTTTCAGCATTCAGTTTTGACTTTGACCACCAATGGTATTTT
66 AGGGGATTTATACCACCCACACGCTTTCAGCATTCAGGTTTGACTTTGACCACCAATGGTATTTT
33487627 T
131 T
33487628 TCTTCATTTC
Statistics
Matches: 125, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
132 125 1.00
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (132 bp):
AAAAAATAAGTAAATTATCCGACTAGTTCCCAGTGGAAATTTGTTTGCAGAATGGAGGGTATTTT
AGGGGATTTATACCACCCACACGCTTTCAGCATTCAGGTTTGACTTTGACCACCAATGGTATTTT
TA
Found at i:33488204 original size:17 final size:17
Alignment explanation
Indices: 33488184--33488227 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 17
33488174 TAAAAAATTA
33488184 AAAAATTTATTTATTT-T
1 AAAAATTTATTT-TTTAT
33488201 -AAAATTTATTTTTTAT
1 AAAAATTTATTTTTTAT
*
33488217 AAAAATATATT
1 AAAAATTTATT
33488228 AAATTATCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 3 0.12
16 12 0.50
17 9 0.38
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
AAAAATTTATTTTTTAT
Found at i:33488333 original size:19 final size:18
Alignment explanation
Indices: 33488309--33488347 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
33488299 CATCGTAATT
*
33488309 AACAAAAAAACCCTTTACC
1 AACAAAAAAACACTTT-CC
*
33488328 AACAAACAAACACTTTCC
1 AACAAAAAAACACTTTCC
33488346 AA
1 AA
33488348 AGAAATGCGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.54, C:0.31, G:0.00, T:0.15
Consensus pattern (18 bp):
AACAAAAAAACACTTTCC
Found at i:33491116 original size:16 final size:17
Alignment explanation
Indices: 33491085--33491124 Score: 73
Period size: 16 Copynumber: 2.4 Consensus size: 17
33491075 TAAGATCATT
33491085 TATTTATATGAAAAAAA
1 TATTTATATGAAAAAAA
33491102 TATTTATAT-AAAAAAA
1 TATTTATATGAAAAAAA
33491118 TATTTAT
1 TATTTAT
33491125 TTATATCATT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 14 0.61
17 9 0.39
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (17 bp):
TATTTATATGAAAAAAA
Found at i:33497466 original size:161 final size:162
Alignment explanation
Indices: 33497200--33497523 Score: 587
Period size: 161 Copynumber: 2.0 Consensus size: 162
33497190 CTCTATCAAT
*
33497200 TATTGTTTATTGGTTATAGGTGAGGCATTTTGGGTTATTTTTAGTGTTTGGTTGGTAATTGAATG
1 TATTGTTTATTGGTTATAGGTGAGGCATTTTGGGTTAGTTTTAGTGTTTGGTTGGTAATTGAATG
* *
33497265 TGTTGGTTTCAGGTAAGGTCTAATATTGAAAACGATGGTGGTTTTGAGAAACTGTCTAAACCTTT
66 TGTTGGTTTCAAGTAAGGTCCAATATTGAAAACGATGGTGGTTTTGAGAAACTGTCTAAACCTTT
33497330 TGTTTTCAAATTCAAGGGATAATTCATGTAAC
131 TGTTTTCAAATTCAAGGGATAATTCATGTAAC
*
33497362 TATTGTTTATTGGTTATAGGTGAGGCATTTTGGG-TGGTTTTAGTGTTTGGTTGGTAATTGAATG
1 TATTGTTTATTGGTTATAGGTGAGGCATTTTGGGTTAGTTTTAGTGTTTGGTTGGTAATTGAATG
**
33497426 TGTTGGTTTCAAGTAAGGTCCAATATTGAAAGTGATGGTGGTTTTGAGAAACTGTCTAAACCTTT
66 TGTTGGTTTCAAGTAAGGTCCAATATTGAAAACGATGGTGGTTTTGAGAAACTGTCTAAACCTTT
33497491 TGTTTTCAAATTCAAGGGATAATTCATGTAAC
131 TGTTTTCAAATTCAAGGGATAATTCATGTAAC
33497523 T
1 T
33497524 TAGCCTATCT
Statistics
Matches: 156, Mismatches: 6, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
161 122 0.78
162 34 0.22
ACGTcount: A:0.25, C:0.07, G:0.25, T:0.42
Consensus pattern (162 bp):
TATTGTTTATTGGTTATAGGTGAGGCATTTTGGGTTAGTTTTAGTGTTTGGTTGGTAATTGAATG
TGTTGGTTTCAAGTAAGGTCCAATATTGAAAACGATGGTGGTTTTGAGAAACTGTCTAAACCTTT
TGTTTTCAAATTCAAGGGATAATTCATGTAAC
Found at i:33504709 original size:2 final size:2
Alignment explanation
Indices: 33504702--33504742 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
33504692 TTATTCAGTT
33504702 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
33504743 GCACTTTGCC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:33511879 original size:21 final size:21
Alignment explanation
Indices: 33511855--33511994 Score: 75
Period size: 21 Copynumber: 6.5 Consensus size: 21
33511845 AAGAACTGCT
*
33511855 GGTGGTGGAGAGTGAACTGGA
1 GGTGGTGGAGAGTAAACTGGA
* * * *
33511876 GGTGGCGGAGAACT-TACTGGT
1 GGTGGTGGAG-AGTAAACTGGA
* ** *
33511897 GGTGGAGGAGAGTGTACAGGTGGT
1 GGTGGTGGAGA--GTA-AACTGGA
*
33511921 GGTGGTGGTGAGTAAACTGGA
1 GGTGGTGGAGAGTAAACTGGA
* *** * *
33511942 GGTGGCGGAGAACCAATTGGT
1 GGTGGTGGAGAGTAAACTGGA
*
33511963 GGTGGTGGTGAGTAAACTGGA
1 GGTGGTGGAGAGTAAACTGGA
*
33511984 GGTGGAGGAGA
1 GGTGGTGGAGA
33511995 ACTAATTGAT
Statistics
Matches: 84, Mismatches: 30, Indels: 10
0.68 0.24 0.08
Matches are distributed among these distances:
20 1 0.01
21 64 0.76
22 6 0.07
24 13 0.15
ACGTcount: A:0.23, C:0.07, G:0.49, T:0.21
Consensus pattern (21 bp):
GGTGGTGGAGAGTAAACTGGA
Found at i:33511976 original size:42 final size:42
Alignment explanation
Indices: 33511917--33512012 Score: 156
Period size: 42 Copynumber: 2.3 Consensus size: 42
33511907 AGTGTACAGG
*
33511917 TGGTGGTGGTGGTGAGTAAACTGGAGGTGGCGGAGAACCAAT
1 TGGTGGTGGTGGTGAGTAAACTGGAGGTGGAGGAGAACCAAT
*
33511959 TGGTGGTGGTGGTGAGTAAACTGGAGGTGGAGGAGAACTAAT
1 TGGTGGTGGTGGTGAGTAAACTGGAGGTGGAGGAGAACCAAT
* *
33512001 TGATGATGGTGG
1 TGGTGGTGGTGG
33512013 AGAATGGACT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.24, C:0.06, G:0.46, T:0.24
Consensus pattern (42 bp):
TGGTGGTGGTGGTGAGTAAACTGGAGGTGGAGGAGAACCAAT
Found at i:33511988 original size:66 final size:66
Alignment explanation
Indices: 33511854--33511988 Score: 171
Period size: 66 Copynumber: 2.0 Consensus size: 66
33511844 AAAGAACTGC
* ** ** *
33511854 TGGTGGTGGAGAGTGAACTGGAGGTGGCGGAGAACTTACTGGTGGTGGAGGAGAGTGTACAGGTG
1 TGGTGGTGGAGAGTAAACTGGAGGTGGCGGAGAACCAACTGGTGGTGGAGGAGAGTAAACAGGAG
33511919 G
66 G
* * * * *
33511920 TGGTGGTGGTGAGTAAACTGGAGGTGGCGGAGAACCAATTGGTGGTGGTGGTGAGTAAACTGGAG
1 TGGTGGTGGAGAGTAAACTGGAGGTGGCGGAGAACCAACTGGTGGTGGAGGAGAGTAAACAGGAG
33511985 G
66 G
33511986 TGG
1 TGG
33511989 AGGAGAACTA
Statistics
Matches: 58, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
66 58 1.00
ACGTcount: A:0.21, C:0.07, G:0.49, T:0.22
Consensus pattern (66 bp):
TGGTGGTGGAGAGTAAACTGGAGGTGGCGGAGAACCAACTGGTGGTGGAGGAGAGTAAACAGGAG
G
Found at i:33512032 original size:21 final size:21
Alignment explanation
Indices: 33512008--33512129 Score: 50
Period size: 21 Copynumber: 5.7 Consensus size: 21
33511998 AATTGATGAT
33512008 GGTGGAGAATGGACTGGTGGA
1 GGTGGAGAATGGACTGGTGGA
* * * *
33512029 GGTGAAGAGTGTACAGGTGGTA
1 GGTGGAGAATGGACTGGTGG-A
* * * *
33512051 -GTGGTGAGTGTACTGGGGGTA
1 GGTGGAGAATGGACTGGTGG-A
** *
33512072 -GTGGAGAATTTACTGCTGGTGGT
1 GGTGGAGAATGGA---CTGGTGGA
* * *
33512095 GGTGGAGAATAGACGGGTGGC
1 GGTGGAGAATGGACTGGTGGA
*
33512116 GGTGGTGAATGGAC
1 GGTGGAGAATGGAC
33512130 GAGATGTGAT
Statistics
Matches: 77, Mismatches: 19, Indels: 10
0.73 0.18 0.09
Matches are distributed among these distances:
21 60 0.78
22 1 0.01
24 16 0.21
ACGTcount: A:0.21, C:0.07, G:0.48, T:0.24
Consensus pattern (21 bp):
GGTGGAGAATGGACTGGTGGA
Found at i:33512130 original size:21 final size:21
Alignment explanation
Indices: 33512089--33512130 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
33512079 ATTTACTGCT
*
33512089 GGTGGTGGTGGAGAATAGACG
1 GGTGGCGGTGGAGAATAGACG
* *
33512110 GGTGGCGGTGGTGAATGGACG
1 GGTGGCGGTGGAGAATAGACG
33512131 AGATGTGATG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.19, C:0.07, G:0.55, T:0.19
Consensus pattern (21 bp):
GGTGGCGGTGGAGAATAGACG
Found at i:33512277 original size:21 final size:21
Alignment explanation
Indices: 33512253--33512356 Score: 73
Period size: 21 Copynumber: 5.0 Consensus size: 21
33512243 GAGAACTAAT
33512253 TGGTGGTGGTGGAGAATGGAC
1 TGGTGGTGGTGGAGAATGGAC
* * * * *
33512274 TGGTAGAGGTGGGGAGTGTAC
1 TGGTGGTGGTGGAGAATGGAC
* * ** *
33512295 AGGTGGTGGTGGTGAGCGTAC
1 TGGTGGTGGTGGAGAATGGAC
* *
33512316 TGGAGGTGGTGGAGAATAGAC
1 TGGTGGTGGTGGAGAATGGAC
* * *
33512337 GGGTGGCGGTGGTGAATGGA
1 TGGTGGTGGTGGAGAATGGA
33512357 TGAGAGGTGA
Statistics
Matches: 61, Mismatches: 22, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
21 61 1.00
ACGTcount: A:0.19, C:0.06, G:0.53, T:0.22
Consensus pattern (21 bp):
TGGTGGTGGTGGAGAATGGAC
Found at i:33512740 original size:81 final size:79
Alignment explanation
Indices: 33512638--33512924 Score: 310
Period size: 81 Copynumber: 3.6 Consensus size: 79
33512628 TTCTGGTTTT
* * *
33512638 GGCTCTGGAGATGGTTTTGGTTCAGGGGATTGTTCTTTTGGTGGTTGTGGTTTTGGTGTCGATTC
1 GGCTTTGGAGATGGTTTTGGTTCAGGGGATTGTTCTTTTGGTGGTTGTGGCTTTGGTGT-GGTTC
*
33512703 TGTTTTGGGTGACTGC
65 TGTTTTCGG-GACTGC
* *
33512719 TGCTTCGGAGATGGTTTTGGTTCAGGTGG-TTGTTCTTTTGGTGGTTGTGGCTTTGACGT-TGGT
1 GGCTTTGGAGATGGTTTTGGTTCAGG-GGATTGTTCTTTTGGTGGTTGTGGCTTTG--GTGTGGT
**
33512782 TCTGTTTTCGGCGGTTGC
63 TCTGTTTTCGG-GACTGC
* * * * * *
33512800 GGCTTTAGTGATGGTTTTGGTCCAGGCGATTGTTCTTTCGGTGGTTGTGCCTTTGGTGTGTGTTC
1 GGCTTTGGAGATGGTTTTGGTTCAGGGGATTGTTCTTTTGGTGGTTGTGGCTTTGGTGTG-GTTC
* *
33512865 TATTTTCGGCAGCTGC
65 TGTTTTCGGGA-CTGC
* *
33512881 GGCTTTGGTGATGGTTTTGGTT-GGGGAGATTGTTCTTTTGGTGG
1 GGCTTTGGAGATGGTTTTGGTTCAGGG-GATTGTTCTTTTGGTGG
33512925 CCGTGCCTGT
Statistics
Matches: 172, Mismatches: 26, Indels: 16
0.80 0.12 0.07
Matches are distributed among these distances:
79 2 0.01
80 5 0.03
81 160 0.93
82 3 0.02
83 2 0.01
ACGTcount: A:0.07, C:0.11, G:0.37, T:0.45
Consensus pattern (79 bp):
GGCTTTGGAGATGGTTTTGGTTCAGGGGATTGTTCTTTTGGTGGTTGTGGCTTTGGTGTGGTTCT
GTTTTCGGGACTGC
Found at i:33512959 original size:162 final size:162
Alignment explanation
Indices: 33512647--33512967 Score: 367
Period size: 162 Copynumber: 2.0 Consensus size: 162
33512637 TGGCTCTGGA
* * * ** * *
33512647 GATGGTTTTGGTTCAGGGGATTGTTCTTTTGGTGGTTGTGGTTTTGGTGTCGATTCTGTTTTGGG
1 GATGGTTTTGGTCCAGGCGATTGTTCTTTCGGTGGTTGTGCCTTTGGTGTCGATTCTATTTTGGC
* * * * ** * *
33512712 TGACTGCTGCTTCGGAGATGGTTTTGGTTCAGGTGGTTGTTCTTTTGGTGGTTGTGGCTTTGACG
66 AGACTGCGGCTTCGGAGATGGTTTTGGTTCAGGAGATTGTTCTTTTGGTGGCCGTGCCTGTGACG
* *
33512777 TTGGTTCTGTTTTCGGCGGTTGCGGCTTTAGT
131 TTGGCTCTATTTTCGGCGGTTGCGGCTTTAGT
*
33512809 GATGGTTTTGGTCCAGGCGATTGTTCTTTCGGTGGTTGTGCCTTTGGTGT-GTGTTCTATTTTCG
1 GATGGTTTTGGTCCAGGCGATTGTTCTTTCGGTGGTTGTGCCTTTGGTGTCG-ATTCTATTTT-G
* * ** *
33512873 GCAG-CTGCGGCTTTGGTGATGGTTTTGGTTGGGGAGATTGTTCTTTTGGTGGCCGTGCCTGTGG
64 GCAGACTGCGGCTTCGGAGATGGTTTTGGTTCAGGAGATTGTTCTTTTGGTGGCCGTGCCTGTGA
** * *
33512937 TTTTGGCTCTATTTTGGGCGGTTGTGGCTTT
129 CGTTGGCTCTATTTTCGGCGGTTGCGGCTTT
33512968 GATTGTTCTT
Statistics
Matches: 130, Mismatches: 27, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
161 1 0.01
162 126 0.97
163 3 0.02
ACGTcount: A:0.06, C:0.12, G:0.37, T:0.45
Consensus pattern (162 bp):
GATGGTTTTGGTCCAGGCGATTGTTCTTTCGGTGGTTGTGCCTTTGGTGTCGATTCTATTTTGGC
AGACTGCGGCTTCGGAGATGGTTTTGGTTCAGGAGATTGTTCTTTTGGTGGCCGTGCCTGTGACG
TTGGCTCTATTTTCGGCGGTTGCGGCTTTAGT
Found at i:33512966 original size:81 final size:80
Alignment explanation
Indices: 33512728--33512968 Score: 223
Period size: 81 Copynumber: 3.0 Consensus size: 80
33512718 CTGCTTCGGA
* * * * ** * * *
33512728 GATGGTTTTGGTTCAGGTGGTTGTTCTTTTGGTGGTTGTGGCTTTGACG-TTGGTTCTGTTTTCG
1 GATGGTTTTGGTCCAGGAGATTGTTCTTTCGGTGGCCGTGCCTGTG--GTTTGGTTCTATTTTCG
*
33512792 GCGGTTGCGGCTTTAGT
64 GCGGTTGCGGCTTTGGT
* ** * *
33512809 GATGGTTTTGGTCCAGGCGATTGTTCTTTCGGTGGTTGTGCCTTTGGTGTGTGTTCTATTTTCGG
1 GATGGTTTTGGTCCAGGAGATTGTTCTTTCGGTGGCCGTGCCTGTGGTTTG-GTTCTATTTTCGG
* *
33512874 CAGCTGCGGCTTTGGT
65 CGGTTGCGGCTTTGGT
*** * * *
33512890 GATGGTTTTGGTTGGGGAGATTGTTCTTTTGGTGGCCGTGCCTGTGGTTTTGGCTCTATTTTGGG
1 GATGGTTTTGGTCCAGGAGATTGTTCTTTCGGTGGCCGTGCCTGTGG-TTTGGTTCTATTTTCGG
*
33512955 CGGTTGTGGCTTTG
65 CGGTTGCGGCTTTG
33512969 ATTGTTCTTT
Statistics
Matches: 133, Mismatches: 24, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
79 1 0.01
80 2 0.02
81 127 0.95
82 3 0.02
ACGTcount: A:0.05, C:0.13, G:0.37, T:0.45
Consensus pattern (80 bp):
GATGGTTTTGGTCCAGGAGATTGTTCTTTCGGTGGCCGTGCCTGTGGTTTGGTTCTATTTTCGGC
GGTTGCGGCTTTGGT
Found at i:33512986 original size:27 final size:28
Alignment explanation
Indices: 33512948--33513008 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 28
33512938 TTTGGCTCTA
* *
33512948 TTTTGGGCGGTTGTGGCTTTGATTGTT-C
1 TTTTGGGCGGTTCTGGCTTTG-GTGTTGC
*
33512976 TTTTGGG-GGTTCTGGTTTTGGTGTTGC
1 TTTTGGGCGGTTCTGGCTTTGGTGTTGC
33513003 TTTTGG
1 TTTTGG
33513009 TGATGGAGGC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
26 4 0.14
27 18 0.62
28 7 0.24
ACGTcount: A:0.02, C:0.08, G:0.38, T:0.52
Consensus pattern (28 bp):
TTTTGGGCGGTTCTGGCTTTGGTGTTGC
Found at i:33517629 original size:11 final size:10
Alignment explanation
Indices: 33517610--33517653 Score: 54
Period size: 11 Copynumber: 4.3 Consensus size: 10
33517600 GTATATGAAT
33517610 TTTATTTAAA
1 TTTATTTAAA
33517620 TTTATATTAAA
1 TTTAT-TTAAA
33517631 TTTATTT-AA
1 TTTATTTAAA
*
33517640 TTATATTTTAA
1 TT-TATTTAAA
33517651 TTT
1 TTT
33517654 GTTAGATTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
9 4 0.13
10 13 0.42
11 14 0.45
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (10 bp):
TTTATTTAAA
Found at i:33517650 original size:21 final size:21
Alignment explanation
Indices: 33517601--33517646 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
33517591 TTTATAATCG
* *
33517601 TATATGAATTTTATTTAAATT
1 TATATTAAATTTATTTAAATT
33517622 TATATTAAATTTATTT-AA-T
1 TATATTAAATTTATTTAAATT
33517641 TATATT
1 TATATT
33517647 TTAATTTGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 7 0.30
20 2 0.09
21 14 0.61
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (21 bp):
TATATTAAATTTATTTAAATT
Found at i:33524598 original size:25 final size:24
Alignment explanation
Indices: 33524541--33524628 Score: 90
Period size: 25 Copynumber: 3.5 Consensus size: 24
33524531 ATTTAGTATA
* *
33524541 TAAATTTTTTATTAAAAT-ATTTTT
1 TAAA-TTTTAATTATAATAATTTTT
33524565 TAAATTTTAATTATAATAAATTTTT
1 TAAATTTTAATTATAAT-AATTTTT
33524590 T-AATATTTAATTATAATAATTTTAT
1 TAAAT-TTTAATTATAATAATTTT-T
33524615 TATAACTTTTAATT
1 TA-AA-TTTTAATT
33524629 TCATAAAAAG
Statistics
Matches: 55, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
23 11 0.20
24 13 0.24
25 21 0.38
27 9 0.16
28 1 0.02
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (24 bp):
TAAATTTTAATTATAATAATTTTT
Found at i:33524616 original size:14 final size:14
Alignment explanation
Indices: 33524567--33524619 Score: 58
Period size: 14 Copynumber: 3.9 Consensus size: 14
33524557 ATATTTTTTA
33524567 AATTTTAATTATAAT
1 AATTTT-ATTATAAT
*
33524582 AAATTT-TT-TAAT
1 AATTTTATTATAAT
*
33524594 -ATTTAATTATAAT
1 AATTTTATTATAAT
33524607 AATTTTATTATAA
1 AATTTTATTATAA
33524620 CTTTTAATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
11 3 0.10
12 6 0.19
13 6 0.19
14 11 0.35
15 5 0.16
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
AATTTTATTATAAT
Found at i:33524727 original size:24 final size:24
Alignment explanation
Indices: 33524700--33524747 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
33524690 ATAATAGTTA
33524700 TTATTATAATTATAATTAAAAAAT
1 TTATTATAATTATAATTAAAAAAT
*
33524724 TTATTATAATTATGATTAAAAAAT
1 TTATTATAATTATAATTAAAAAAT
33524748 CTTAATAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (24 bp):
TTATTATAATTATAATTAAAAAAT
Found at i:33524770 original size:14 final size:14
Alignment explanation
Indices: 33524733--33524785 Score: 58
Period size: 14 Copynumber: 3.8 Consensus size: 14
33524723 TTTATTATAA
33524733 TTATGATTAAAAAAT
1 TTAT-ATTAAAAAAT
33524748 CTTA-A-TAAAAAAT
1 -TTATATTAAAAAAT
33524761 TTATATTAAATAAAT
1 TTATATTAAA-AAAT
33524776 TT-TATTAAAA
1 TTATATTAAAA
33524786 TTAATATTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
12 3 0.09
13 10 0.29
14 12 0.35
15 6 0.18
16 3 0.09
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (14 bp):
TTATATTAAAAAAT
Found at i:33528685 original size:92 final size:92
Alignment explanation
Indices: 33528582--33528763 Score: 310
Period size: 92 Copynumber: 2.0 Consensus size: 92
33528572 TTATATATCA
33528582 TAGTATAAATTTTTTAAAATAAATATTTATTATTTAATTATTATATGTGATGTAAAATAATTAAT
1 TAGTATAAATTTTTTAAAATAAATATTTATTATTTAATTATTATATGTGATGTAAAATAATTAAT
*
33528647 TGACTTTATCTAATATAATTTGAATCT
66 TGACTTTATATAATATAATTTGAATCT
* * **
33528674 TAGTATGAATTTTTTAAAATAAATATTTATTATTTAATTATTCTATGTGATGTGTAATAATTAAT
1 TAGTATAAATTTTTTAAAATAAATATTTATTATTTAATTATTATATGTGATGTAAAATAATTAAT
*
33528739 TGATTTTATATAATATAATTTGAAT
66 TGACTTTATATAATATAATTTGAAT
33528764 GAAAGTGATA
Statistics
Matches: 84, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
92 84 1.00
ACGTcount: A:0.40, C:0.02, G:0.08, T:0.50
Consensus pattern (92 bp):
TAGTATAAATTTTTTAAAATAAATATTTATTATTTAATTATTATATGTGATGTAAAATAATTAAT
TGACTTTATATAATATAATTTGAATCT
Found at i:33537740 original size:2 final size:2
Alignment explanation
Indices: 33537733--33537762 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
33537723 TCAAAGACTA
33537733 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
33537763 GTCCAAGGCC
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:33539135 original size:2 final size:2
Alignment explanation
Indices: 33539128--33539155 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
33539118 TAAACGCGCA
33539128 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
33539156 TAAGAATGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:33542348 original size:13 final size:13
Alignment explanation
Indices: 33542325--33542357 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
33542315 GATTTGAAGG
33542325 AAGAA-AGAACAA
1 AAGAAGAGAACAA
*
33542337 GAGAAGAGAACAA
1 AAGAAGAGAACAA
33542350 AAGAAGAG
1 AAGAAGAG
33542358 CTTAAGACCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
12 4 0.22
13 14 0.78
ACGTcount: A:0.67, C:0.06, G:0.27, T:0.00
Consensus pattern (13 bp):
AAGAAGAGAACAA
Found at i:33546903 original size:4 final size:4
Alignment explanation
Indices: 33546894--33546919 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
33546884 GTTGATCCAG
33546894 TAAT TAAT TAAT TAAT TAAT TAAT TA
1 TAAT TAAT TAAT TAAT TAAT TAAT TA
33546920 TATCCCGCTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
TAAT
Found at i:33556755 original size:19 final size:20
Alignment explanation
Indices: 33556731--33556768 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
33556721 CAAAACTTTT
*
33556731 TTTTTCATCTTTTA-AAAGA
1 TTTTTCAACTTTTATAAAGA
33556750 TTTTTCAACTTTTATAAAG
1 TTTTTCAACTTTTATAAAG
33556769 CATCATTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.32, C:0.11, G:0.05, T:0.53
Consensus pattern (20 bp):
TTTTTCAACTTTTATAAAGA
Found at i:33564947 original size:19 final size:20
Alignment explanation
Indices: 33564923--33564960 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
33564913 CAAAACTTTT
33564923 TTTTTCACCTTTTA-AAAGA
1 TTTTTCACCTTTTATAAAGA
*
33564942 TTTTTCAGCTTTTATAAAG
1 TTTTTCACCTTTTATAAAG
33564961 CATCACTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.29, C:0.13, G:0.08, T:0.50
Consensus pattern (20 bp):
TTTTTCACCTTTTATAAAGA
Found at i:33578336 original size:12 final size:12
Alignment explanation
Indices: 33578319--33578352 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
33578309 TTAATTTTCT
33578319 TTTTTTTTTCAA
1 TTTTTTTTTCAA
*
33578331 TTTTTTTTTTAA
1 TTTTTTTTTCAA
*
33578343 GTTTTTTTTC
1 TTTTTTTTTC
33578353 TTTTTTTAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.12, C:0.06, G:0.03, T:0.79
Consensus pattern (12 bp):
TTTTTTTTTCAA
Found at i:33578336 original size:13 final size:13
Alignment explanation
Indices: 33578318--33578351 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
33578308 CTTAATTTTC
33578318 TTTTTTTTTTCAA-
1 TTTTTTTTTT-AAG
33578331 TTTTTTTTTTAAG
1 TTTTTTTTTTAAG
33578344 TTTTTTTT
1 TTTTTTTT
33578352 CTTTTTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 2 0.10
13 18 0.90
ACGTcount: A:0.12, C:0.03, G:0.03, T:0.82
Consensus pattern (13 bp):
TTTTTTTTTTAAG
Found at i:33585614 original size:29 final size:30
Alignment explanation
Indices: 33585582--33585650 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 30
33585572 CTCATTTTTT
*
33585582 GCCAACATTTCTAGTA-GACCT-CTTCATGA
1 GCCAACATTTCTAATATGACCTAC-TCATGA
*
33585611 GCCAATA-TTCTAATATGACCTACTCATGA
1 GCCAACATTTCTAATATGACCTACTCATGA
*
33585640 GCTAACATTTC
1 GCCAACATTTC
33585651 CAACATCAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
28 7 0.21
29 22 0.67
30 4 0.12
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (30 bp):
GCCAACATTTCTAATATGACCTACTCATGA
Found at i:33595651 original size:28 final size:28
Alignment explanation
Indices: 33595619--33595676 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
33595609 AATGTGGGCA
33595619 ATCTTCAATCCAATACAAATATAGTTAT
1 ATCTTCAATCCAATACAAATATAGTTAT
*
33595647 ATCTTCAATCCAATACGAATATAGTTAT
1 ATCTTCAATCCAATACAAATATAGTTAT
33595675 AT
1 AT
33595677 TTGGCAAAGA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (28 bp):
ATCTTCAATCCAATACAAATATAGTTAT
Found at i:33605955 original size:11 final size:9
Alignment explanation
Indices: 33605925--33605958 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
33605915 TTGGCCTTTA
33605925 TTTTTATTT
1 TTTTTATTT
33605934 TTTTTATTT
1 TTTTTATTT
*
33605943 TTCTTTAATT
1 TT-TTTATTT
33605953 TTTTTA
1 TTTTTA
33605959 GTTTGATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 15 0.65
10 8 0.35
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (9 bp):
TTTTTATTT
Found at i:33608507 original size:59 final size:59
Alignment explanation
Indices: 33608420--33608759 Score: 404
Period size: 58 Copynumber: 5.8 Consensus size: 59
33608410 AATAAAAATT
*
33608420 TTTCAAAAAGAAATATTTTTG-AGAAAAAGTTGAAAGTATTAA-TTTTCTTTGAAAATAAAA
1 TTTCAAAAA-AAATATTTTTGAAG-AAAAGTTGAAAGTATCAATTTTTC-TTGAAAATAAAA
33608480 TTTCAAAAAAAATATTTTTGAAGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAA
1 TTTCAAAAAAAATATTTTTGAAGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAA
* **
33608539 TTTCAAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGTT
1 TTTC-AAAAAAAATATTTTTGAAGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAA-AA
* * * * **
33608600 TTTC-AAAAAAATTTTTTTG-AGAAAAGCTGAAAGTATCAATTTTCCTTAAAAATAAGT
1 TTTCAAAAAAAATATTTTTGAAGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAA
** * * * *
33608657 TTTCAAAAATGA-ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAG
1 TTTCAAAAAAAATATTTTTGAAGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAA
** * * *
33608715 TTTTTAAAAATATA-TTTTGAAAAAAAGTTGAAAGTATTAATTTTT
1 TTTCAAAAAAAATATTTTTGAAGAAAAGTTGAAAGTATCAATTTTT
33608760 TGTACAAAAG
Statistics
Matches: 245, Mismatches: 28, Indels: 16
0.85 0.10 0.06
Matches are distributed among these distances:
57 11 0.04
58 103 0.42
59 59 0.24
60 68 0.28
61 4 0.02
ACGTcount: A:0.45, C:0.05, G:0.12, T:0.38
Consensus pattern (59 bp):
TTTCAAAAAAAATATTTTTGAAGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAA
Found at i:33613535 original size:115 final size:116
Alignment explanation
Indices: 33612869--33613687 Score: 1176
Period size: 115 Copynumber: 7.0 Consensus size: 116
33612859 TAATCACTAC
* * *
33612869 ACTGATTGGTTGATTTTTTTTTTTTTTTTTGGTTCTTGTCCCGCAATATCAACATCGAAATTACA
1 ACTGATTGGTTGA---TTTTTTTTTTTTTGGGTTCTTGTCTCGCAATATCAACATCGAAGTTACA
* * * * *
33612934 GTCAAAATGTCTATTAGAACAAATTGATAAAAGATTTTATCAAATTATGTAATT
63 GCCAAGACGTCGATTAGAACAAATTGATGAAAGATTTTATCAAATTATGTAATT
* * * *
33612988 ACTGATTGGTTGA--TTTTTTTTTTAGAGCTCTTGTCTCGTAATATCAACATCGAAGTTACAGCC
1 ACTGATTGGTTGATTTTTTTTTTTTTGGGTTCTTGTCTCGCAATATCAACATCGAAGTTACAGCC
33613051 AAGACGTCGATTAGAACAAATTGATGAAAGATTTTATCAAATTATGTAATT
66 AAGACGTCGATTAGAACAAATTGATGAAAGATTTTATCAAATTATGTAATT
* *
33613102 ACTGATTGGTTGATTTTTTTTTTTTTGGGTTTTTGTCTCGCAATATC-A-A-C--A-TTATAGCC
1 ACTGATTGGTTGATTTTTTTTTTTTTGGGTTCTTGTCTCGCAATATCAACATCGAAGTTACAGCC
*
33613161 AATACGTCGATTAGAACAAATTGATG-AAGATTTTATCAAATTATTGTAATT
66 AAGACGTCGATTAGAACAAATTGATGAAAGATTTTATCAAATTA-TGTAATT
*
33613212 ACTGAGT-GTTGATTTTTTTTTTTTCTGTTTTGGTTCTTGTCTCGCAATATCAACATCGAAGTTT
1 ACTGATTGGTTGATTTTTTTTTTTT-TG----GGTTCTTGTCTCGCAATATCAACATCGAAG-TT
33613276 ACAAGCCAAAGACGTCGATTAAGAACACAAATTGATGAAAGATTTTATCAAATTATGTAATT
60 AC-AGCC-AAGACGTCGATT-AG-A-ACAAATTGATGAAAGATTTTATCAAATTATGTAATT
*
33613338 ACTGATTGGTTGATTTTTTTTTTTTTTTGGTTCTTGTCTCGCAATATCAACATCGAAGTTACAGC
1 ACTGATTGGTTGA-TTTTTTTTTTTTTGGGTTCTTGTCTCGCAATATCAACATCGAAGTTACAGC
*
33613403 CAAGACGTCGATGAGAACAAATTGATGAAAGATTTTATCAAATTATGTAATT
65 CAAGACGTCGATTAGAACAAATTGATGAAAGATTTTATCAAATTATGTAATT
* *
33613455 ATTGATTGGTTGA-TTTTTTTTTTTTGGGTTCTTGTCTCGCATTATCAACATCGAAGTTACAGCC
1 ACTGATTGGTTGATTTTTTTTTTTTTGGGTTCTTGTCTCGCAATATCAACATCGAAGTTACAGCC
*
33613519 AAGACGTTGATTAGAACAAATTGATGAAAGATTTTATCAAATTATGTAATT
66 AAGACGTCGATTAGAACAAATTGATGAAAGATTTTATCAAATTATGTAATT
* * * *
33613570 ACTGATTGGTTGA-TTTTTTTTTTTAGAGCTCTTGTCTCGTAATATCAACATCGAAGTTACAGCC
1 ACTGATTGGTTGATTTTTTTTTTTTTGGGTTCTTGTCTCGCAATATCAACATCGAAGTTACAGCC
*
33613634 AAGACGTCGATTAAAACAAATTGATGAAAGATTTTATCAAATTATGTAATT
66 AAGACGTCGATTAGAACAAATTGATGAAAGATTTTATCAAATTATGTAATT
33613685 ACT
1 ACT
33613688 AGAATATCAA
Statistics
Matches: 638, Mismatches: 39, Indels: 50
0.88 0.05 0.07
Matches are distributed among these distances:
109 34 0.05
110 47 0.07
111 1 0.00
113 1 0.00
114 122 0.19
115 210 0.33
116 28 0.04
117 49 0.08
118 1 0.00
119 16 0.03
120 11 0.02
121 7 0.01
122 8 0.01
123 41 0.06
124 2 0.00
125 1 0.00
126 24 0.04
127 23 0.04
128 12 0.02
ACGTcount: A:0.31, C:0.12, G:0.16, T:0.41
Consensus pattern (116 bp):
ACTGATTGGTTGATTTTTTTTTTTTTGGGTTCTTGTCTCGCAATATCAACATCGAAGTTACAGCC
AAGACGTCGATTAGAACAAATTGATGAAAGATTTTATCAAATTATGTAATT
Found at i:33614419 original size:15 final size:17
Alignment explanation
Indices: 33614383--33614414 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
33614373 TTTATTGATC
33614383 AAAA-TTATATATTTTT
1 AAAATTTATATATTTTT
33614399 AAAATTTATATATTTT
1 AAAATTTATATATTTT
33614415 AAATTATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
AAAATTTATATATTTTT
Found at i:33614933 original size:2 final size:2
Alignment explanation
Indices: 33614928--33614956 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
33614918 AGAATTTTTT
33614928 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 T
33614957 TATGTGCAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:33615402 original size:18 final size:18
Alignment explanation
Indices: 33615366--33615439 Score: 55
Period size: 17 Copynumber: 4.1 Consensus size: 18
33615356 ATTAAATAAA
*
33615366 AAAT-AATTAAAATTT-T
1 AAATAAATTTAAATTTAT
33615382 AAATAAATTTAAATTTAT
1 AAATAAATTTAAATTTAT
* *
33615400 AAATTAAATATTATATATAAT
1 AAA-TAAAT-TTAAAT-TTAT
* *
33615421 AAA-ATATTTAAATATAT
1 AAATAAATTTAAATTTAT
33615438 AA
1 AA
33615440 TTTAATTTAT
Statistics
Matches: 46, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
16 4 0.09
17 14 0.30
18 9 0.20
19 8 0.17
20 5 0.11
21 6 0.13
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
AAATAAATTTAAATTTAT
Found at i:33617409 original size:19 final size:21
Alignment explanation
Indices: 33617375--33617413 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
33617365 TAAATCTCAT
33617375 ATTAAATATAATAAAAAAATC
1 ATTAAATATAATAAAAAAATC
33617396 ATTAAA-AT-ATAAAAAAAT
1 ATTAAATATAATAAAAAAAT
33617414 TCACATCACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 10 0.56
20 2 0.11
21 6 0.33
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (21 bp):
ATTAAATATAATAAAAAAATC
Found at i:33618392 original size:17 final size:17
Alignment explanation
Indices: 33618359--33618392 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
33618349 GGACATAAAG
*
33618359 ATAAATAAAATCAATAA
1 ATAAATAAAAACAATAA
*
33618376 ATAAATAAAAACCATAA
1 ATAAATAAAAACAATAA
33618393 TTTTAGAATT
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:0.71, C:0.09, G:0.00, T:0.21
Consensus pattern (17 bp):
ATAAATAAAAACAATAA
Found at i:33618910 original size:32 final size:31
Alignment explanation
Indices: 33618869--33618961 Score: 132
Period size: 32 Copynumber: 2.9 Consensus size: 31
33618859 TAAAACCATT
33618869 GGAGAAGGAAACCCAACGGCGAAGCCACCAAC
1 GGAGAAGGAAACCCAACGGC-AAGCCACCAAC
* * *
33618901 GGAGAAGGAAACCGAACGGAAGAGCCACCACC
1 GGAGAAGGAAACCCAACGGCA-AGCCACCAAC
33618933 GGAGAAGGAAACCCAACGGCAACGCCACC
1 GGAGAAGGAAACCCAACGGCAA-GCCACC
33618962 GGTAAAGAAG
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
31 2 0.04
32 52 0.96
ACGTcount: A:0.40, C:0.31, G:0.29, T:0.00
Consensus pattern (31 bp):
GGAGAAGGAAACCCAACGGCAAGCCACCAAC
Found at i:33618920 original size:17 final size:16
Alignment explanation
Indices: 33618869--33618951 Score: 55
Period size: 17 Copynumber: 5.1 Consensus size: 16
33618859 TAAAACCATT
33618869 GGAGAAGGAAACCCAAC
1 GGAGAAGGAAA-CCAAC
* **
33618886 GGCGAA-GCCACCAAC
1 GGAGAAGGAAACCAAC
33618901 GGAGAAGGAAACCGAAC
1 GGAGAAGGAAACC-AAC
** *
33618918 -G-GAAGAGCCACCACC
1 GGAGAAG-GAAACCAAC
33618933 GGAGAAGGAAACCCAAC
1 GGAGAAGGAAA-CCAAC
33618950 GG
1 GG
33618952 CAACGCCACC
Statistics
Matches: 48, Mismatches: 12, Indels: 12
0.67 0.17 0.17
Matches are distributed among these distances:
15 16 0.33
16 14 0.29
17 18 0.38
ACGTcount: A:0.41, C:0.28, G:0.31, T:0.00
Consensus pattern (16 bp):
GGAGAAGGAAACCAAC
Found at i:33619686 original size:101 final size:101
Alignment explanation
Indices: 33619511--33619711 Score: 393
Period size: 101 Copynumber: 2.0 Consensus size: 101
33619501 ATGTTTTTGG
33619511 AAAGATTAATTCAATCGGAAAAAGATTCCTTCCAAACCAAAACAAATTGATATCGGGACCAATTT
1 AAAGATTAATTCAATCGGAAAAAGATTCCTTCCAAACCAAAACAAATTGATATCGGGACCAATTT
*
33619576 GCTTGATTACGTAACATCCAAGAAATTTAGTGCAAC
66 GCTTGATTACGTAACATCCAAGAAATTCAGTGCAAC
33619612 AAAGATTAATTCAATCGGAAAAAGATTCCTTCCAAACCAAAACAAATTGATATCGGGACCAATTT
1 AAAGATTAATTCAATCGGAAAAAGATTCCTTCCAAACCAAAACAAATTGATATCGGGACCAATTT
33619677 GCTTGATTACGTAACATCCAAGAAATTCAGTGCAA
66 GCTTGATTACGTAACATCCAAGAAATTCAGTGCAA
33619712 TATTTTTTAA
Statistics
Matches: 99, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
101 99 1.00
ACGTcount: A:0.42, C:0.19, G:0.14, T:0.25
Consensus pattern (101 bp):
AAAGATTAATTCAATCGGAAAAAGATTCCTTCCAAACCAAAACAAATTGATATCGGGACCAATTT
GCTTGATTACGTAACATCCAAGAAATTCAGTGCAAC
Found at i:33625265 original size:35 final size:35
Alignment explanation
Indices: 33625221--33625294 Score: 121
Period size: 35 Copynumber: 2.1 Consensus size: 35
33625211 TGAAAAGAAA
*
33625221 AAAAAACAATATAGTAATCTAACTAACAAAGACCC
1 AAAAAACAATATAGTAATCCAACTAACAAAGACCC
* *
33625256 AAAAAACAATATTGTAATCCAACTACCAAAGACCC
1 AAAAAACAATATAGTAATCCAACTAACAAAGACCC
33625291 AAAA
1 AAAA
33625295 GATGGATAGG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.57, C:0.22, G:0.05, T:0.16
Consensus pattern (35 bp):
AAAAAACAATATAGTAATCCAACTAACAAAGACCC
Found at i:33628661 original size:2 final size:2
Alignment explanation
Indices: 33628654--33628683 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
33628644 TTTATCTAGC
33628654 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
33628684 GTGTGTGTGT
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:33629297 original size:59 final size:59
Alignment explanation
Indices: 33629228--33629406 Score: 252
Period size: 58 Copynumber: 3.0 Consensus size: 59
33629218 TGCTTTTATA
* *
33629228 TAAGAAAAATTGATACTTTTAACTTTTTCTTAAAAATATATTTTTTAAAATTTTATTTT
1 TAAGAAAAATTGATACTTTCAACTTTTTCTTAAAAATATTTTTTTTAAAATTTTATTTT
* * * **
33629287 TAAGAAAAATTGGTACTTTCAACTTTTTC-TCAAAATGTTTTTTTTTTAATTTTATTTT
1 TAAGAAAAATTGATACTTTCAACTTTTTCTTAAAAATATTTTTTTTAAAATTTTATTTT
* *
33629345 CAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTTTGAAAATTTTTATTTT
1 TAAGAAAAATTGATACTTTCAACTTTTTCTTAAAAATATTTTTTTT-AAAA-TTTTATTTT
33629406 T
1 T
33629407 TATTTTGTTT
Statistics
Matches: 102, Mismatches: 15, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
58 50 0.49
59 41 0.40
60 2 0.02
61 9 0.09
ACGTcount: A:0.35, C:0.08, G:0.05, T:0.53
Consensus pattern (59 bp):
TAAGAAAAATTGATACTTTCAACTTTTTCTTAAAAATATTTTTTTTAAAATTTTATTTT
Found at i:33629909 original size:21 final size:22
Alignment explanation
Indices: 33629869--33629922 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
33629859 AAAATTTTCA
33629869 AAAAATTTCTAGAAAAAAATGC-T
1 AAAAA-TTCTAGAAAAAAAT-CTT
*
33629892 AAAAATTCT-GAGAAAAATCTT
1 AAAAATTCTAGAAAAAAATCTT
33629913 AAAAATTCTA
1 AAAAATTCTA
33629923 TGATTGCTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 1 0.04
21 18 0.64
22 4 0.14
23 5 0.18
ACGTcount: A:0.56, C:0.09, G:0.07, T:0.28
Consensus pattern (22 bp):
AAAAATTCTAGAAAAAAATCTT
Found at i:33630565 original size:59 final size:58
Alignment explanation
Indices: 33630494--33630881 Score: 392
Period size: 58 Copynumber: 6.8 Consensus size: 58
33630484 ATTTTTGAAA
* *
33630494 TTTCAAGAAAAATTGATATTTTCAACTTTTCCTCAAAATACTTTTTATTAAAATTTTTAT
1 TTTCAA-AAAAATTAATACTTTCAACTTTTCCTCAAAATACTTTTT-TTAAAATTTTTAT
** * * * *
33630554 TTTTGAAAAAATTGATACTTTCAACTTTTCCTTAAAAATA-TCTTTTTAAAAATTTTAT
1 TTTCAAAAAAATTAATACTTTCAACTTTTCC-TCAAAATACTTTTTTTAAAATTTTTAT
* *
33630612 TTTCAAGAAAAATTAATACTTTCAACTTTTCTTCAAAATA-TTTTTTTTAAATTTTTAT
1 TTTCAA-AAAAATTAATACTTTCAACTTTTCCTCAAAATACTTTTTTTAAAATTTTTAT
* * *
33630670 TTTCGAAGAAAATTAATACTTTCAACTTTTTCTCAAAATA-TTTTTTTGAAATTTTTAT
1 TTTC-AAAAAAATTAATACTTTCAACTTTTCCTCAAAATACTTTTTTTAAAATTTTTAT
* * * *
33630728 TTTCAAGAAAAATTGATACTTTCAATTTTTTCTC-AAA-ACTTTTTTTGAAATTTTTAT
1 TTTCAA-AAAAATTAATACTTTCAACTTTTCCTCAAAATACTTTTTTTAAAATTTTTAT
* *
33630785 TTTCAAGGAAAATTAATACTTTCAACTTTTCCT--TAAT--TTTTTTT---ATTTTTAT
1 TTTCAA-AAAAATTAATACTTTCAACTTTTCCTCAAAATACTTTTTTTAAAATTTTTAT
* ** *
33630837 TTTTAAGAAAAATCGATACTTTCAA--TTTCTTCAAAA-ACTTTTTTT
1 TTTCAA-AAAAATTAATACTTTCAACTTTTCCTCAAAATACTTTTTTT
33630882 TTTTTGAAGT
Statistics
Matches: 286, Mismatches: 32, Indels: 27
0.83 0.09 0.08
Matches are distributed among these distances:
50 5 0.02
52 31 0.11
53 7 0.02
55 7 0.02
56 3 0.01
57 52 0.18
58 117 0.41
59 53 0.19
60 11 0.04
ACGTcount: A:0.35, C:0.11, G:0.04, T:0.50
Consensus pattern (58 bp):
TTTCAAAAAAATTAATACTTTCAACTTTTCCTCAAAATACTTTTTTTAAAATTTTTAT
Found at i:33633372 original size:85 final size:85
Alignment explanation
Indices: 33633266--33633479 Score: 322
Period size: 85 Copynumber: 2.5 Consensus size: 85
33633256 GAGGCTTAAC
* *
33633266 AACTTTG-AAAAATAAAATGCTCCTCTAAATAGAGCCAACTACAACTTTGAAAAATAAAATGCTC
1 AACTTTGAAAAAATAAAATGCTCCTCTAAATAGAGACAACCACAACTTTGAAAAATAAAATGCTC
*
33633330 CTCTAAACAGAGGTAACCAT
66 CTCTAAACAGAGGCAACCAT
* **
33633350 AACTTTGAAAAAATAAAATGCTCATCTAAATAGAGGTAACCACAACTTTGAAAAATAAAATGCTC
1 AACTTTGAAAAAATAAAATGCTCCTCTAAATAGAGACAACCACAACTTTGAAAAATAAAATGCTC
** *
33633415 CTCTAAATTGAGGCAATCAT
66 CTCTAAACAGAGGCAACCAT
* *
33633435 AACTTTGAAAAAATAAAATGTTCCTCTAAAGAGAGACAACCACAA
1 AACTTTGAAAAAATAAAATGCTCCTCTAAATAGAGACAACCACAA
33633480 TAAAATGCTC
Statistics
Matches: 116, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
84 7 0.06
85 109 0.94
ACGTcount: A:0.47, C:0.18, G:0.11, T:0.24
Consensus pattern (85 bp):
AACTTTGAAAAAATAAAATGCTCCTCTAAATAGAGACAACCACAACTTTGAAAAATAAAATGCTC
CTCTAAACAGAGGCAACCAT
Found at i:33633378 original size:43 final size:42
Alignment explanation
Indices: 33633264--33633479 Score: 297
Period size: 42 Copynumber: 5.1 Consensus size: 42
33633254 TGGAGGCTTA
* *
33633264 ACAACTTTGAAAAATAAAATGCTCCTCTAAATAGAGCCAACT
1 ACAACTTTGAAAAATAAAATGCTCCTCTAAATAGAGGCAACC
* *
33633306 ACAACTTTGAAAAATAAAATGCTCCTCTAAACAGAGGTAACC
1 ACAACTTTGAAAAATAAAATGCTCCTCTAAATAGAGGCAACC
* * *
33633348 ATAACTTTGAAAAAATAAAATGCTCATCTAAATAGAGGTAACC
1 ACAACTTTG-AAAAATAAAATGCTCCTCTAAATAGAGGCAACC
* *
33633391 ACAACTTTGAAAAATAAAATGCTCCTCTAAATTGAGGCAATC
1 ACAACTTTGAAAAATAAAATGCTCCTCTAAATAGAGGCAACC
* * * *
33633433 ATAACTTTGAAAAAATAAAATGTTCCTCTAAAGAGAGACAACC
1 ACAACTTTG-AAAAATAAAATGCTCCTCTAAATAGAGGCAACC
33633476 ACAA
1 ACAA
33633480 TAAAATGCTC
Statistics
Matches: 153, Mismatches: 19, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
42 83 0.54
43 70 0.46
ACGTcount: A:0.47, C:0.19, G:0.11, T:0.24
Consensus pattern (42 bp):
ACAACTTTGAAAAATAAAATGCTCCTCTAAATAGAGGCAACC
Found at i:33633852 original size:21 final size:21
Alignment explanation
Indices: 33633828--33633923 Score: 102
Period size: 21 Copynumber: 4.5 Consensus size: 21
33633818 GTTTTACATC
*
33633828 TCAAAGATTCTCATTTGAAAT
1 TCAAAAATTCTCATTTGAAAT
* * *
33633849 TCAAATATTTTTATTTGAAAT
1 TCAAAAATTCTCATTTGAAAT
* * *
33633870 TCAAAGATTTTTATTTGAAAT
1 TCAAAAATTCTCATTTGAAAT
* *
33633891 TCAAAAATTCGCATTTGAGAAC
1 TCAAAAATTCTCATTTGA-AAT
33633913 TCAAAAATTCT
1 TCAAAAATTCT
33633924 TATCAAAAGA
Statistics
Matches: 64, Mismatches: 10, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
21 52 0.81
22 12 0.19
ACGTcount: A:0.40, C:0.11, G:0.08, T:0.41
Consensus pattern (21 bp):
TCAAAAATTCTCATTTGAAAT
Found at i:33633907 original size:42 final size:43
Alignment explanation
Indices: 33633827--33633926 Score: 121
Period size: 42 Copynumber: 2.3 Consensus size: 43
33633817 GGTTTTACAT
* * ***
33633827 CTCAAAGATTCTCATTTGAAATTCAAATATTTTTATTTGA-AA
1 CTCAAAGATTCTTATTTGAAATTCAAAAATTCGCATTTGAGAA
* *
33633869 TTCAAAGATTTTTATTTGAAATTCAAAAATTCGCATTTGAGAA
1 CTCAAAGATTCTTATTTGAAATTCAAAAATTCGCATTTGAGAA
*
33633912 CTCAAAAATTCTTAT
1 CTCAAAGATTCTTAT
33633927 CAAAAGATTC
Statistics
Matches: 47, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
42 33 0.70
43 14 0.30
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.41
Consensus pattern (43 bp):
CTCAAAGATTCTTATTTGAAATTCAAAAATTCGCATTTGAGAA
Found at i:33634278 original size:23 final size:23
Alignment explanation
Indices: 33634252--33634295 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
33634242 TTGGAACAAG
*
33634252 TTTCATCAAC-TGATCATCATTAT
1 TTTCATC-ACTTGATCACCATTAT
33634275 TTTCATCACTTGATCACCATT
1 TTTCATCACTTGATCACCATT
33634296 CATAAGCTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.27, C:0.25, G:0.05, T:0.43
Consensus pattern (23 bp):
TTTCATCACTTGATCACCATTAT
Found at i:33634400 original size:49 final size:49
Alignment explanation
Indices: 33634308--33634459 Score: 207
Period size: 49 Copynumber: 3.1 Consensus size: 49
33634298 TAAGCTTCTC
* * * * * *
33634308 AGCATTAACAATT-TCAGAACAAGTTTTATCTATTACCCCATATCATTTA
1 AGCACTAACAATTCT-AAAACAAGTTTCATCCATTGCCCTATATCATTTA
*
33634357 AGCACTAGCAATTCTAAAACAAGTTTCATCCATTGCCCTATATCATTTA
1 AGCACTAACAATTCTAAAACAAGTTTCATCCATTGCCCTATATCATTTA
* *
33634406 AGCACTAATAATTCTAGAACAAGTTTCATCCATTGCCCTATATCATTTA
1 AGCACTAACAATTCTAAAACAAGTTTCATCCATTGCCCTATATCATTTA
33634455 AGCAC
1 AGCAC
33634460 AACTCATAGG
Statistics
Matches: 92, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
49 91 0.99
50 1 0.01
ACGTcount: A:0.36, C:0.23, G:0.08, T:0.34
Consensus pattern (49 bp):
AGCACTAACAATTCTAAAACAAGTTTCATCCATTGCCCTATATCATTTA
Found at i:33635500 original size:23 final size:24
Alignment explanation
Indices: 33635460--33635507 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
33635450 TATTTGTGTC
*
33635460 ATTTTTCTTTTCTCTCTTTCTTTT
1 ATTTTACTTTTCTCTCTTTCTTTT
* *
33635484 ATTTTACTTTT-TTTCTTTTTTTT
1 ATTTTACTTTTCTCTCTTTCTTTT
33635507 A
1 A
33635508 GAGACATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.08, C:0.15, G:0.00, T:0.77
Consensus pattern (24 bp):
ATTTTACTTTTCTCTCTTTCTTTT
Found at i:33638934 original size:19 final size:20
Alignment explanation
Indices: 33638903--33638940 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
33638893 CTTTTCCTTA
*
33638903 AAAATATTTTTTAGAAATTG
1 AAAATATTTTTTAAAAATTG
33638923 AAAATA-TTTTTAAAAATT
1 AAAATATTTTTTAAAAATT
33638941 TTATTTTGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (20 bp):
AAAATATTTTTTAAAAATTG
Done.