Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr7
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: 47983841
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869652 characters in sequence are not A, C, G, or T
File 81 of 153
Found at i:25730740 original size:50 final size:50
Alignment explanation
Indices: 25730673--25730767 Score: 165
Period size: 50 Copynumber: 1.9 Consensus size: 50
25730663 AATATTTAAT
25730673 ATATATAAAGTATTTGCAAATGTCAAATGATAAAATTAAATATATCTCAA
1 ATATATAAAGTATTTGCAAATGTCAAATGATAAAATTAAATATATCTCAA
*
25730723 ATATA-AATAGTATTTGCAAATGTCAAATGATAAAATTTAATATAT
1 ATATATAA-AGTATTTGCAAATGTCAAATGATAAAATTAAATATAT
25730768 ATAAATTTTG
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
49 2 0.05
50 41 0.95
ACGTcount: A:0.49, C:0.06, G:0.08, T:0.36
Consensus pattern (50 bp):
ATATATAAAGTATTTGCAAATGTCAAATGATAAAATTAAATATATCTCAA
Found at i:25734769 original size:167 final size:167
Alignment explanation
Indices: 25734493--25734825 Score: 630
Period size: 167 Copynumber: 2.0 Consensus size: 167
25734483 ATTGATAATC
* *
25734493 TTACTGTCATTCATTTTACTTTGTATGCACACATAAGTACTATTATGGCATTTACTACTGGAAAT
1 TTACTGTCATTCATTTTACTTTGTATCCACACATAAGTACTATTATGGCATTTACCACTGGAAAT
* *
25734558 GTCTAAATCAATGTGAAGTCTATAATGTCACTAAGTCAACAAAATAAATATAAATTCTAAATAAT
66 GTCTAAATCAATGTGAAGTCTATAATGTCACTAAGTCAACAAAATAAATATAAACTCCAAATAAT
25734623 TATATGCAATATTCGCTTCAAGGAATATGCCAAAATT
131 TATATGCAATATTCGCTTCAAGGAATATGCCAAAATT
25734660 TTACTGTCATTCATTTTACTTTGTATCCACACATAAGTACTATTATGGCATTTACCACTGGAAAT
1 TTACTGTCATTCATTTTACTTTGTATCCACACATAAGTACTATTATGGCATTTACCACTGGAAAT
25734725 GTCTAAATCAATGTGAAGTCTATAATGTCACTAAGTCAACAAAATAAATATAAACTCCAAATAAT
66 GTCTAAATCAATGTGAAGTCTATAATGTCACTAAGTCAACAAAATAAATATAAACTCCAAATAAT
25734790 TATATGCAATATTCGCTTCAAGGAATATGCCAAAAT
131 TATATGCAATATTCGCTTCAAGGAATATGCCAAAAT
25734826 CTTTTTTGCT
Statistics
Matches: 162, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
167 162 1.00
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.34
Consensus pattern (167 bp):
TTACTGTCATTCATTTTACTTTGTATCCACACATAAGTACTATTATGGCATTTACCACTGGAAAT
GTCTAAATCAATGTGAAGTCTATAATGTCACTAAGTCAACAAAATAAATATAAACTCCAAATAAT
TATATGCAATATTCGCTTCAAGGAATATGCCAAAATT
Found at i:25736298 original size:20 final size:20
Alignment explanation
Indices: 25736270--25736317 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
25736260 GTTGACAAAA
25736270 CAATCACTTTGGTTTCAATT
1 CAATCACTTTGGTTTCAATT
*
25736290 CAATTACTTTGGTTTCAATT
1 CAATCACTTTGGTTTCAATT
25736310 CAATCACT
1 CAATCACT
25736318 CAACTTTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.27, C:0.21, G:0.08, T:0.44
Consensus pattern (20 bp):
CAATCACTTTGGTTTCAATT
Found at i:25736528 original size:30 final size:30
Alignment explanation
Indices: 25736487--25736547 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
25736477 TCGTCCTTCC
25736487 TTTTCTATTTTTTTAATAAATGACCCAATA
1 TTTTCTATTTTTTTAATAAATGACCCAATA
* * * *
25736517 TTTTTTATTTTTTTCATAAATTACCTAATA
1 TTTTCTATTTTTTTAATAAATGACCCAATA
25736547 T
1 T
25736548 GTTTATACTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.11, G:0.02, T:0.56
Consensus pattern (30 bp):
TTTTCTATTTTTTTAATAAATGACCCAATA
Found at i:25740193 original size:14 final size:14
Alignment explanation
Indices: 25740174--25740207 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
25740164 TATAAAATTA
*
25740174 TAATTAACTAATAT
1 TAATTAAATAATAT
25740188 TAATTAAATAATAT
1 TAATTAAATAATAT
*
25740202 TTATTA
1 TAATTA
25740208 CGGACTTTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (14 bp):
TAATTAAATAATAT
Found at i:25755355 original size:7 final size:7
Alignment explanation
Indices: 25755343--25755401 Score: 50
Period size: 7 Copynumber: 8.1 Consensus size: 7
25755333 TCTATCATTC
25755343 TCTTTTT
1 TCTTTTT
25755350 TC-TTTT
1 TCTTTTT
25755356 TCGTTCTTT
1 TC-TT-TTT
*
25755365 TCTTTGT
1 TCTTTTT
25755372 TCTTTATT
1 TCTTT-TT
*
25755380 TCTCATTT
1 TCT-TTTT
25755388 TC-TTTT
1 TCTTTTT
25755394 TCTTTTT
1 TCTTTTT
25755401 T
1 T
25755402 TATTTTTTTG
Statistics
Matches: 42, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
6 11 0.26
7 14 0.33
8 11 0.26
9 6 0.14
ACGTcount: A:0.03, C:0.17, G:0.03, T:0.76
Consensus pattern (7 bp):
TCTTTTT
Found at i:25755368 original size:22 final size:22
Alignment explanation
Indices: 25755337--25755401 Score: 64
Period size: 22 Copynumber: 3.0 Consensus size: 22
25755327 ACTAATTCTA
*
25755337 TCATTCTCTTTTTTC-TTTTTC
1 TCATTTTCTTTTTTCTTTTTTC
*
25755358 GTTC-TTTTCTTTGTTCTTTATTTC
1 --TCATTTTCTTTTTTCTTT-TTTC
25755382 TCATTTTC-TTTTTCTTTTTT
1 TCATTTTCTTTTTTCTTTTTT
25755402 TATTTTTTTG
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
21 3 0.08
22 20 0.56
23 9 0.25
24 4 0.11
ACGTcount: A:0.05, C:0.18, G:0.03, T:0.74
Consensus pattern (22 bp):
TCATTTTCTTTTTTCTTTTTTC
Found at i:25755381 original size:15 final size:13
Alignment explanation
Indices: 25755343--25755400 Score: 55
Period size: 15 Copynumber: 4.1 Consensus size: 13
25755333 TCTATCATTC
25755343 TCTTTTTTCTTTT
1 TCTTTTTTCTTTT
25755356 TCGTTCTTTTCTTTGT
1 TC-TT-TTTTCTTT-T
25755372 TCTTTATTTCTCATTT
1 TCTTT-TTTCT--TTT
25755388 TC-TTTTTCTTTT
1 TCTTTTTTCTTTT
25755400 T
1 T
25755401 TTATTTTTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
12 4 0.10
13 2 0.05
14 8 0.21
15 17 0.44
16 6 0.15
17 2 0.05
ACGTcount: A:0.03, C:0.17, G:0.03, T:0.76
Consensus pattern (13 bp):
TCTTTTTTCTTTT
Found at i:25758475 original size:8 final size:9
Alignment explanation
Indices: 25758457--25758486 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
25758447 CAAAATGCTC
25758457 AAAAAGAAA
1 AAAAAGAAA
25758466 AAAAAGAAA
1 AAAAAGAAA
25758475 AAAAAGAAA
1 AAAAAGAAA
25758484 AAA
1 AAA
25758487 GCAAACCTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (9 bp):
AAAAAGAAA
Found at i:25772703 original size:8 final size:8
Alignment explanation
Indices: 25772692--25772732 Score: 73
Period size: 8 Copynumber: 5.1 Consensus size: 8
25772682 AACATCATAC
*
25772692 ACATTTAT
1 ACATATAT
25772700 ACATATAT
1 ACATATAT
25772708 ACATATAT
1 ACATATAT
25772716 ACATATAT
1 ACATATAT
25772724 ACATATAT
1 ACATATAT
25772732 A
1 A
25772733 TCATCTCAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
8 32 1.00
ACGTcount: A:0.49, C:0.12, G:0.00, T:0.39
Consensus pattern (8 bp):
ACATATAT
Found at i:25772724 original size:24 final size:25
Alignment explanation
Indices: 25772683--25772737 Score: 76
Period size: 24 Copynumber: 2.2 Consensus size: 25
25772673 TAACAAATCA
*
25772683 ACATCATACACATTTATACATATAT
1 ACATCATACACATATATACATATAT
*
25772708 ACAT-ATATACATATATACATATAT
1 ACATCATACACATATATACATATAT
25772732 ATCATC
1 A-CATC
25772738 TCAAAAATCT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 19 0.73
25 7 0.27
ACGTcount: A:0.45, C:0.18, G:0.00, T:0.36
Consensus pattern (25 bp):
ACATCATACACATATATACATATAT
Found at i:25776115 original size:30 final size:30
Alignment explanation
Indices: 25776081--25776145 Score: 112
Period size: 30 Copynumber: 2.2 Consensus size: 30
25776071 CAACTTAACA
*
25776081 AACAAATGCCTCTAAAATTATAACAAAATT
1 AACAAATGCCTCTAAAATAATAACAAAATT
*
25776111 AACAAATGCCTTTAAAATAATAACAAAATT
1 AACAAATGCCTCTAAAATAATAACAAAATT
25776141 AACAA
1 AACAA
25776146 TAAAATAAGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.57, C:0.15, G:0.03, T:0.25
Consensus pattern (30 bp):
AACAAATGCCTCTAAAATAATAACAAAATT
Found at i:25776200 original size:22 final size:22
Alignment explanation
Indices: 25776175--25776217 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
25776165 TATCTAAACA
25776175 ATAACAATAAAATAATAGCAAC
1 ATAACAATAAAATAATAGCAAC
* * *
25776197 ATAATAGTAAAATAGTAGCAA
1 ATAACAATAAAATAATAGCAA
25776218 AATAGGGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.60, C:0.09, G:0.09, T:0.21
Consensus pattern (22 bp):
ATAACAATAAAATAATAGCAAC
Found at i:25776222 original size:11 final size:11
Alignment explanation
Indices: 25776183--25776221 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
25776173 CAATAACAAT
25776183 AAAATAATAGC
1 AAAATAATAGC
* *
25776194 AACATAATAGT
1 AAAATAATAGC
*
25776205 AAAATAGTAGC
1 AAAATAATAGC
25776216 AAAATA
1 AAAATA
25776222 GGGAGAAAAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.62, C:0.08, G:0.10, T:0.21
Consensus pattern (11 bp):
AAAATAATAGC
Found at i:25782173 original size:23 final size:23
Alignment explanation
Indices: 25782143--25782193 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
25782133 CAAGGTTTAT
*
25782143 AAAAAATATATTTGATTAAAAAC
1 AAAAAATATATTTCATTAAAAAC
*
25782166 AAAAAATATATTTCATTAAAAAT
1 AAAAAATATATTTCATTAAAAAC
25782189 AAAAA
1 AAAAA
25782194 TAAAAATATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (23 bp):
AAAAAATATATTTCATTAAAAAC
Found at i:25784196 original size:25 final size:26
Alignment explanation
Indices: 25784151--25784199 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
25784141 ACATATTTTC
*
25784151 TCAAAATTTTACTAGGTGTAAAATTT
1 TCAAAATTTTACTAAGTGTAAAATTT
25784177 TCAAAA-TTTACTGAAG-GTAAAAT
1 TCAAAATTTTACT-AAGTGTAAAAT
25784200 AAGGGTGAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 13 0.62
26 8 0.38
ACGTcount: A:0.43, C:0.08, G:0.12, T:0.37
Consensus pattern (26 bp):
TCAAAATTTTACTAAGTGTAAAATTT
Found at i:25785454 original size:13 final size:13
Alignment explanation
Indices: 25785436--25785460 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25785426 TATACATATG
25785436 TTTTGTAATTAAA
1 TTTTGTAATTAAA
25785449 TTTTGTAATTAA
1 TTTTGTAATTAA
25785461 CTACATCGTT
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:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (13 bp):
TTTTGTAATTAAA
Found at i:25804110 original size:24 final size:21
Alignment explanation
Indices: 25804070--25804115 Score: 71
Period size: 18 Copynumber: 2.3 Consensus size: 21
25804060 GGAAAGATAA
25804070 GAAGAGGAAGAGAGGGAAGGG
1 GAAGAGGAAGAGAGGGAAGGG
25804091 GAAGAGG-AGAGA--GAAGGG
1 GAAGAGGAAGAGAGGGAAGGG
25804109 GAAGAGG
1 GAAGAGG
25804116 GTGGGGAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 13 0.52
20 5 0.20
21 7 0.28
ACGTcount: A:0.43, C:0.00, G:0.57, T:0.00
Consensus pattern (21 bp):
GAAGAGGAAGAGAGGGAAGGG
Found at i:25805844 original size:7 final size:7
Alignment explanation
Indices: 25805834--25805862 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
25805824 AGTATTTTGA
25805834 TTGTGTT
1 TTGTGTT
25805841 TTGTGTT
1 TTGTGTT
25805848 TTGTGTT
1 TTGTGTT
25805855 TTGTGTT
1 TTGTGTT
25805862 T
1 T
25805863 ATATAATTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.28, T:0.72
Consensus pattern (7 bp):
TTGTGTT
Found at i:25812168 original size:33 final size:33
Alignment explanation
Indices: 25812146--25812252 Score: 169
Period size: 33 Copynumber: 3.2 Consensus size: 33
25812136 CACTCAAGCC
* *
25812146 AATCCATCCATCACACCAATGCTTATAAGAGCT
1 AATCCAACCATCACACCAATGCTCATAAGAGCT
*
25812179 AATCCAACCATCACACCAATGCTTATAAGAGCT
1 AATCCAACCATCACACCAATGCTCATAAGAGCT
* *
25812212 AATCCAACCATCATACCAATGCTCATAAAAGCT
1 AATCCAACCATCACACCAATGCTCATAAGAGCT
25812245 AATCCAAC
1 AATCCAAC
25812253 TAGCACACTA
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 70 1.00
ACGTcount: A:0.40, C:0.31, G:0.07, T:0.21
Consensus pattern (33 bp):
AATCCAACCATCACACCAATGCTCATAAGAGCT
Found at i:25817493 original size:32 final size:32
Alignment explanation
Indices: 25817457--25817543 Score: 97
Period size: 33 Copynumber: 2.7 Consensus size: 32
25817447 AACTTTTTTG
*
25817457 GAAAATATTTTCAGGAAATC-TGCCAAACAACA
1 GAAAATATTTTCAGCAAATCAT-CCAAACAACA
* *
25817489 GAAAATATTTTACA-CAGATTCATCCAAACACCA
1 GAAAATATTTT-CAGCA-AATCATCCAAACAACA
*
25817522 GAAAATATTTTCAGTAAATCAT
1 GAAAATATTTTCAGCAAATCAT
25817544 TTTGCAGAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
32 19 0.41
33 26 0.57
34 1 0.02
ACGTcount: A:0.46, C:0.18, G:0.09, T:0.26
Consensus pattern (32 bp):
GAAAATATTTTCAGCAAATCATCCAAACAACA
Found at i:25817588 original size:34 final size:33
Alignment explanation
Indices: 25817524--25817588 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 33
25817514 AAACACCAGA
*
25817524 AAATATTTTCAGTAAATCATTTTGCAGAAAAGT
1 AAATATTTTCAGTAAATCATTTTCCAGAAAAGT
*
25817557 AAATCATTTTCTAG-AAATCATTTTCCGGAAAA
1 AAAT-ATTTTC-AGTAAATCATTTTCCAGAAAA
25817589 CATTTTACTG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 4 0.14
34 22 0.79
35 2 0.07
ACGTcount: A:0.42, C:0.12, G:0.11, T:0.35
Consensus pattern (33 bp):
AAATATTTTCAGTAAATCATTTTCCAGAAAAGT
Found at i:25823815 original size:12 final size:12
Alignment explanation
Indices: 25823776--25823839 Score: 67
Period size: 12 Copynumber: 5.2 Consensus size: 12
25823766 TAAGTGTAAG
*
25823776 AACATAACAATAA
1 AACATAAAAAT-A
25823789 AACAACTAAAAATA
1 AAC-A-TAAAAATA
*
25823803 AACATAAACATA
1 AACATAAAAATA
25823815 AACAT-AAAATA
1 AACATAAAAATA
*
25823826 AAAATAAAAATA
1 AACATAAAAATA
25823838 AA
1 AA
25823840 ACTAAAAAGA
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
11 9 0.20
12 20 0.45
13 4 0.09
14 5 0.11
15 6 0.14
ACGTcount: A:0.73, C:0.11, G:0.00, T:0.16
Consensus pattern (12 bp):
AACATAAAAATA
Found at i:25823845 original size:23 final size:23
Alignment explanation
Indices: 25823792--25823861 Score: 74
Period size: 23 Copynumber: 3.1 Consensus size: 23
25823782 ACAATAAAAC
* *
25823792 AACTAAAAATAAACATAAACAT-A
1 AACT-AAAATAAAAATAAAAATAA
25823815 AACATAAAATAAAAATAAAAATAA
1 AAC-TAAAATAAAAATAAAAATAA
*
25823839 AACTAAAA-AGAAA-AAAAATAA
1 AACTAAAATAAAAATAAAAATAA
25823860 AA
1 AA
25823862 TCAATGATCT
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
21 10 0.24
22 4 0.10
23 23 0.55
24 5 0.12
ACGTcount: A:0.77, C:0.07, G:0.01, T:0.14
Consensus pattern (23 bp):
AACTAAAATAAAAATAAAAATAA
Found at i:25823861 original size:6 final size:6
Alignment explanation
Indices: 25823795--25823853 Score: 66
Period size: 6 Copynumber: 10.0 Consensus size: 6
25823785 ATAAAACAAC
* * * *
25823795 TAAAAA TAAACA TAAACA TAAACA T-AAAA TAAAAA TAAAAA TAAAAC
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA
*
25823842 TAAAAA GAAAAA
1 TAAAAA TAAAAA
25823854 AAATAAAATC
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
5 4 0.09
6 43 0.91
ACGTcount: A:0.76, C:0.07, G:0.02, T:0.15
Consensus pattern (6 bp):
TAAAAA
Found at i:25825305 original size:15 final size:15
Alignment explanation
Indices: 25825287--25825333 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
25825277 GAAAATCATA
*
25825287 AATAATAATAATACT
1 AATAATAATAATACG
*
25825302 AATAATAAAAATACG
1 AATAATAATAATACG
*
25825317 AACTAAAAATAATACG
1 AA-TAATAATAATACG
25825333 A
1 A
25825334 GTAAACAAGT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
15 15 0.56
16 12 0.44
ACGTcount: A:0.64, C:0.09, G:0.04, T:0.23
Consensus pattern (15 bp):
AATAATAATAATACG
Found at i:25829389 original size:21 final size:22
Alignment explanation
Indices: 25829365--25829407 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
25829355 AAAGGAACCT
*
25829365 ATTAGAA-GTAAATAAAAAAAA
1 ATTAGAATGTAAACAAAAAAAA
*
25829386 ATTAGAATGTAAACAAATAAAA
1 ATTAGAATGTAAACAAAAAAAA
25829408 TAAAATAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.67, C:0.02, G:0.09, T:0.21
Consensus pattern (22 bp):
ATTAGAATGTAAACAAAAAAAA
Found at i:25841146 original size:21 final size:23
Alignment explanation
Indices: 25841108--25841152 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
25841098 ATTAGGTGTA
*
25841108 TTAATTCATAATATAA-TTAATT
1 TTAATTCATAATACAATTTAATT
*
25841130 TTAATT-ATAATCCAATTTAATT
1 TTAATTCATAATACAATTTAATT
25841152 T
1 T
25841153 GGGTTAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.42, C:0.07, G:0.00, T:0.51
Consensus pattern (23 bp):
TTAATTCATAATACAATTTAATT
Found at i:25847029 original size:279 final size:280
Alignment explanation
Indices: 25846691--25847248 Score: 1046
Period size: 279 Copynumber: 2.0 Consensus size: 280
25846681 GTACCCACAG
25846691 GGACTGTGAAAAAAATTATTTATGAATGCAATTAAAAACACTTTGGTGAAAAAAAATATTTTGAT
1 GGACTGTGAAAAAAATTATTTATGAATGCAATTAAAAACACTTTGGTGAAAAAAAATATTTTGAT
25846756 TTGAGGAGGTGATTCAAAACTAAGATTTTAACTAAGTAAAATAAATAAAAATAAAATAAAAGTAC
66 TTGAGGAGGTGATTCAAAACTAAGATTTTAACTAAGTAAAATAAATAAAAATAAAATAAAAGTAC
25846821 CAATGCACGATTTT-AAAGATGATTTTAATCAAGATGACATAATTGTGTTAGATTAATTACATTT
131 CAATGCACGATTTTAAAAGATGATTTTAATCAAGATGACATAATTGTGTTAGATTAATTACATTT
*
25846885 CTTAACTTAGAACTATTAAACTCATGTTTATATTGTTACGAATAAATTCATGGCAACTCGGTAAT
196 CTTAACTTAGAACTATTAAACTCATGTTTATATTGTTACGAATAAATTCACGGCAACTCGGTAAT
*
25846950 TTGCTAACTTAGGAACATAA
261 TTGCAAACTTAGGAACATAA
* *
25846970 GGACTGTGAAAAGAATTATTTATGAATGCAATTAAAAACACTTTGGTGAAGAAAAATATTTTGAT
1 GGACTGTGAAAAAAATTATTTATGAATGCAATTAAAAACACTTTGGTGAAAAAAAATATTTTGAT
*
25847035 TTGAGGAGGTGATTCAAAACTAAGATTTTAACTAAGTAAAATAAATAAAAATAAAATAGAAGTAC
66 TTGAGGAGGTGATTCAAAACTAAGATTTTAACTAAGTAAAATAAATAAAAATAAAATAAAAGTAC
25847100 CAATGCACGATTTTAAAAGATGATTTTAATCAAGATGACATAATTGTGTTAGATTAATTACATTT
131 CAATGCACGATTTTAAAAGATGATTTTAATCAAGATGACATAATTGTGTTAGATTAATTACATTT
* *
25847165 CTTAACTTAGAACTATTAAACTCATGTTTATGTTGTTATGAATAAATTCACGGCAACTCGGTAAT
196 CTTAACTTAGAACTATTAAACTCATGTTTATATTGTTACGAATAAATTCACGGCAACTCGGTAAT
25847230 TTGCAAACTTAGGAACATA
261 TTGCAAACTTAGGAACATA
25847249 CTCACTACCA
Statistics
Matches: 271, Mismatches: 7, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
279 141 0.52
280 130 0.48
ACGTcount: A:0.42, C:0.10, G:0.15, T:0.33
Consensus pattern (280 bp):
GGACTGTGAAAAAAATTATTTATGAATGCAATTAAAAACACTTTGGTGAAAAAAAATATTTTGAT
TTGAGGAGGTGATTCAAAACTAAGATTTTAACTAAGTAAAATAAATAAAAATAAAATAAAAGTAC
CAATGCACGATTTTAAAAGATGATTTTAATCAAGATGACATAATTGTGTTAGATTAATTACATTT
CTTAACTTAGAACTATTAAACTCATGTTTATATTGTTACGAATAAATTCACGGCAACTCGGTAAT
TTGCAAACTTAGGAACATAA
Found at i:25853887 original size:3 final size:3
Alignment explanation
Indices: 25853879--25853931 Score: 79
Period size: 3 Copynumber: 17.7 Consensus size: 3
25853869 CGAGGATCCT
* * *
25853879 GAA GAA GAA GAA GAA GAA GAA GAA TAA GAA GAA AAA GAA AAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
25853927 GAA GA
1 GAA GA
25853932 TCCCATAGAG
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.70, C:0.00, G:0.28, T:0.02
Consensus pattern (3 bp):
GAA
Found at i:25856116 original size:21 final size:23
Alignment explanation
Indices: 25856078--25856122 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
25856068 ATTATGTGTA
*
25856078 TTAATTCATAATATAA-TTAATT
1 TTAATTCATAATACAATTTAATT
*
25856100 TTAATT-ATAATCCAATTTAATT
1 TTAATTCATAATACAATTTAATT
25856122 T
1 T
25856123 GGGTTAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.42, C:0.07, G:0.00, T:0.51
Consensus pattern (23 bp):
TTAATTCATAATACAATTTAATT
Found at i:25860332 original size:28 final size:29
Alignment explanation
Indices: 25860283--25860337 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 29
25860273 TTAAAATTTT
25860283 AATAAAAGGAAAAAATTAATAAAATAAAA
1 AATAAAAGGAAAAAATTAATAAAATAAAA
* * *
25860312 AATAAAATG-AAATATTGATAAAATAA
1 AATAAAAGGAAAAAATTAATAAAATAA
25860338 TATATTTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 15 0.65
29 8 0.35
ACGTcount: A:0.71, C:0.00, G:0.07, T:0.22
Consensus pattern (29 bp):
AATAAAAGGAAAAAATTAATAAAATAAAA
Found at i:25870076 original size:29 final size:29
Alignment explanation
Indices: 25870014--25870080 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 29
25870004 TTGATGAATG
* *
25870014 AAAAGGGATAGCTTCAGCTATCGAATACG
1 AAAAGGGATAGCTCCAGCTATCGAATACA
* * * *
25870043 GAAAGGGATAGCTCCGGCTATCGATTATA
1 AAAAGGGATAGCTCCAGCTATCGAATACA
25870072 AAAAGGGAT
1 AAAAGGGAT
25870081 GGTGACAACC
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.37, C:0.15, G:0.27, T:0.21
Consensus pattern (29 bp):
AAAAGGGATAGCTCCAGCTATCGAATACA
Found at i:25870131 original size:30 final size:30
Alignment explanation
Indices: 25870097--25870172 Score: 93
Period size: 30 Copynumber: 2.5 Consensus size: 30
25870087 AACCATCGAA
*
25870097 CTATGAAGAAGGATGGCTTCCGCTATC-AAT
1 CTATGAA-AAGGATGGCTTCAGCTATCAAAT
*
25870127 CTATGAAAAGGGATAGCTTCAGCTATCAAAT
1 CTATGAAAA-GGATGGCTTCAGCTATCAAAT
25870158 -TATGAAAAAGGATGG
1 CTATG-AAAAGGATGG
25870173 TGACGACCAT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
29 2 0.05
30 31 0.77
31 7 0.17
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.25
Consensus pattern (30 bp):
CTATGAAAAGGATGGCTTCAGCTATCAAAT
Found at i:25870162 original size:60 final size:57
Alignment explanation
Indices: 25870011--25870172 Score: 148
Period size: 60 Copynumber: 2.7 Consensus size: 57
25870001 TCATTGATGA
* * * *
25870011 ATGAAAAGGGATAGCTTCAGCTATCGAATACGGAAAGGGATAGCTCCGGCTATCGATT
1 ATGAAAAGGGATAGCTTCAGCTATCGAATA-TGAAAAGGATGGCTCCGGCTATCAATT
* * * * *
25870069 ATAAAAAGGGAT-GGTGACAACCATCGAACTATGAAGAAGGATGGCTTCC-GCTATCAATCT
1 ATGAAAAGGGATAGCT-TCAGCTATCGAA-TATGAA-AAGGATGGC-TCCGGCTATCAAT-T
*
25870129 ATGAAAAGGGATAGCTTCAGCTATCAAATTATGAAAAAGGATGG
1 ATGAAAAGGGATAGCTTCAGCTATCGAA-TATG-AAAAGGATGG
25870173 TGACGACCAT
Statistics
Matches: 81, Mismatches: 16, Indels: 12
0.74 0.15 0.11
Matches are distributed among these distances:
57 2 0.02
58 23 0.28
59 17 0.21
60 35 0.43
61 4 0.05
ACGTcount: A:0.37, C:0.15, G:0.25, T:0.22
Consensus pattern (57 bp):
ATGAAAAGGGATAGCTTCAGCTATCGAATATGAAAAGGATGGCTCCGGCTATCAATT
Found at i:25870182 original size:90 final size:90
Alignment explanation
Indices: 25870044--25870260 Score: 237
Period size: 90 Copynumber: 2.4 Consensus size: 90
25870034 TCGAATACGG
* * *
25870044 AAAGGGATAGCTCCGGCTATC-GATTAT-AAAAAGGGATGGTGACAACCATCGAACTATGAAGAA
1 AAAGGGATAGCTTCGGCTATCAAATTATGAAAAA-GGATGGTGACAACCATCGAACAATGAA-AA
** *
25870107 -GGATGGCTTCCG-CTATC-AATCTATGA
64 GGGATGG-TAACGACCATCAAAT-TATGA
* * *
25870133 AAAGGGATAGCTTCAGCTATCAAATTATGAAAAAGGATGGTGACGACCATCGAGCAATGAAAAGG
1 AAAGGGATAGCTTCGGCTATCAAATTATGAAAAAGGATGGTGACAACCATCGAACAATGAAAAGG
*
25870198 GATGGTAATGACCATCAAATTATGA
66 GATGGTAACGACCATCAAATTATGA
* * * *
25870223 AAAGGGATAGCTTTGGCTGTCAAACTATGAAAATGGAT
1 AAAGGGATAGCTTCGGCTATCAAATTATGAAAAAGGAT
25870261 AACTTCGGTT
Statistics
Matches: 108, Mismatches: 15, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
89 23 0.21
90 77 0.71
91 8 0.07
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.23
Consensus pattern (90 bp):
AAAGGGATAGCTTCGGCTATCAAATTATGAAAAAGGATGGTGACAACCATCGAACAATGAAAAGG
GATGGTAACGACCATCAAATTATGA
Found at i:25870223 original size:30 final size:30
Alignment explanation
Indices: 25870151--25870230 Score: 97
Period size: 30 Copynumber: 2.7 Consensus size: 30
25870141 AGCTTCAGCT
* *
25870151 ATCAAATTATGAAAAAGGATGGTGACGACC
1 ATCAAATTATGAAAAGGGATGGTAACGACC
* *** *
25870181 ATCGAGCAATGAAAAGGGATGGTAATGACC
1 ATCAAATTATGAAAAGGGATGGTAACGACC
25870211 ATCAAATTATGAAAAGGGAT
1 ATCAAATTATGAAAAGGGAT
25870231 AGCTTTGGCT
Statistics
Matches: 39, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.44, C:0.11, G:0.25, T:0.20
Consensus pattern (30 bp):
ATCAAATTATGAAAAGGGATGGTAACGACC
Found at i:25872462 original size:25 final size:24
Alignment explanation
Indices: 25872433--25872577 Score: 143
Period size: 25 Copynumber: 5.8 Consensus size: 24
25872423 TGTATACTCA
*
25872433 TACGAGCT-ATGAATCGGTATGCTC
1 TACGAGCTGA-GAATCGGTAAGCTC
*
25872457 TCACGAGTTGTA-AATCGGTAAGCTC
1 T-ACGAGCTG-AGAATCGGTAAGCTC
25872482 ATACGAGCTGAGAATCGGTAAGCTC
1 -TACGAGCTGAGAATCGGTAAGCTC
* *
25872507 ATATGAGCTGAGAACCGGTAAGCTC
1 -TACGAGCTGAGAATCGGTAAGCTC
* *
25872532 TCATGAGCTGCA-AATCGATAAGCTC
1 T-ACGAGCTG-AGAATCGGTAAGCTC
25872557 TTACGAGCTGAGAATCGGTAA
1 -TACGAGCTGAGAATCGGTAA
25872578 CCCTAATGAC
Statistics
Matches: 103, Mismatches: 9, Indels: 17
0.80 0.07 0.13
Matches are distributed among these distances:
24 4 0.04
25 95 0.92
26 3 0.03
27 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (24 bp):
TACGAGCTGAGAATCGGTAAGCTC
Found at i:25872526 original size:75 final size:75
Alignment explanation
Indices: 25872429--25872577 Score: 210
Period size: 75 Copynumber: 2.0 Consensus size: 75
25872419 TACATGTATA
* * * * *
25872429 CTCATACGAGCTATGAATCGGTATGCTCTCACGAGTTGTAAATCGGTAAGCTCATACGAGCTGAG
1 CTCATACGAGCTATGAACCGGTAAGCTCTCACGAGCTGCAAATCGATAAGCTCATACGAGCTGAG
25872494 AATCGGTAAG
66 AATCGGTAAG
* * *
25872504 CTCATATGAGCTGA-GAACCGGTAAGCTCTCATGAGCTGCAAATCGATAAGCTCTTACGAGCTGA
1 CTCATACGAGCT-ATGAACCGGTAAGCTCTCACGAGCTGCAAATCGATAAGCTCATACGAGCTGA
25872568 GAATCGGTAA
65 GAATCGGTAA
25872578 CCCTAATGAC
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
75 64 0.98
76 1 0.02
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.24
Consensus pattern (75 bp):
CTCATACGAGCTATGAACCGGTAAGCTCTCACGAGCTGCAAATCGATAAGCTCATACGAGCTGAG
AATCGGTAAG
Found at i:25878851 original size:41 final size:41
Alignment explanation
Indices: 25878794--25878879 Score: 154
Period size: 41 Copynumber: 2.1 Consensus size: 41
25878784 CCCCTCTAAC
*
25878794 ATTTCCTGAGATATTAATTTGATGCAATTTTTTGAGAAGGA
1 ATTTCCTGAGAGATTAATTTGATGCAATTTTTTGAGAAGGA
*
25878835 ATTTCCTGAGAGATTAATTTGATGCAATTTTTTGAGAATGA
1 ATTTCCTGAGAGATTAATTTGATGCAATTTTTTGAGAAGGA
25878876 ATTT
1 ATTT
25878880 TCTAAGTAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.31, C:0.07, G:0.19, T:0.43
Consensus pattern (41 bp):
ATTTCCTGAGAGATTAATTTGATGCAATTTTTTGAGAAGGA
Found at i:25886933 original size:14 final size:14
Alignment explanation
Indices: 25886914--25886941 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
25886904 CGATTGTGCC
25886914 AAAAGAAGCTACAA
1 AAAAGAAGCTACAA
25886928 AAAAGAAGCTACAA
1 AAAAGAAGCTACAA
25886942 GTGAACAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.14, G:0.14, T:0.07
Consensus pattern (14 bp):
AAAAGAAGCTACAA
Found at i:25888007 original size:25 final size:25
Alignment explanation
Indices: 25887979--25888094 Score: 78
Period size: 25 Copynumber: 4.6 Consensus size: 25
25887969 AAAAATTCTC
25887979 TGGAAAGCCTTTGTGGCATATCACT
1 TGGAAAGCCTTTGTGGCATATCACT
* *
25888004 TGGAAAGCCTTTATGGCGA-ATTC-TT
1 TGGAAAGCCTTTGTGGC-ATA-TCACT
* *
25888029 TGGAAAGCCTTTGTAGTGAAT-TCTC-
1 TGGAAAGCCTTTGT-G-GCATATCACT
** * * *
25888054 AAGAAAGCCTTTATGGCGTATCATT
1 TGGAAAGCCTTTGTGGCATATCACT
*
25888079 TGGAAAGCCCTTGTGG
1 TGGAAAGCCTTTGTGG
25888095 AGAATTCTCT
Statistics
Matches: 67, Mismatches: 16, Indels: 16
0.68 0.16 0.16
Matches are distributed among these distances:
23 2 0.03
24 3 0.04
25 56 0.84
26 5 0.07
27 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
TGGAAAGCCTTTGTGGCATATCACT
Found at i:25888060 original size:50 final size:50
Alignment explanation
Indices: 25888006--25888103 Score: 144
Period size: 50 Copynumber: 2.0 Consensus size: 50
25887996 ATATCACTTG
* *
25888006 GAAAGCCTTTATGGCGAATTC-TTTGGAAAGCCTTTGTAGTGAATTCTCAA
1 GAAAGCCTTTATGGCGAA-TCATTTGGAAAGCCCTTGTAGAGAATTCTCAA
* *
25888056 GAAAGCCTTTATGGCGTATCATTTGGAAAGCCCTTGTGGAGAATTCTC
1 GAAAGCCTTTATGGCGAATCATTTGGAAAGCCCTTGTAGAGAATTCTC
25888104 TCGAAATCCA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
49 2 0.05
50 41 0.95
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (50 bp):
GAAAGCCTTTATGGCGAATCATTTGGAAAGCCCTTGTAGAGAATTCTCAA
Found at i:25890254 original size:39 final size:38
Alignment explanation
Indices: 25890187--25890260 Score: 103
Period size: 39 Copynumber: 1.9 Consensus size: 38
25890177 GAAGTAGGTA
* **
25890187 GCTAGGGTAGGAACAAGAAAAAGGGAAGAAGAAAGGCG
1 GCTAGGGTAGGAAAAAGAAAAAAAGAAGAAGAAAGGCG
*
25890225 GCTAGGGTAGGGAAAAAGAAAAAAAGAAGAATAAAG
1 GCTAGGGTA-GGAAAAAGAAAAAAAGAAGAAGAAAG
25890261 AAGAATTAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
38 9 0.29
39 22 0.71
ACGTcount: A:0.53, C:0.05, G:0.35, T:0.07
Consensus pattern (38 bp):
GCTAGGGTAGGAAAAAGAAAAAAAGAAGAAGAAAGGCG
Found at i:25911171 original size:331 final size:331
Alignment explanation
Indices: 25910569--25911230 Score: 1324
Period size: 331 Copynumber: 2.0 Consensus size: 331
25910559 TCAAACTTCT
25910569 TAATTTCAAACCTTATTGTTGTCATCTCTAAAAAGGATGATCTATAAAAATTAAACTAGCTCTGA
1 TAATTTCAAACCTTATTGTTGTCATCTCTAAAAAGGATGATCTATAAAAATTAAACTAGCTCTGA
25910634 TACCACTTGTTTGGGATCGACCCGATTAAGCGACAAGTAAAAAAATAGCGAAATAAATTAAAAAA
66 TACCACTTGTTTGGGATCGACCCGATTAAGCGACAAGTAAAAAAATAGCGAAATAAATTAAAAAA
25910699 TTGATCACACAAATTTAACGTAGAAAACCCCTCCAAAAAGGATAAAAAACCACGGGCAAATATAA
131 TTGATCACACAAATTTAACGTAGAAAACCCCTCCAAAAAGGATAAAAAACCACGGGCAAATATAA
25910764 TTTTACTATAATGGAAAAAGAACGAAGAATACAAAAGATGGAGATAAAAACTAAACCTCGAAAAC
196 TTTTACTATAATGGAAAAAGAACGAAGAATACAAAAGATGGAGATAAAAACTAAACCTCGAAAAC
25910829 TCAAAAACAAAGAACTCTTAAAATGTAAACACAAAATTCTCTAAATGTGTTATGAGTTCTAATCT
261 TCAAAAACAAAGAACTCTTAAAATGTAAACACAAAATTCTCTAAATGTGTTATGAGTTCTAATCT
25910894 CTAATG
326 CTAATG
25910900 TAATTTCAAACCTTATTGTTGTCATCTCTAAAAAGGATGATCTATAAAAATTAAACTAGCTCTGA
1 TAATTTCAAACCTTATTGTTGTCATCTCTAAAAAGGATGATCTATAAAAATTAAACTAGCTCTGA
25910965 TACCACTTGTTTGGGATCGACCCGATTAAGCGACAAGTAAAAAAATAGCGAAATAAATTAAAAAA
66 TACCACTTGTTTGGGATCGACCCGATTAAGCGACAAGTAAAAAAATAGCGAAATAAATTAAAAAA
25911030 TTGATCACACAAATTTAACGTAGAAAACCCCTCCAAAAAGGATAAAAAACCACGGGCAAATATAA
131 TTGATCACACAAATTTAACGTAGAAAACCCCTCCAAAAAGGATAAAAAACCACGGGCAAATATAA
25911095 TTTTACTATAATGGAAAAAGAACGAAGAATACAAAAGATGGAGATAAAAACTAAACCTCGAAAAC
196 TTTTACTATAATGGAAAAAGAACGAAGAATACAAAAGATGGAGATAAAAACTAAACCTCGAAAAC
25911160 TCAAAAACAAAGAACTCTTAAAATGTAAACACAAAATTCTCTAAATGTGTTATGAGTTCTAATCT
261 TCAAAAACAAAGAACTCTTAAAATGTAAACACAAAATTCTCTAAATGTGTTATGAGTTCTAATCT
25911225 CTAATG
326 CTAATG
25911231 GGTGTATTTT
Statistics
Matches: 331, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
331 331 1.00
ACGTcount: A:0.46, C:0.16, G:0.13, T:0.25
Consensus pattern (331 bp):
TAATTTCAAACCTTATTGTTGTCATCTCTAAAAAGGATGATCTATAAAAATTAAACTAGCTCTGA
TACCACTTGTTTGGGATCGACCCGATTAAGCGACAAGTAAAAAAATAGCGAAATAAATTAAAAAA
TTGATCACACAAATTTAACGTAGAAAACCCCTCCAAAAAGGATAAAAAACCACGGGCAAATATAA
TTTTACTATAATGGAAAAAGAACGAAGAATACAAAAGATGGAGATAAAAACTAAACCTCGAAAAC
TCAAAAACAAAGAACTCTTAAAATGTAAACACAAAATTCTCTAAATGTGTTATGAGTTCTAATCT
CTAATG
Found at i:25914385 original size:23 final size:23
Alignment explanation
Indices: 25914334--25914385 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 23
25914324 AGTAATCAAA
* * *
25914334 ATTTAACTGGGAAAAGATAGCAG
1 ATTTAACTGGAAAAAGAAACCAG
*
25914357 AGTTTAACTGGAAAAAGAAACCCG
1 A-TTTAACTGGAAAAAGAAACCAG
25914381 ATTTA
1 ATTTA
25914386 TGTGGGGAAC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
23 5 0.21
24 19 0.79
ACGTcount: A:0.44, C:0.12, G:0.21, T:0.23
Consensus pattern (23 bp):
ATTTAACTGGAAAAAGAAACCAG
Found at i:25928052 original size:10 final size:10
Alignment explanation
Indices: 25928037--25928061 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
25928027 TAGTACTGTT
25928037 TAAGTTACTG
1 TAAGTTACTG
25928047 TAAGTTACTG
1 TAAGTTACTG
25928057 TAAGT
1 TAAGT
25928062 CACGTCTCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.40
Consensus pattern (10 bp):
TAAGTTACTG
Found at i:25929382 original size:14 final size:13
Alignment explanation
Indices: 25929345--25929383 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
25929335 GTTGTGTGAA
*
25929345 AAATTTATGAAAC
1 AAATTTATAAAAC
*
25929358 AAATTTATAAAAG
1 AAATTTATAAAAC
25929371 AAATTATATAAAA
1 AAATT-TATAAAA
25929384 ATTAAATGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 16 0.70
14 7 0.30
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.31
Consensus pattern (13 bp):
AAATTTATAAAAC
Found at i:25929649 original size:26 final size:27
Alignment explanation
Indices: 25929619--25929676 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 27
25929609 AGGAAAACTA
* **
25929619 AATAATA-GTATATATATGTTAAGTGT
1 AATAATATGTATAGATATAATAAGTGT
*
25929645 AATAA-ATGTTTAGATATAATAAGTGT
1 AATAATATGTATAGATATAATAAGTGT
25929671 AATAAT
1 AATAAT
25929677 TAATGGTTAC
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
25 1 0.04
26 25 0.96
ACGTcount: A:0.47, C:0.00, G:0.14, T:0.40
Consensus pattern (27 bp):
AATAATATGTATAGATATAATAAGTGT
Found at i:25931664 original size:14 final size:14
Alignment explanation
Indices: 25931645--25931684 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
25931635 TGACCTGTCC
25931645 ATATTAATTTTTTT
1 ATATTAATTTTTTT
25931659 ATATT-ATTATTTTT
1 ATATTAATT-TTTTT
25931673 ATA-TAATTTTTT
1 ATATTAATTTTTT
25931685 AAAAAAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 8 0.33
14 16 0.67
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
ATATTAATTTTTTT
Found at i:25931749 original size:25 final size:26
Alignment explanation
Indices: 25931721--25931783 Score: 83
Period size: 29 Copynumber: 2.3 Consensus size: 26
25931711 TAAAAACATT
*
25931721 AAAATAAAT-GCTTCCCAACAAATTG
1 AAAATAAATAACTTCCCAACAAATTG
25931746 AAAATAAATTAAAACTTCCCAACAAATTG
1 AAAATAAA-T--AACTTCCCAACAAATTG
25931775 AAAATAAAT
1 AAAATAAAT
25931784 TAAAAAGATT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
25 8 0.24
26 1 0.03
28 1 0.03
29 23 0.70
ACGTcount: A:0.56, C:0.16, G:0.05, T:0.24
Consensus pattern (26 bp):
AAAATAAATAACTTCCCAACAAATTG
Found at i:25931764 original size:29 final size:29
Alignment explanation
Indices: 25931731--25931788 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
25931721 AAAATAAATG
25931731 CTTCCCAACAAATTGAAAATAAATTAAAA
1 CTTCCCAACAAATTGAAAATAAATTAAAA
25931760 CTTCCCAACAAATTGAAAATAAATTAAAA
1 CTTCCCAACAAATTGAAAATAAATTAAAA
25931789 AGATTATGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.55, C:0.17, G:0.03, T:0.24
Consensus pattern (29 bp):
CTTCCCAACAAATTGAAAATAAATTAAAA
Found at i:25931940 original size:21 final size:22
Alignment explanation
Indices: 25931914--25931955 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
25931904 AAATAGTGGC
*
25931914 AAAACAACACCAAAAA-CAGTG
1 AAAACAACAACAAAAAGCAGTG
*
25931935 AAAACAGCAACAAAAAGCAGT
1 AAAACAACAACAAAAAGCAGT
25931956 ATTTTTCTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.62, C:0.21, G:0.12, T:0.05
Consensus pattern (22 bp):
AAAACAACAACAAAAAGCAGTG
Found at i:25937697 original size:5 final size:5
Alignment explanation
Indices: 25937687--25937730 Score: 52
Period size: 5 Copynumber: 8.6 Consensus size: 5
25937677 GCCTAAGATG
* * *
25937687 TGAAT TGAAT TGAAT TGAAT TGAACA TGAAT TGTAT TAAAT TGA
1 TGAAT TGAAT TGAAT TGAAT TGAA-T TGAAT TGAAT TGAAT TGA
25937731 GTTAAATTTA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
5 28 0.88
6 4 0.12
ACGTcount: A:0.41, C:0.02, G:0.18, T:0.39
Consensus pattern (5 bp):
TGAAT
Found at i:25948496 original size:41 final size:43
Alignment explanation
Indices: 25948397--25948559 Score: 143
Period size: 43 Copynumber: 3.8 Consensus size: 43
25948387 CAATGTCAAC
* * * *
25948397 GTCCCAGACGTGGTCTTACATGTAATCACATATCGATGCCACT
1 GTCCCAGACATGGTCTTACACGTAATCAAATATCGATGCCAAT
* * * *
25948440 ATCCCAAACAGGGTCTTACACG-AATCAAATAT-GATGCTAAT
1 GTCCCAGACATGGTCTTACACGTAATCAAATATCGATGCCAAT
* * * *
25948481 GTCCCAGACATGGTCTTACACGTAAACACAA-ACCAATGCCAAC
1 GTCCCAGACATGGTCTTACACGTAATCA-AATATCGATGCCAAT
* * * * *
25948524 GTCCAAGACGTGGTCTTACACGAAAACACATATCGA
1 GTCCCAGACATGGTCTTACACGTAATCAAATATCGA
25948560 AAATCCTATG
Statistics
Matches: 94, Mismatches: 22, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
41 26 0.28
42 15 0.16
43 53 0.56
ACGTcount: A:0.34, C:0.27, G:0.17, T:0.22
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTACACGTAATCAAATATCGATGCCAAT
Found at i:25954355 original size:13 final size:13
Alignment explanation
Indices: 25954339--25954366 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
25954329 AAAATTATTT
25954339 TAAAAATAAAAAA
1 TAAAAATAAAAAA
25954352 TAAAAATAAAAAA
1 TAAAAATAAAAAA
25954365 TA
1 TA
25954367 TATATTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (13 bp):
TAAAAATAAAAAA
Found at i:25955587 original size:16 final size:16
Alignment explanation
Indices: 25955551--25955592 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
25955541 AACGTGTTAT
*
25955551 AAAATAAA-AATACAG
1 AAAATAAAGAATAAAG
25955566 AAAATAAAGAATAAAG
1 AAAATAAAGAATAAAG
*
25955582 AGAATAGAAGA
1 AAAATA-AAGA
25955593 GCAAAAGAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 8 0.35
16 11 0.48
17 4 0.17
ACGTcount: A:0.71, C:0.02, G:0.14, T:0.12
Consensus pattern (16 bp):
AAAATAAAGAATAAAG
Found at i:25955993 original size:24 final size:25
Alignment explanation
Indices: 25955946--25955994 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
25955936 AGTAGAGGAA
25955946 AATGAAATTCGATTCAAGTTAAATTG
1 AATGAAATTC-ATTCAAGTTAAATTG
*
25955972 AATGAAATT-ATTTAAGTTAAATT
1 AATGAAATTCATTCAAGTTAAATT
25955995 AAAAAAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 13 0.59
26 9 0.41
ACGTcount: A:0.45, C:0.04, G:0.12, T:0.39
Consensus pattern (25 bp):
AATGAAATTCATTCAAGTTAAATTG
Found at i:25959691 original size:11 final size:11
Alignment explanation
Indices: 25959667--25959725 Score: 54
Period size: 11 Copynumber: 5.5 Consensus size: 11
25959657 CCATATCAGC
*
25959667 AAAAATTAA-A
1 AAAAATTAATT
25959677 AAAAATTAATT
1 AAAAATTAATT
25959688 AAAAATT--TCT
1 AAAAATTAAT-T
*
25959698 -AAAATATATTT
1 AAAAAT-TAATT
25959709 AAAAATTAATT
1 AAAAATTAATT
25959720 AAAAAT
1 AAAAAT
25959726 ACACATCCAT
Statistics
Matches: 41, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
9 6 0.15
10 11 0.27
11 18 0.44
12 6 0.15
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (11 bp):
AAAAATTAATT
Found at i:25965613 original size:18 final size:18
Alignment explanation
Indices: 25965590--25965625 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
25965580 AGAAAGACAA
25965590 GCTTTGAATTTAAGTGAC
1 GCTTTGAATTTAAGTGAC
25965608 GCTTTGAATTTAAGTGAC
1 GCTTTGAATTTAAGTGAC
25965626 ACTTGTTGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.11, G:0.22, T:0.39
Consensus pattern (18 bp):
GCTTTGAATTTAAGTGAC
Found at i:25969362 original size:14 final size:14
Alignment explanation
Indices: 25969343--25969369 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
25969333 TGGAGGATCA
25969343 GATATTTGGGTCCT
1 GATATTTGGGTCCT
25969357 GATATTTGGGTCC
1 GATATTTGGGTCC
25969370 AAGCTATAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.15, G:0.30, T:0.41
Consensus pattern (14 bp):
GATATTTGGGTCCT
Found at i:25976157 original size:5 final size:5
Alignment explanation
Indices: 25976139--25976171 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
25976129 TTAGATCTTC
25976139 AAAA- AAAAG AAAAAG AAAAG AAAAG AAAAG AAA
1 AAAAG AAAAG -AAAAG AAAAG AAAAG AAAAG AAA
25976172 GCCACCCTCC
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 4 0.15
5 18 0.67
6 5 0.19
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:25979886 original size:19 final size:20
Alignment explanation
Indices: 25979851--25979891 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
25979841 ACACGTCAAC
*
25979851 ATTTAATTAATTTTTTAAAA
1 ATTTAAATAATTTTTTAAAA
25979871 ATTTAAATAA-TTTTTAAAA
1 ATTTAAATAATTTTTTAAAA
25979890 AT
1 AT
25979892 AGTTTTTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
ATTTAAATAATTTTTTAAAA
Found at i:25988941 original size:110 final size:109
Alignment explanation
Indices: 25988752--25989156 Score: 611
Period size: 110 Copynumber: 3.7 Consensus size: 109
25988742 ATGTTTAGCT
* * * * * *
25988752 ATTTGGTTAAACGAG--AAATCGAAACCCAGCACATTAGGGCACG-TTCCTCGAATTT-CTAAAC
1 ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCCAAAC
*
25988813 GCAAAACATTGCCATATTTTGAAATTTTTAAAAGGATATTAAGCC
66 GCAAAACATTGCCTTATTTT-AAATTTTTAAAAGGATATTAAGCC
* *
25988858 ATTTGGTTGAACGAGAAAAATCGACACCCATCACCTTAGGGCATGTTTTCTCAAATTTCCCAAAC
1 ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCCAAAC
*
25988923 GCAAAACATTGCCTTATTTTAAAATTTTTAAAAGGATATTGAGCC
66 GCAAAACATTGCCTTATTTT-AAATTTTTAAAAGGATATTAAGCC
* *
25988968 ATTTGGTTGAACGAGAAAAATCAACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTTCCAAAC
1 ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCCAAAC
25989033 GCAAAACATTGCCTTATTTTAAATTTTTTAAAAGGATATTAAGCC
66 GCAAAACATTGCCTTATTTTAAA-TTTTTAAAAGGATATTAAGCC
* *
25989078 ATTTGATTGAATGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCCAAAC
1 ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCCAAAC
* *
25989143 GCTAAATATTGCCT
66 GCAAAACATTGCCT
25989157 CATACAGAAA
Statistics
Matches: 272, Mismatches: 22, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
106 14 0.05
108 24 0.09
109 13 0.05
110 221 0.81
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (109 bp):
ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCCAAAC
GCAAAACATTGCCTTATTTTAAATTTTTAAAAGGATATTAAGCC
Found at i:25989278 original size:15 final size:15
Alignment explanation
Indices: 25989254--25989286 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
25989244 GTAAAGAATG
25989254 AAATAAAT-AAAATA
1 AAATAAATAAAAATA
25989268 AAATAAAATAAAAATA
1 AAAT-AAATAAAAATA
25989284 AAA
1 AAA
25989287 AATCAAATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.24
15 4 0.24
16 9 0.53
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (15 bp):
AAATAAATAAAAATA
Found at i:25989287 original size:6 final size:5
Alignment explanation
Indices: 25989254--25989286 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
25989244 GTAAAGAATG
25989254 AAAT- AAATA AAATA AAATA AAATAA AAATA AAA
1 AAATA AAATA AAATA AAATA AAAT-A AAATA AAA
25989287 AATCAAATCA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 4 0.15
5 18 0.67
6 5 0.19
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAATA
Found at i:25989785 original size:3 final size:3
Alignment explanation
Indices: 25989734--25989764 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
25989724 AAATGCAATG
25989734 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
25989765 ACTAATTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:25990533 original size:15 final size:16
Alignment explanation
Indices: 25990513--25990545 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
25990503 TTATTTCTTC
25990513 TTGAATCCTTT-TTTT
1 TTGAATCCTTTCTTTT
25990528 TTGAATCCTTTCTTTT
1 TTGAATCCTTTCTTTT
25990544 TT
1 TT
25990546 TTTCAAAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.12, C:0.15, G:0.06, T:0.67
Consensus pattern (16 bp):
TTGAATCCTTTCTTTT
Found at i:25991511 original size:219 final size:218
Alignment explanation
Indices: 25991286--25991758 Score: 802
Period size: 219 Copynumber: 2.2 Consensus size: 218
25991276 GTATTTTTCG
* * * *
25991286 TCTGCTCCACTGCAACTTCAAGGAGATAAGATCTGAAATTCTTCGGTTTACTCCACTGTAACCTT
1 TCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTT
* *
25991351 AGGGAGATAAGACCTGATGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATTCTTTATTTTA
66 AGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTA
* * * * *
25991416 ATCCACTCTACGGTAATTTCAGGGAGATAGGATTACTATCTTTAATCTGCTCCGCTGTAATCTCA
131 ATCCACTCCACGGTAACTTAAGGAAGATAGGA-TACTATCTTCAATCTGCTCCGCTGTAATCTCA
25991481 GGGAGATAAGATCTCTGGCTTCAA
195 GGGAGATAAGATCTCTGGCTTCAA
25991505 TCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTT
1 TCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTT
25991570 AGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTA
66 AGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTA
* * * *
25991635 ATCCGCTCCACGGTAACTTAAGGAAGATAGGATAGTGTCTTCGATCTGCTCCGCTGTAATCTCAG
131 ATCCACTCCACGGTAACTTAAGGAAGATAGGATACTATCTTCAATCTGCTCCGCTGTAATCTCAG
25991700 GGAGATAAGATCTCTGGCTTCAA
196 GGAGATAAGATCTCTGGCTTCAA
25991723 TCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGA
1 TCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGA
25991759 TGCGATCTAC
Statistics
Matches: 239, Mismatches: 15, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
218 88 0.37
219 151 0.63
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (218 bp):
TCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTT
AGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTA
ATCCACTCCACGGTAACTTAAGGAAGATAGGATACTATCTTCAATCTGCTCCGCTGTAATCTCAG
GGAGATAAGATCTCTGGCTTCAA
Found at i:25991761 original size:172 final size:172
Alignment explanation
Indices: 25991499--25991839 Score: 504
Period size: 172 Copynumber: 2.0 Consensus size: 172
25991489 AGATCTCTGG
* **
25991499 CTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGT
1 CTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCT--AATGCTTCAATCTACTCCACTGT
* * *
25991564 AACCTTAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTT
64 AACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAAAGATAAAATCCTTT
25991629 ATTTTAATCCGCTCCACGGTAACTTAAGGAAGATAGGATAGTGT
129 ATTTTAATCCGCTCCACGGTAACTTAAGGAAGATAGGATAGTGT
* * * * *
25991673 CTTCGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCT-CTGGCTTCAATCTGCTCCACTGTA
1 CTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTAAT-GCTTCAATCTACTCCACTGTA
* *
25991737 ACCTCAGGGAGATAAGATCTGATGCGATCTACTCTACTGTAACTTCAGAAAGATAAAATCGTTTA
65 ACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAAAGATAAAATCCTTTA
* * *
25991802 TTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGAT
130 TTTTAATCCGCTCCACGGTAACTTAAGGAAGATAGGAT
25991840 TTGTAACTCG
Statistics
Matches: 150, Mismatches: 16, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
171 1 0.01
172 112 0.75
174 37 0.25
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (172 bp):
CTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTAATGCTTCAATCTACTCCACTGTAA
CCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAAAGATAAAATCCTTTAT
TTTAATCCGCTCCACGGTAACTTAAGGAAGATAGGATAGTGT
Found at i:25991815 original size:85 final size:84
Alignment explanation
Indices: 25991420--25991835 Score: 305
Period size: 87 Copynumber: 4.8 Consensus size: 84
25991410 ATTTTAATCC
* * * * * * * *
25991420 ACTCTACGGTAATTTCAGGGAGATAGGAT-TACTATCTTTAATCTGCTCCGCTGTAATCTCAGGG
1 ACTCTACTGTAACTTCAGAGAGATAAGATCT-TTAT-TTTAATCCGCTCCACTGTAACCTCAGGG
* * *
25991484 AGATAAGATCTCTGGCTTCAATCT
64 AGATAAGA--TCT-GATGCGATCT
* * * * ** ** ** *
25991508 GCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTTAGG
1 ACTCTACTGTAACTTCAGAGAGATAAGATCT-TTATT-TT-AATCCGCTCCACTGTAACCTCAGG
*
25991573 GAGATAAGACCTGATGCGATCT
63 GAGATAAGATCTGATGCGATCT
* * * *
25991595 ACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACGGTAACTTAAGGAA
1 ACTCTACTGTAACTTCAGAGAGATAAGAT-CTTTATTTTAATCCGCTCCACTGTAACCTCAGGGA
* * * *
25991660 GATAGGATAGTGTCTTCGATCT
65 GATAAGAT-CTG-ATGCGATCT
* ** * *** * *
25991682 GCTCCGCTGTAA-TCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGG
1 ACTCTACTGTAACT-TCAGAGAGATAAGATCT-TTATTTTAATCCGCTCCACTGTAACCTCAGGG
25991746 AGATAAGATCTGATGCGATCT
64 AGATAAGATCTGATGCGATCT
* * *
25991767 ACTCTACTGTAACTTCAGAAAGATAAAATCGTTTATTTTAATCCGCTCCACTGTAACTTCAGGGA
1 ACTCTACTGTAACTTCAGAGAGATAAGATC-TTTATTTTAATCCGCTCCACTGTAACCTCAGGGA
25991832 GATA
65 GATA
25991836 GGATTTGTAA
Statistics
Matches: 251, Mismatches: 67, Indels: 23
0.74 0.20 0.07
Matches are distributed among these distances:
85 84 0.33
86 11 0.04
87 96 0.38
88 28 0.11
89 5 0.02
90 27 0.11
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (84 bp):
ACTCTACTGTAACTTCAGAGAGATAAGATCTTTATTTTAATCCGCTCCACTGTAACCTCAGGGAG
ATAAGATCTGATGCGATCT
Found at i:25991835 original size:44 final size:43
Alignment explanation
Indices: 25991286--25991835 Score: 255
Period size: 44 Copynumber: 12.7 Consensus size: 43
25991276 GTATTTTTCG
* * **
25991286 TCTGCTCCACTGCAACTTCAAGGAGATAAGATCTGAAATT-CTTCGG
1 TCTGCTCCACTGTAACTTCAGGGAGATAAGATCT----TTACTTCAA
* * * * * *
25991332 TTTACTCCACTGTAACCTT-AGGGAGATAAGA-CCTGA-TGCGA
1 TCTGCTCCACTGTAA-CTTCAGGGAGATAAGATCTTTACTTCAA
* ** * * *
25991373 TCTACTCTGCTGTAACTTCAGAGAGATAAGATTCTTTATTTTAA
1 TCTGCTCCACTGTAACTTCAGGGAGATAAGA-TCTTTACTTCAA
** * * * * * *
25991417 TCCACTCTACGGTAATTTCAGGGAGATAGGAT-TACTATCTTTAA
1 TCTGCTCCACTGTAACTTCAGGGAGATAAGATCT-TTA-CTTCAA
* **
25991461 TCTGCTCCGCTGTAA-TCTCAGGGAGATAAGATCTCTGGCTTCAA
1 TCTGCTCCACTGTAACT-TCAGGGAGATAAGATCT-TTACTTCAA
* **
25991505 TCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATT-CTTCGG
1 TCTGCTCCACTGTAACTTCAGGGAGATAAGATCT----TTACTTCAA
* * * * *
25991551 TCTACTCCACTGTAACCTT-AGGGAGATAAGA-CCTGA-TGCGA
1 TCTGCTCCACTGTAA-CTTCAGGGAGATAAGATCTTTACTTCAA
* * * * *
25991592 TCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAA
1 TCTGCTCCACTGTAACTTCAGGGAGATAAGAT-CTTTACTTCAA
* * * * * * * *
25991636 TCCGCTCCACGGTAACTTAAGGAAGATAGGATAGTGT-CTTCGA
1 TCTGCTCCACTGTAACTTCAGGGAGATAAGAT-CTTTACTTCAA
* **
25991679 TCTGCTCCGCTGTAA-TCTCAGGGAGATAAGATCTCTGGCTTCAA
1 TCTGCTCCACTGTAACT-TCAGGGAGATAAGATCT-TTACTTCAA
* * * *
25991723 TCTGCTCCACTGTAACCTCAGGGAGATAAGATC-TGA-TGCGA
1 TCTGCTCCACTGTAACTTCAGGGAGATAAGATCTTTACTTCAA
* * ** * * *
25991764 TCTACTCTACTGTAACTTCAGAAAGATAAAATCGTTTATTTTAA
1 TCTGCTCCACTGTAACTTCAGGGAGATAAGATC-TTTACTTCAA
*
25991808 TCCGCTCCACTGTAACTTCAGGGAGATA
1 TCTGCTCCACTGTAACTTCAGGGAGATA
25991836 GGATTTGTAA
Statistics
Matches: 378, Mismatches: 99, Indels: 56
0.71 0.19 0.11
Matches are distributed among these distances:
40 6 0.02
41 86 0.23
42 5 0.01
43 39 0.10
44 180 0.48
45 3 0.01
46 53 0.14
47 6 0.02
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (43 bp):
TCTGCTCCACTGTAACTTCAGGGAGATAAGATCTTTACTTCAA
Found at i:25992652 original size:125 final size:125
Alignment explanation
Indices: 25991879--25992639 Score: 1405
Period size: 125 Copynumber: 6.1 Consensus size: 125
25991869 TTCGTTATTA
* * **
25991879 TGGCTTTAATCTTTTTAACTGTAATGTCGGAGAAACAAGATTCACCAATTTGGTTTTAATCTGCT
1 TGGCTTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTATT
* *
25991944 CCACTGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGATA
66 CCACTGCATCGCTTGGGGCGTAAGATTCGTTGTTGTAGCTTTAATCAAGATTCACCGATG
*
25992004 TGGCTTTAATCTTTTTAACTGCAATGTCGGAAAAACAAGATTCACCAATTTGGCTTTAATCTATT
1 TGGCTTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTATT
25992069 CCACTGCATCGCTTGGGGCGTAAGATTCGTTGTTGTAGCTTTAATCAAGATTCACCGATG
66 CCACTGCATCGCTTGGGGCGTAAGATTCGTTGTTGTAGCTTTAATCAAGATTCACCGATG
*
25992129 TGGCTTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTAGCTTTAATCTATT
1 TGGCTTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTATT
25992194 CCACTGCATCGCTTGGGGCGTAAGATTCGTTGTTGTAGCTTTAATCAAGATTCACCGATG
66 CCACTGCATCGCTTGGGGCGTAAGATTCGTTGTTGTAGCTTTAATCAAGATTCACCGATG
*
25992254 TGGCTTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTAGCTTTAATCTATT
1 TGGCTTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTATT
25992319 CCACTGCATCGCTTGGGGCGTAAGATTCGTTGTTGTAGCTTTAATCAAGATTCACCGATG
66 CCACTGCATCGCTTGGGGCGTAAGATTCGTTGTTGTAGCTTTAATCAAGATTCACCGATG
25992379 TGGCTTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTATT
1 TGGCTTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTATT
*
25992444 CCACTGCATCGCTTGGGGCGTAAGATTCGTTGTTGTAGCTTTAATCAAGATTCACTGATG
66 CCACTGCATCGCTTGGGGCGTAAGATTCGTTGTTGTAGCTTTAATCAAGATTCACCGATG
25992504 TGGCTTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTATT
1 TGGCTTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTATT
* * *
25992569 CCACTGTATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGAGG
66 CCACTGCATCGCTTGGGGCGTAAGATTCGTTGTTGTAGCTTTAATCAAGATTCACCGATG
25992629 TGGCTTTAATC
1 TGGCTTTAATC
25992640 GTTTGAATTG
Statistics
Matches: 621, Mismatches: 15, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
125 621 1.00
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.35
Consensus pattern (125 bp):
TGGCTTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTATT
CCACTGCATCGCTTGGGGCGTAAGATTCGTTGTTGTAGCTTTAATCAAGATTCACCGATG
Found at i:26003562 original size:16 final size:16
Alignment explanation
Indices: 26003529--26003563 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
26003519 TTCTATAATG
*
26003529 AAATGCCATGTAGACA
1 AAATGCCATGCAGACA
*
26003545 AAATGCCATGCAGTCA
1 AAATGCCATGCAGACA
26003561 AAA
1 AAA
26003564 CAAAATAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.46, C:0.20, G:0.17, T:0.17
Consensus pattern (16 bp):
AAATGCCATGCAGACA
Found at i:26005187 original size:18 final size:17
Alignment explanation
Indices: 26005116--26005184 Score: 59
Period size: 17 Copynumber: 3.9 Consensus size: 17
26005106 AAACTTAATT
26005116 GCACAATTTAATATTTAAA
1 GCACAATTTAATA-TT-AA
** *
26005135 G-ACAAGATAATATAATA
1 GCACAATTTAATATTA-A
*
26005152 GACACAATTAAATATTAA
1 G-CACAATTTAATATTAA
26005170 GCACAATTTAATATT
1 GCACAATTTAATATT
26005185 TAAAATCCAC
Statistics
Matches: 39, Mismatches: 8, Indels: 8
0.71 0.15 0.15
Matches are distributed among these distances:
16 1 0.03
17 16 0.41
18 11 0.28
19 11 0.28
ACGTcount: A:0.51, C:0.10, G:0.07, T:0.32
Consensus pattern (17 bp):
GCACAATTTAATATTAA
Found at i:26006488 original size:19 final size:18
Alignment explanation
Indices: 26006447--26006516 Score: 52
Period size: 19 Copynumber: 3.7 Consensus size: 18
26006437 TTCGCGTCTG
**
26006447 TTTCTTTCTTCTTTCTTTT
1 TTTCTTT-TTCTTTCTTCC
26006466 TTTCTTTTTCTTTGCTTCC
1 TTTCTTTTTCTTT-CTTCC
* * *
26006485 TTTCTGTTTCATT-TTAC
1 TTTCTTTTTCTTTCTTCC
26006502 TTTCTCTCTTTCTTT
1 TTTCT-T-TTTCTTT
26006517 TTCTTTATTT
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
17 8 0.20
18 6 0.15
19 27 0.66
ACGTcount: A:0.03, C:0.23, G:0.03, T:0.71
Consensus pattern (18 bp):
TTTCTTTTTCTTTCTTCC
Found at i:26009978 original size:110 final size:109
Alignment explanation
Indices: 26009794--26010118 Score: 395
Period size: 110 Copynumber: 3.0 Consensus size: 109
26009784 GCACCAAATA
* * * * * * * *
26009794 CATTCAAAAAAAATTGTGTGGTGGCCAGTAGATGGCCGGCACCAGGTACATTTTTTAGG-TCCCC
1 CATTTAAAAAAAATTGGGTGCTGGCCAATAGATGGCCGGCACCAAGTACA-TTTTTCGGCTCACA
** * * * *
26009858 AGACACTTTTTTTTACTTTGGGACACTGATGGTAGGCACCAGTGT
65 AGGTATTTTTTTTTACTTTGGGACACTGATGGCAGACACCAATGT
*
26009903 CATTTAAAAAAAATTTGGGTGCTGGCCAATAGATGGTCGGCACCAAGTACATTTTTCGGCTCACA
1 CATTTAAAAAAAA-TTGGGTGCTGGCCAATAGATGGCCGGCACCAAGTACATTTTTCGGCTCACA
* *
26009968 AGGTATTTTTTTTTACTTTGGGACACTGATGGCCGACACCAATTT
65 AGGTATTTTTTTTTACTTTGGGACACTGATGGCAGACACCAATGT
* *
26010013 CATTTAAAAAAAAACTTGGGTGCT-GACAAGTAGATGGCCGGCA-CAAGTACATTTTTCGGCTCT
1 CATTT-AAAAAAAA-TTGGGTGCTGGCCAA-TAGATGGCCGGCACCAAGTACATTTTTCGGCTCA
* *
26010076 CAATGTATTTTTTTTTACTTTGGGACACTGATGGCTGACACCA
63 CAAGGTATTTTTTTTTACTTTGGGACACTGATGGCAGACACCA
26010119 CCTTTTTTGG
Statistics
Matches: 189, Mismatches: 23, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
109 19 0.10
110 141 0.75
111 29 0.15
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (109 bp):
CATTTAAAAAAAATTGGGTGCTGGCCAATAGATGGCCGGCACCAAGTACATTTTTCGGCTCACAA
GGTATTTTTTTTTACTTTGGGACACTGATGGCAGACACCAATGT
Found at i:26010952 original size:90 final size:90
Alignment explanation
Indices: 26010838--26011164 Score: 428
Period size: 90 Copynumber: 3.6 Consensus size: 90
26010828 TTTATATCTG
* * *
26010838 TAAATTTAATTTAGTCCGTATTATATGTAGTGTAAATTTAAAATTTTCGAGTATTAATTTTACCT
1 TAAATTTAATTTAGTCCGTATTATATGTAGTTTGAATTTAAAATTTTCGTGTATTAATTTTACCT
26010903 ATCTGTTTGTAGTTTGTTGGGTGTT
66 ATCTGTTTGTAGTTTGTTGGGTGTT
** * * * *
26010928 TAAATTTAATTTAGTCTTTGTTATATATAGTTTGAATTTAAAAATTTT-GTGCACTAATTTTATC
1 TAAATTTAATTTAGTCCGTATTATATGTAGTTTGAATTT-AAAATTTTCGTGTATTAATTTTA-C
26010992 C-ATCTGTTTGTAGTTTGTTGGGTGTT
64 CTATCTGTTTGTAGTTTGTTGGGTGTT
* *
26011018 TAAATTTAATTTAGTCCGTATTATATGTAATTTGAATTTAGAATTTTCGTGTATTAATTTTA-CT
1 TAAATTTAATTTAGTCCGTATTATATGTAGTTTGAATTTAAAATTTTCGTGTATTAATTTTACCT
*
26011082 CATCTGTTTGTATTTTGTTGGGTGTT
66 -ATCTGTTTGTAGTTTGTTGGGTGTT
* * * * * * *
26011108 TAAATTTAATTTAGTGCATATTAT-TTTTGTTTGAATTTTATATTTTTGTGTATTAAT
1 TAAATTTAATTTAGTCCGTATTATATGTAGTTTGAATTTAAAATTTTCGTGTATTAAT
26011165 ATTCTAGAAT
Statistics
Matches: 205, Mismatches: 27, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
88 1 0.00
89 33 0.16
90 161 0.79
91 10 0.05
ACGTcount: A:0.26, C:0.06, G:0.15, T:0.53
Consensus pattern (90 bp):
TAAATTTAATTTAGTCCGTATTATATGTAGTTTGAATTTAAAATTTTCGTGTATTAATTTTACCT
ATCTGTTTGTAGTTTGTTGGGTGTT
Found at i:26023253 original size:27 final size:27
Alignment explanation
Indices: 26023223--26023400 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
26023213 ATATTGAGTC
* * * *
26023223 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
26023250 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
26023277 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
26023305 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
26023332 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
26023359 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
26023386 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
26023401 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:26023362 original size:82 final size:81
Alignment explanation
Indices: 26023244--26023399 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
26023234 TGCTATATAA
* *
26023244 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
26023309 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
26023326 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
26023390 CACTTAGTGC
65 CACTTAGTGC
26023400 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:26027101 original size:5 final size:5
Alignment explanation
Indices: 26027091--26027134 Score: 52
Period size: 5 Copynumber: 8.2 Consensus size: 5
26027081 CTTTTTTTTC
*
26027091 TCATT TCATT TCATTT TCATT TCCATT TCATT TGATT TCCATT T
1 TCATT TCATT TCA-TT TCATT T-CATT TCATT TCATT T-CATT T
26027135 AAATTTATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
5 20 0.59
6 14 0.41
ACGTcount: A:0.18, C:0.20, G:0.02, T:0.59
Consensus pattern (5 bp):
TCATT
Found at i:26027144 original size:21 final size:20
Alignment explanation
Indices: 26027115--26027189 Score: 100
Period size: 19 Copynumber: 3.7 Consensus size: 20
26027105 TTTCATTTCC
26027115 ATTTCATTTGATTTCCATTTAA
1 ATTT-ATTT-ATTTCCATTTAA
26027137 ATTTATTT-TTTCCATTTAA
1 ATTTATTTATTTCCATTTAA
*
26027156 ATTTATTTCATTTCTATTTAA
1 ATTTATTT-ATTTCCATTTAA
26027177 ATTTATTT-TTTCC
1 ATTTATTTATTTCC
26027190 TAATATACAA
Statistics
Matches: 49, Mismatches: 2, Indels: 7
0.84 0.03 0.12
Matches are distributed among these distances:
19 23 0.47
21 22 0.45
22 4 0.08
ACGTcount: A:0.25, C:0.12, G:0.01, T:0.61
Consensus pattern (20 bp):
ATTTATTTATTTCCATTTAA
Found at i:26027150 original size:19 final size:19
Alignment explanation
Indices: 26027126--26027189 Score: 101
Period size: 19 Copynumber: 3.3 Consensus size: 19
26027116 TTTCATTTGA
26027126 TTTCCATTTAAATTTATTT
1 TTTCCATTTAAATTTATTT
26027145 TTTCCATTTAAATTTATTT
1 TTTCCATTTAAATTTATTT
*
26027164 CATTTCTATTTAAATTTATTT
1 --TTTCCATTTAAATTTATTT
26027185 TTTCC
1 TTTCC
26027190 TAATATACAA
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
19 23 0.56
21 18 0.44
ACGTcount: A:0.25, C:0.12, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTCCATTTAAATTTATTT
Found at i:26027164 original size:35 final size:37
Alignment explanation
Indices: 26027110--26027189 Score: 94
Period size: 40 Copynumber: 2.1 Consensus size: 37
26027100 TTCATTTTCA
*
26027110 TTTCCATTTCATTTGATTTC-C-ATTTAAATTTATTT
1 TTTCCATTTAATTTGATTTCTCTATTTAAATTTATTT
26027145 TTTCCATTTAAATTT-ATTTCATTTCTATTTAAATTTATTT
1 TTTCCATTT-AATTTGATTTC---TCTATTTAAATTTATTT
26027185 TTTCC
1 TTTCC
26027190 TAATATACAA
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
35 14 0.37
36 4 0.11
39 1 0.03
40 19 0.50
ACGTcount: A:0.24, C:0.14, G:0.01, T:0.61
Consensus pattern (37 bp):
TTTCCATTTAATTTGATTTCTCTATTTAAATTTATTT
Found at i:26027258 original size:20 final size:19
Alignment explanation
Indices: 26027233--26027288 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 19
26027223 ATAGTCTCAT
26027233 TTCAATTTATCTTTTTTCAA
1 TTCAATTTAT-TTTTTTCAA
26027253 TTCAA-TT-TTTTTTTCAA
1 TTCAATTTATTTTTTTCAA
26027270 TTC-ATTTCATATTTTTTCA
1 TTCAATTT-AT-TTTTTTCA
26027289 TATTAATTAG
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
16 1 0.03
17 14 0.44
18 1 0.03
19 3 0.09
20 13 0.41
ACGTcount: A:0.23, C:0.14, G:0.00, T:0.62
Consensus pattern (19 bp):
TTCAATTTATTTTTTTCAA
Found at i:26027341 original size:21 final size:21
Alignment explanation
Indices: 26027315--26027354 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
26027305 TCTCAATTAC
26027315 ATTTTATTTAAAATTTTTCAT
1 ATTTTATTTAAAATTTTTCAT
*
26027336 ATTTTATTTAAATTTTTTC
1 ATTTTATTTAAAATTTTTC
26027355 TCAATTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (21 bp):
ATTTTATTTAAAATTTTTCAT
Found at i:26027362 original size:21 final size:21
Alignment explanation
Indices: 26027317--26027362 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
26027307 TCAATTACAT
*
26027317 TTTATTTAAAATTTTTCATAT
1 TTTATTTAAAATTTTTCATAA
*
26027338 TTTATTTAAATTTTTTC-TCAA
1 TTTATTTAAAATTTTTCAT-AA
26027359 TTTA
1 TTTA
26027363 AATATCATTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 1 0.05
21 21 0.95
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (21 bp):
TTTATTTAAAATTTTTCATAA
Found at i:26027597 original size:6 final size:6
Alignment explanation
Indices: 26027576--26027630 Score: 73
Period size: 6 Copynumber: 9.8 Consensus size: 6
26027566 ACTTTTTTTT
*
26027576 CATTT- CATTTC TATTTC CATTT- CATTT- CATTTC CATTTC CATTTC
1 CATTTC CATTTC CATTTC CATTTC CATTTC CATTTC CATTTC CATTTC
26027621 CATTT- CATTT
1 CATTTC CATTT
26027631 AAATTATCTT
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
5 20 0.43
6 26 0.57
ACGTcount: A:0.18, C:0.25, G:0.00, T:0.56
Consensus pattern (6 bp):
CATTTC
Found at i:26027598 original size:22 final size:22
Alignment explanation
Indices: 26027573--26027630 Score: 98
Period size: 22 Copynumber: 2.6 Consensus size: 22
26027563 TCAACTTTTT
*
26027573 TTTCATTTCATTTCTATTTCCA
1 TTTCATTTCATTTCCATTTCCA
26027595 TTTCATTTCATTTCCATTTCCA
1 TTTCATTTCATTTCCATTTCCA
26027617 TTTCCATTTCATTT
1 TTT-CATTTCATTT
26027631 AAATTATCTT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 24 0.71
23 10 0.29
ACGTcount: A:0.17, C:0.24, G:0.00, T:0.59
Consensus pattern (22 bp):
TTTCATTTCATTTCCATTTCCA
Found at i:26027649 original size:21 final size:21
Alignment explanation
Indices: 26027623--26027723 Score: 78
Period size: 21 Copynumber: 4.5 Consensus size: 21
26027613 TCCATTTCCA
26027623 TTTCATTTAAATTATCTTTTT
1 TTTCATTTAAATTATCTTTTT
*
26027644 TTTCATTTAAATTTAATTTTTTCCT
1 TTTCATTTAAA-TT-ATCTTTT--T
*
26027669 CATTTCATTTAAATTATCTTTCT
1 --TTTCATTTAAATTATCTTTTT
* * *
26027692 TTCCATTTTAATT-TACGTTTT
1 TTTCATTTAAATTAT-CTTTTT
26027713 TTTCATATTAA
1 TTTCAT-TTAA
26027724 TTTTTCTCTT
Statistics
Matches: 63, Mismatches: 9, Indels: 15
0.72 0.10 0.17
Matches are distributed among these distances:
20 1 0.02
21 31 0.49
22 5 0.08
23 7 0.11
25 6 0.10
26 2 0.03
27 11 0.17
ACGTcount: A:0.25, C:0.13, G:0.01, T:0.61
Consensus pattern (21 bp):
TTTCATTTAAATTATCTTTTT
Found at i:26027671 original size:22 final size:21
Alignment explanation
Indices: 26027625--26027673 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
26027615 CATTTCCATT
**
26027625 TCATTTAAATTATCTTTTTTT
1 TCATTTAAATTATCTTTTTCC
26027646 TCATTTAAATTTAAT-TTTTTCC
1 TCATTTAAA-TT-ATCTTTTTCC
26027668 TCATTT
1 TCATTT
26027674 CATTTAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 9 0.38
22 13 0.54
23 2 0.08
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.63
Consensus pattern (21 bp):
TCATTTAAATTATCTTTTTCC
Found at i:26027705 original size:27 final size:26
Alignment explanation
Indices: 26027617--26027706 Score: 82
Period size: 26 Copynumber: 3.6 Consensus size: 26
26027607 TCCATTTCCA
* *
26027617 TTTCCATTTCATTTAAATTATCTTTT
1 TTTCCATTTAATTTAAATTATCTTTC
*
26027643 TTTTCATTTAAATTT-AATT-T-TTTC
1 TTTCCATTT-AATTTAAATTATCTTTC
* *
26027667 -CT-CATTTCATTTAAATTATCTTTC
1 TTTCCATTTAATTTAAATTATCTTTC
26027691 TTTCCATTTTAATTTA
1 TTTCCA-TTTAATTTA
26027707 CGTTTTTTTC
Statistics
Matches: 50, Mismatches: 7, Indels: 13
0.71 0.10 0.19
Matches are distributed among these distances:
21 4 0.08
22 9 0.18
23 2 0.04
24 7 0.14
25 2 0.04
26 14 0.28
27 12 0.24
ACGTcount: A:0.24, C:0.14, G:0.00, T:0.61
Consensus pattern (26 bp):
TTTCCATTTAATTTAAATTATCTTTC
Found at i:26027713 original size:48 final size:48
Alignment explanation
Indices: 26027621--26027713 Score: 141
Period size: 48 Copynumber: 1.9 Consensus size: 48
26027611 TTTCCATTTC
* * *
26027621 CATTTCATTTAAATTATCTTTTTTTTCATTTAAATTTAATTTTTTCCT
1 CATTTCATTTAAATTATCTTTCTTTCCATTTAAATTTAAGTTTTTCCT
* *
26027669 CATTTCATTTAAATTATCTTTCTTTCCATTTTAATTTACGTTTTT
1 CATTTCATTTAAATTATCTTTCTTTCCATTTAAATTTAAGTTTTT
26027714 TTCATATTAA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 40 1.00
ACGTcount: A:0.24, C:0.14, G:0.01, T:0.61
Consensus pattern (48 bp):
CATTTCATTTAAATTATCTTTCTTTCCATTTAAATTTAAGTTTTTCCT
Found at i:26027799 original size:44 final size:44
Alignment explanation
Indices: 26027741--26027856 Score: 171
Period size: 44 Copynumber: 2.7 Consensus size: 44
26027731 CTTATTGTAA
* * *
26027741 TGTATT-TCATTTAATGTGTTTTAAATTAAATATGTATGTATAT
1 TGTATTATAATTTAATGTGTTTTAAATTAAATACGCATGTATAT
*
26027784 TGTATTATAATTTAATGTGCTTTAAATTAAATACGCATGTATAT
1 TGTATTATAATTTAATGTGTTTTAAATTAAATACGCATGTATAT
* *
26027828 TGTATTATAATTTAACGTGTTGTAAATTA
1 TGTATTATAATTTAATGTGTTTTAAATTA
26027857 GGAATAAGAA
Statistics
Matches: 65, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
43 6 0.09
44 59 0.91
ACGTcount: A:0.34, C:0.04, G:0.12, T:0.49
Consensus pattern (44 bp):
TGTATTATAATTTAATGTGTTTTAAATTAAATACGCATGTATAT
Found at i:26029393 original size:12 final size:12
Alignment explanation
Indices: 26029362--26029387 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
26029352 TTCAACTAAT
26029362 AAAGCAAACAAA
1 AAAGCAAACAAA
26029374 AAAGCAAACAAA
1 AAAGCAAACAAA
26029386 AA
1 AA
26029388 CTCAAATGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.77, C:0.15, G:0.08, T:0.00
Consensus pattern (12 bp):
AAAGCAAACAAA
Found at i:26029897 original size:107 final size:107
Alignment explanation
Indices: 26029598--26029931 Score: 346
Period size: 109 Copynumber: 3.1 Consensus size: 107
26029588 CTGAAAAAGG
*
26029598 TGGTGCCAACCATCAGTGTCCCAAAGTAAAAAAAA-AGCGCATTGGGAGCCAAAAAATGTACTTG
1 TGGTGCCAACCATCAGTGTCCCAAAGTAAAAAAAATA-C-C-TTGGGAGCCGAAAAATGTACTTG
* * * * *
26029662 GTGCTAGCCATCTACTTGCTAGCACAAATTTTTTTTTAAATGACAT
63 GTGCTGGCCATCTACTGGCCAGCACCAA-TTTTTTTTAAATGACAC
** * * * * *
26029708 TGGTGCCGGCCATCAGCGTCCCAAAGTAAAAAAAAATGCCTTAGGAGCCGAAAAATATATTTGGT
1 TGGTGCCAACCATCAGTGTCCCAAAGT-AAAAAAAATACCTTGGGAGCCGAAAAATGTACTTGGT
* * *
26029773 GCCGACCATCTATTGGCCAGCACCAATTTTTTTTAAATGACAC
65 GCTGGCCATCTACTGGCCAGCACCAATTTTTTTTAAATGACAC
* * * * * * *
26029816 TGGTGCTATCCATTAGTGTCCCAAAATAAAAAAAATACCTTGGGATCTGAAAAATGTACATGGTG
1 TGGTGCCAACCATCAGTGTCCCAAAGTAAAAAAAATACCTTGGGAGCCGAAAAATGTACTTGGTG
* * * * *
26029881 TTGGTCATCTACTGGCCAGTACCAAAATTTTTTTTAAATGTCTC
66 CTGGCCATCTACTGGCCAGCACC--AATTTTTTTTAAATGACAC
26029925 TGGTGCC
1 TGGTGCC
26029932 GGCTATTACA
Statistics
Matches: 182, Mismatches: 38, Indels: 9
0.79 0.17 0.04
Matches are distributed among these distances:
107 48 0.26
108 37 0.20
109 63 0.35
110 25 0.14
111 9 0.05
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.28
Consensus pattern (107 bp):
TGGTGCCAACCATCAGTGTCCCAAAGTAAAAAAAATACCTTGGGAGCCGAAAAATGTACTTGGTG
CTGGCCATCTACTGGCCAGCACCAATTTTTTTTAAATGACAC
Found at i:26030467 original size:24 final size:24
Alignment explanation
Indices: 26030413--26030468 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 24
26030403 TTTAAAATAC
*
26030413 TTTAAAAATATTTTTATTTTTATT
1 TTTAAAAATATTTTTATTTGTATT
*
26030437 TTT-AAAATATTTTT-TTTGTGTT
1 TTTAAAAATATTTTTATTTGTATT
26030459 TATTAAAAAT
1 T-TTAAAAAT
26030469 CGGGCCGGGC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 7 0.25
23 13 0.46
24 8 0.29
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (24 bp):
TTTAAAAATATTTTTATTTGTATT
Found at i:26031231 original size:21 final size:20
Alignment explanation
Indices: 26031192--26031246 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 20
26031182 TTGAAAATTA
26031192 ATTATTTTATAAT-TTTTAT
1 ATTATTTTATAATATTTTAT
*
26031211 CTTATTTATATAATATTTTAT
1 ATTATTT-TATAATATTTTAT
26031232 ATTATTTTAATAATA
1 ATTATTTT-ATAATA
26031247 AATATGATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 6 0.19
20 7 0.23
21 18 0.58
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (20 bp):
ATTATTTTATAATATTTTAT
Found at i:26037112 original size:33 final size:33
Alignment explanation
Indices: 26037075--26037173 Score: 88
Period size: 33 Copynumber: 3.2 Consensus size: 33
26037065 TATTTTTTTT
26037075 AATTTACATTACTATAAACTCACAAAACACAAA
1 AATTTACATTACTATAAACTCACAAAACACAAA
* *
26037108 AATTT--A-TA--ATAAA-TTAC-TAACA-AAA
1 AATTTACATTACTATAAACTCACAAAACACAAA
* *
26037133 TAATTTTACATTACTAAAAACTCACAAAACACAAC
1 -AA-TTTACATTACTATAAACTCACAAAACACAAA
26037168 AATTTA
1 AATTTA
26037174 TAATAAATTA
Statistics
Matches: 50, Mismatches: 6, Indels: 20
0.66 0.08 0.26
Matches are distributed among these distances:
25 3 0.06
26 6 0.12
27 6 0.12
28 5 0.10
29 1 0.02
30 4 0.08
31 1 0.02
32 4 0.08
33 12 0.24
34 6 0.12
35 2 0.04
ACGTcount: A:0.55, C:0.17, G:0.00, T:0.28
Consensus pattern (33 bp):
AATTTACATTACTATAAACTCACAAAACACAAA
Found at i:26037132 original size:31 final size:31
Alignment explanation
Indices: 26037096--26037192 Score: 78
Period size: 31 Copynumber: 3.2 Consensus size: 31
26037086 CTATAAACTC
26037096 ACAAAACACAAAAATTTATAATAAATTACTA
1 ACAAAACACAAAAATTTATAATAAATTACTA
* * * * *
26037127 AC--AA-A-ATAATTTTACATTACTAAA-AACTC
1 ACAAAACACAAAAATTT--A-TAATAAATTACTA
*
26037156 ACAAAACACAACAATTTATAATAAATTACTA
1 ACAAAACACAAAAATTTATAATAAATTACTA
26037187 ACAAAA
1 ACAAAA
26037193 TAATTTTACA
Statistics
Matches: 47, Mismatches: 11, Indels: 16
0.64 0.15 0.22
Matches are distributed among these distances:
27 6 0.13
28 1 0.02
29 8 0.17
30 12 0.26
31 14 0.30
32 1 0.02
33 5 0.11
ACGTcount: A:0.59, C:0.15, G:0.00, T:0.26
Consensus pattern (31 bp):
ACAAAACACAAAAATTTATAATAAATTACTA
Found at i:26037137 original size:26 final size:26
Alignment explanation
Indices: 26037100--26037198 Score: 65
Period size: 26 Copynumber: 3.5 Consensus size: 26
26037090 AAACTCACAA
26037100 AACACAAA-AATTTATAATAAATTACT
1 AACA-AAATAATTTATAATAAATTACT
* * *
26037126 AACAAAATAATTTTACATTACTAAAAACTCACAA
1 AACAAAATAA-TTT--A-TA--ATAAA-TTAC-T
* *
26037160 AACACAACAATTTATAATAAATTACT
1 AACAAAATAATTTATAATAAATTACT
26037186 AACAAAATAATTT
1 AACAAAATAATTT
26037199 TACATTAATA
Statistics
Matches: 54, Mismatches: 10, Indels: 18
0.66 0.12 0.22
Matches are distributed among these distances:
25 3 0.06
26 17 0.31
27 6 0.11
28 4 0.07
29 1 0.02
30 4 0.07
31 1 0.02
32 4 0.07
33 6 0.11
34 8 0.15
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (26 bp):
AACAAAATAATTTATAATAAATTACT
Found at i:26037142 original size:60 final size:60
Alignment explanation
Indices: 26037077--26037211 Score: 243
Period size: 60 Copynumber: 2.2 Consensus size: 60
26037067 TTTTTTTTAA
*
26037077 TTTACATTACTATAAACTCACAAAACACAAAAATTTATAATAAATTACTAACAAAATAAT
1 TTTACATTACTAAAAACTCACAAAACACAAAAATTTATAATAAATTACTAACAAAATAAT
*
26037137 TTTACATTACTAAAAACTCACAAAACACAACAATTTATAATAAATTACTAACAAAATAAT
1 TTTACATTACTAAAAACTCACAAAACACAAAAATTTATAATAAATTACTAACAAAATAAT
*
26037197 TTTACATTAATAAAA
1 TTTACATTACTAAAA
26037212 CATCACCAAA
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
60 72 1.00
ACGTcount: A:0.55, C:0.15, G:0.00, T:0.30
Consensus pattern (60 bp):
TTTACATTACTAAAAACTCACAAAACACAAAAATTTATAATAAATTACTAACAAAATAAT
Found at i:26037208 original size:30 final size:30
Alignment explanation
Indices: 26037114--26037210 Score: 85
Period size: 30 Copynumber: 3.2 Consensus size: 30
26037104 CAAAAATTTA
26037114 TAATAAATTACTAACAAAATAATTTTACAT
1 TAATAAATTACTAACAAAATAATTTTACAT
* * * * *
26037144 TACTAAA-AACTCACAAAACACAACAATTT--A-
1 TAATAAATTACTAAC-AAA-A-TA-ATTTTACAT
26037174 TAATAAATTACTAACAAAATAATTTTACAT
1 TAATAAATTACTAACAAAATAATTTTACAT
26037204 TAATAAA
1 TAATAAA
26037211 ACATCACCAA
Statistics
Matches: 49, Mismatches: 10, Indels: 16
0.65 0.13 0.21
Matches are distributed among these distances:
27 4 0.08
28 1 0.02
29 7 0.14
30 25 0.51
31 7 0.14
32 1 0.02
33 4 0.08
ACGTcount: A:0.56, C:0.13, G:0.00, T:0.31
Consensus pattern (30 bp):
TAATAAATTACTAACAAAATAATTTTACAT
Found at i:26037464 original size:3 final size:3
Alignment explanation
Indices: 26037458--26037493 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
26037448 TTTTCTTTCT
*
26037458 TTC TTC TTC TTC TTC TTC TTC TTC TT- TTT TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
26037494 CCTTTCTCTC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (3 bp):
TTC
Found at i:26037491 original size:20 final size:21
Alignment explanation
Indices: 26037467--26037524 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 21
26037457 TTTCTTCTTC
*
26037467 TTCTTCTTCTTCTTC-TTTTT
1 TTCTTCTTCTTCTTCATTTCT
*
26037487 TTCTTCTCCTTTCTCTCATTTCT
1 TTCTTCTTC-TTCT-TCATTTCT
26037510 TTCTCTCTT-TTCTTC
1 TTCT-TCTTCTTCTTC
26037525 CGTACACACC
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
20 8 0.26
21 6 0.19
22 6 0.19
23 8 0.26
24 3 0.10
ACGTcount: A:0.02, C:0.31, G:0.00, T:0.67
Consensus pattern (21 bp):
TTCTTCTTCTTCTTCATTTCT
Found at i:26038108 original size:37 final size:37
Alignment explanation
Indices: 26038058--26038135 Score: 147
Period size: 37 Copynumber: 2.1 Consensus size: 37
26038048 ATACATGAGA
26038058 CATATAATTCATCTATATCATGCACATAAATTAAAAC
1 CATATAATTCATCTATATCATGCACATAAATTAAAAC
*
26038095 CATATGATTCATCTATATCATGCACATAAATTAAAAC
1 CATATAATTCATCTATATCATGCACATAAATTAAAAC
26038132 CATA
1 CATA
26038136 GTAACTTATA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.45, C:0.19, G:0.04, T:0.32
Consensus pattern (37 bp):
CATATAATTCATCTATATCATGCACATAAATTAAAAC
Found at i:26038770 original size:25 final size:25
Alignment explanation
Indices: 26038736--26038785 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
26038726 AACTTAATCA
26038736 ATATACAAACCTACTAAAACAAAAC
1 ATATACAAACCTACTAAAACAAAAC
26038761 ATATACAAACCTACTAAAACAAAAC
1 ATATACAAACCTACTAAAACAAAAC
26038786 CGATTACCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.60, C:0.24, G:0.00, T:0.16
Consensus pattern (25 bp):
ATATACAAACCTACTAAAACAAAAC
Found at i:26042303 original size:18 final size:17
Alignment explanation
Indices: 26042270--26042308 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
26042260 TTTTATAAAT
26042270 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
26042288 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
26042305 TGTG
1 TGTG
26042309 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:26042440 original size:8 final size:8
Alignment explanation
Indices: 26042427--26042455 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
26042417 CACTAGAGAT
26042427 CAGTGTTA
1 CAGTGTTA
26042435 CAGTGTTA
1 CAGTGTTA
26042443 CAGTGTTA
1 CAGTGTTA
26042451 CAGTG
1 CAGTG
26042456 AGTCCCGGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.24, C:0.14, G:0.28, T:0.34
Consensus pattern (8 bp):
CAGTGTTA
Found at i:26042568 original size:23 final size:23
Alignment explanation
Indices: 26042542--26042640 Score: 189
Period size: 23 Copynumber: 4.3 Consensus size: 23
26042532 AGTGTTATTG
26042542 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
26042565 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
26042588 ATCAGTGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
26042611 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
26042634 ATCAGTG
1 ATCAGTG
26042641 TGGCACTTAT
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 74 1.00
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.29
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:26047943 original size:133 final size:131
Alignment explanation
Indices: 26047745--26048157 Score: 603
Period size: 132 Copynumber: 3.1 Consensus size: 131
26047735 CGTTATTGTT
*** * * ** *
26047745 GATCTGCTCCACTACTAATTAGAGG-GACAGAATCTACAGTCTTTGACCTACTCCACTACTACTT
1 GATCTGCTCCACTACTGCGTAG-GGTGACAGAATCTGCAATCTTCAACCTACTCCACTACTGCTT
*
26047809 AGAGTGATAGGACTAATGGCTTAAATATGCTTCTCCACTGTATTGGGAAGATAAGATTCACCATC
65 AGGGTGATAGGACTAATGGCTTAAAT-TGCTTCTCCACTGTATTGGGAAGATAAGATTCACCATC
26047874 TTC
129 TTC
* * *
26047877 GAGCTGCTCGACTACTGCGTAGGGTTGACAGAATCTGCAATCTTCAACCTACCCCACTACTGCTT
1 GATCTGCTCCACTACTGCGTAGGG-TGACAGAATCTGCAATCTTCAACCTACTCCACTACTGCTT
*
26047942 AGGGTGATAGGACTAATGGCTTAAATTCGCTTCTCCACTGTATTGGGAAGATAAGATTCACCATT
65 AGGGTGATAGGACTAATGGCTTAAATT-GCTTCTCCACTGTATTGGGAAGATAAGATTCACCATC
26048007 TTC
129 TTC
* * * * *
26048010 GATCTGCTCTAATACTGCTTAGGGTGACAAAATTTGCAATCTTCAACCTACTCCACTACTGCTTA
1 GATCTGCTCCACTACTGCGTAGGGTGACAGAATCTGCAATCTTCAACCTACTCCACTACTGCTTA
*
26048075 GGGTGATAGGATTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGATAAGATTCACCATCT
66 GGGTGATAGGACTAATGGCTTAAAT-TGCTTCTCCACTGTATTGGGAAGATAAGATTCACCATCT
26048140 TC
130 TC
26048142 GATCTGCTCCACTACT
1 GATCTGCTCCACTACT
26048158 AAATACAGGA
Statistics
Matches: 253, Mismatches: 24, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
131 2 0.01
132 133 0.53
133 118 0.47
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (131 bp):
GATCTGCTCCACTACTGCGTAGGGTGACAGAATCTGCAATCTTCAACCTACTCCACTACTGCTTA
GGGTGATAGGACTAATGGCTTAAATTGCTTCTCCACTGTATTGGGAAGATAAGATTCACCATCTT
C
Found at i:26048176 original size:46 final size:46
Alignment explanation
Indices: 26048136--26049144 Score: 1450
Period size: 46 Copynumber: 22.0 Consensus size: 46
26048126 AAGATTCACC
* * * * *
26048136 ATCTTCGATCTGCTCCACTACTAAATACAGGAAGACAAGATCTACT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* * * *
26048182 ATCTTCGATCTACTCCGCTACCAAATACAGGAAGATAAGGTCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* * *
26048228 ATCTTCGATCTTCTCCGCTGCCAAATACAGGAAGATAAGATCTGTT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
26048274 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* * * *
26048320 ATCTTCGATCTCTTCCGCTGCCAAATAGAGGAAGATAAGATCTGCC
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* * *
26048366 ATCTTCGATCTCCTCTGCTGCCAAATACAGGAAGATAAGATCTGCC
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
*
26048412 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGATAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* **
26048458 ATCTTCGATCTCCTCCGCTG-CAAATATAGGAAGGTAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* * *
26048503 ATCTTCGATCTCTTCCGCTGCCAAATACAGGAAGATAAGATCTGCC
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* *
26048549 ATCTTCGATCT-CTCCGCTGCCAAATAAAGGAAGACAAGATTTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* * *
26048594 ATATTCGATCTCATCCGCTGCCAAATATAGGAAGACAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
*
26048640 ATCTTCGATTTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* *
26048686 ATCTTCGATTTCTTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* * **
26048732 ATCTTCAATCTCTTTTGCTGCCAAATACAGGAAGACAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
**
26048778 ATCTTCGATCTCCTTTGCTGCCAAATACAGGAAGACAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* *
26048824 ATCTTCGATCTCCTCCGCTGCCAAATACAAGAAGATAAGAT-TAGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCT-GCT
* *
26048870 ATCTTCGATCTCTTTCGCTGCCAAATACAGGAAGACAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* * **
26048916 ATCTTCAATCTCTTTTGCTGCCAAATACAGGAAGACAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
**
26048962 ATCTTCGATCTCCTTTGCTGCCAAATACAGGAAGACAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* * * *
26049008 ATCTTCGATCTCCTCCGCTGCCAAATACA-AAATGATAAAATCTGCC
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAA-GACAAGATCTGCT
* *
26049054 ATTTTCGATCTCCTCCACTGCCAAATACAGGAAGACAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* *
26049100 ATCTTCGATCTCTTTCGCTGCCAAATACAGGAAGACAAGATCTGC
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGC
26049145 NNNNNNNNNN
Statistics
Matches: 881, Mismatches: 76, Indels: 12
0.91 0.08 0.01
Matches are distributed among these distances:
45 84 0.10
46 794 0.90
47 3 0.00
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (46 bp):
ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
Found at i:26049919 original size:21 final size:21
Alignment explanation
Indices: 26049893--26049939 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
26049883 AGTATAGCAA
26049893 GATCACCACATGCCCCAATCT
1 GATCACCACATGCCCCAATCT
** *
26049914 GATCACTTCATGCCCCATTCT
1 GATCACCACATGCCCCAATCT
26049935 GATCA
1 GATCA
26049940 ATATTTGAGC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.26, C:0.38, G:0.11, T:0.26
Consensus pattern (21 bp):
GATCACCACATGCCCCAATCT
Found at i:26050927 original size:8 final size:7
Alignment explanation
Indices: 26050910--26050942 Score: 57
Period size: 7 Copynumber: 4.6 Consensus size: 7
26050900 TGACCTCTCC
26050910 TTTTTCT
1 TTTTTCT
26050917 TTTTTCT
1 TTTTTCT
26050924 TTTTTCTT
1 TTTTTC-T
26050932 TTTTTCT
1 TTTTTCT
26050939 TTTT
1 TTTT
26050943 CTCCTATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 18 0.72
8 7 0.28
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTCT
Found at i:26050929 original size:14 final size:15
Alignment explanation
Indices: 26050910--26050942 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
26050900 TGACCTCTCC
26050910 TTTTTC-TTTTTTCT
1 TTTTTCTTTTTTTCT
26050924 TTTTTCTTTTTTTCT
1 TTTTTCTTTTTTTCT
26050939 TTTT
1 TTTT
26050943 CTCCTATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (15 bp):
TTTTTCTTTTTTTCT
Found at i:26050980 original size:7 final size:8
Alignment explanation
Indices: 26050958--26051019 Score: 62
Period size: 8 Copynumber: 8.2 Consensus size: 8
26050948 ATTTTTGACC
26050958 TTGATTTT
1 TTGATTTT
*
26050966 TT--TATT
1 TTGATTTT
26050972 TTG-TTTT
1 TTGATTTT
26050979 TTG-TTTT
1 TTGATTTT
*
26050986 TTTATTTT
1 TTGATTTT
26050994 TT-ATTTTT
1 TTGA-TTTT
26051002 TTGATTTT
1 TTGATTTT
26051010 TTGATTTT
1 TTGATTTT
26051018 TT
1 TT
26051020 TTGGAGTCTG
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
6 5 0.11
7 13 0.28
8 28 0.60
9 1 0.02
ACGTcount: A:0.10, C:0.00, G:0.08, T:0.82
Consensus pattern (8 bp):
TTGATTTT
Found at i:26050980 original size:15 final size:15
Alignment explanation
Indices: 26050970--26051020 Score: 66
Period size: 15 Copynumber: 3.3 Consensus size: 15
26050960 GATTTTTTTA
*
26050970 TTTTGTTTTTTGTTT
1 TTTTGTTTTTTATTT
*
26050985 TTTTATTTTTTATTT
1 TTTTGTTTTTTATTT
26051000 TTTTGATTTTTTGATTT
1 TTTTG-TTTTTT-ATTT
26051017 TTTT
1 TTTT
26051021 TGGAGTCTGA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
15 17 0.55
16 6 0.19
17 8 0.26
ACGTcount: A:0.08, C:0.00, G:0.08, T:0.84
Consensus pattern (15 bp):
TTTTGTTTTTTATTT
Found at i:26054774 original size:18 final size:18
Alignment explanation
Indices: 26054753--26054798 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
26054743 ATATATACAC
26054753 GTATATATATGACAAAAA
1 GTATATATATGACAAAAA
* * *
26054771 GTATGTATATTATAAAAA
1 GTATATATATGACAAAAA
26054789 -TATATATATG
1 GTATATATATG
26054799 TGTATATAGA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
17 8 0.35
18 15 0.65
ACGTcount: A:0.50, C:0.02, G:0.11, T:0.37
Consensus pattern (18 bp):
GTATATATATGACAAAAA
Found at i:26056429 original size:72 final size:73
Alignment explanation
Indices: 26056284--26056460 Score: 259
Period size: 72 Copynumber: 2.4 Consensus size: 73
26056274 AACATGTGAA
** *
26056284 CTGAGGCTCAACTCACTTT-TCGCAATATGAGTTGATTTTTTTGACAACAGAAATTGAAATTACC
1 CTGAGGCTCAACTCA-TTTCTCGCAATATGAGTT-ATAATTTTGAAAACAGAAATTGAAATTACC
*
26056348 TCAGCGTGTC
64 TCAACGTGTC
26056358 CTGAGGCTCAACTCATTTCTCGCAATATGAGTT-TAATTTTGAAAACAGAAATTGAAATTACCTC
1 CTGAGGCTCAACTCATTTCTCGCAATATGAGTTATAATTTTGAAAACAGAAATTGAAATTACCTC
*
26056422 AATGTGTC
66 AACGTGTC
* *
26056430 CTGAGGCTCAACTCCTTTCTTGCAATATGAG
1 CTGAGGCTCAACTCATTTCTCGCAATATGAG
26056461 CTGATTTTGG
Statistics
Matches: 95, Mismatches: 7, Indels: 4
0.90 0.07 0.04
Matches are distributed among these distances:
72 63 0.66
73 3 0.03
74 29 0.31
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.33
Consensus pattern (73 bp):
CTGAGGCTCAACTCATTTCTCGCAATATGAGTTATAATTTTGAAAACAGAAATTGAAATTACCTC
AACGTGTC
Found at i:26056758 original size:73 final size:73
Alignment explanation
Indices: 26056500--26056887 Score: 467
Period size: 73 Copynumber: 5.2 Consensus size: 73
26056490 CATAAATTGA
* * * **
26056500 AAAAGCGAAAAATTGAAAATACCTCAGCGTG-CGAGCCGAGGCTCAACTCACCTCTCGCAATATG
1 AAAAGC-AGAAATTGAAAATACCTCAACGTGTC---CTGAGGCTCAACTCATTTCTCGCAATATG
*
26056564 AGTTGATTTTTG
62 AGTTGAATTTTG
* * * **
26056576 AAAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 -AAAAGCAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGT
*
26056641 TGATTTTTTTG
65 TGA--ATTTTG
* * *
26056652 AAAAGCAGAACTTGAAAATTCCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
1 AAAAGCAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTT
26056717 GAATTTTG
66 GAATTTTG
*
26056725 AAAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
1 AAAAGCAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTT
*
26056790 TAATTTTG
66 GAATTTTG
* * * * *
26056798 AAAA-CAGAAATTGAAATTACCTCAATGTGTCCTGAGGCTCAACTCCTTTCTTGCAATATGAGCT
1 AAAAGCAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTT
26056862 G-ATTTTGG
66 GAATTTT-G
* *
26056870 AAAAGTAGAATTTGAAAA
1 AAAAGCAGAAATTGAAAA
26056888 GCATAAATTG
Statistics
Matches: 280, Mismatches: 26, Indels: 14
0.88 0.08 0.04
Matches are distributed among these distances:
71 5 0.02
72 59 0.21
73 89 0.32
74 34 0.12
75 59 0.21
76 28 0.10
77 6 0.02
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (73 bp):
AAAAGCAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTT
GAATTTTG
Done.