Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009634.1 Hibiscus syriacus cultivar Beakdansim tig00117034_pilon, 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: 17174986
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 23 of 78
Found at i:4829254 original size:134 final size:134
Alignment explanation
Indices: 4828647--4829266 Score: 527
Period size: 134 Copynumber: 4.6 Consensus size: 134
4828637 ATGTTTTGAT
* * * * * * **
4828647 TTTCATATTTGGTCTTCTTAAAGAGCAGCGAAGCAAA-CCACGTTC-GATTCGATCTTTCCTGAA
1 TTTCAGATTTGGTCTTCCTGAAGAGCAGTGAAGCAAATCGA--TTCTGATTCAATCTCCCCTGAA
* * * ** * * *
4828710 GAGTAGTGAAGTAGATCAAATATTTCTCGAGTCTGATATCCTCTAAAGAGTAGTGGAGCAGATTC
64 GAGAAGTGAAGTGGATCAAATTTTTCTCGAGTCAAATCTCCCCTAAAGAGTAGTGGAGCAAATTC
4828775 TTCTTC
129 TTCTTC
* * ** * * ** *
4828781 TTTTAGATTTGGTTTTATTGAAGA-CAAGCGAAGTAAATC-ATGTTCT-ATTCAATCTTTCATGA
1 TTTCAGATTTGGTCTTCCTGAAGAGC-AGTGAAGCAAATCGA--TTCTGATTCAATCTCCCCTGA
* * * * * ** * ** *
4828843 ATA-ATATTTATGTAGATCAAAGATTTCTTGAGTCTGATCTCCCCTAAAGAGTAGTGAAGCAAAT
63 AGAGA-AGTGAAGTGGATCAAATTTTTCTCGAGTCAAATCTCCCCTAAAGAGTAGTGGAGCAAAT
*
4828907 TCTTCATC
127 TCTTCTTC
* *
4828915 TTTCAGATTTGGTCTTCCTGAAGAGCAGTGAAGTAAATCGATTCTGATTCAATC-CTCCTTGAAG
1 TTTCAGATTTGGTCTTCCTGAAGAGCAGTGAAGCAAATCGATTCTGATTCAATCTC-CCCTGAAG
* * * ** * * * **
4828979 AGAAGTGAAGTGGATTAAAATTTTCTTGAGTCTGACCTCCCCTAAATAGTAGTGGAGCAGACGCT
65 AGAAGTGAAGTGGATCAAATTTTTCTCGAGTCAAATCTCCCCTAAAGAGTAGTGGAGCAAATTCT
4829044 TCTTC
130 TCTTC
* * * * * *
4829049 TTTCAGATTTGGTCTTACTAAAGAGTAATGAAGCAAATCGATTCTGATTCAATATTCCCTGAAGA
1 TTTCAGATTTGGTCTTCCTGAAGAGCAGTGAAGCAAATCGATTCTGATTCAATCTCCCCTGAAGA
* *
4829114 -ATAGTGAAGTGGATCAAATTTTTCTCGAGTCAAATCTCCCTTAAAGAGTAGTGGAGCATATTCT
66 GA-AGTGAAGTGGATCAAATTTTTCTCGAGTCAAATCTCCCCTAAAGAGTAGTGGAGCAAATTCT
4829178 TCTTC
130 TCTTC
* * * **
4829183 TTTCATATTTGGCCTTCCTGAAGAGCAGTGAAGCAAATCGATTCCGATTCAATCTCCCCAAAAGA
1 TTTCAGATTTGGTCTTCCTGAAGAGCAGTGAAGCAAATCGATTCTGATTCAATCTCCCCTGAAGA
* * *
4829248 GCAGTGAAATGAATCAAAT
66 GAAGTGAAGTGGATCAAAT
4829267 ACTTCATATC
Statistics
Matches: 397, Mismatches: 77, Indels: 24
0.80 0.15 0.05
Matches are distributed among these distances:
133 6 0.02
134 387 0.97
135 4 0.01
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33
Consensus pattern (134 bp):
TTTCAGATTTGGTCTTCCTGAAGAGCAGTGAAGCAAATCGATTCTGATTCAATCTCCCCTGAAGA
GAAGTGAAGTGGATCAAATTTTTCTCGAGTCAAATCTCCCCTAAAGAGTAGTGGAGCAAATTCTT
CTTC
Found at i:4829483 original size:3 final size:3
Alignment explanation
Indices: 4829463--4829529 Score: 71
Period size: 3 Copynumber: 21.3 Consensus size: 3
4829453 GTTTTCATCC
* * * *
4829463 TAT TAC TAT TAG TAT TAT TAT TAT TAAT TAT TAT TATT TAA TAT TAG
1 TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TA-T TAT TAT TAT
4829510 TAT TAT TATT TAT TAT TAT T
1 TAT TAT TA-T TAT TAT TAT T
4829530 TATGTTATTT
Statistics
Matches: 53, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
3 44 0.83
4 9 0.17
ACGTcount: A:0.34, C:0.01, G:0.03, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:4829494 original size:13 final size:13
Alignment explanation
Indices: 4829476--4829532 Score: 64
Period size: 13 Copynumber: 4.4 Consensus size: 13
4829466 TACTATTAGT
4829476 ATTATTATTATTA
1 ATTATTATTATTA
4829489 ATTATTATTATTTA
1 ATTATTATTA-TTA
*
4829503 A-TATTAGTATT-
1 ATTATTATTATTA
4829514 ATTATTTATTATTA
1 ATTA-TTATTATTA
*
4829528 TTTAT
1 ATTAT
4829533 GTTATTTTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
11 1 0.03
12 4 0.11
13 25 0.68
14 7 0.19
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (13 bp):
ATTATTATTATTA
Found at i:4829496 original size:16 final size:16
Alignment explanation
Indices: 4829475--4829529 Score: 71
Period size: 16 Copynumber: 3.6 Consensus size: 16
4829465 TTACTATTAG
4829475 TATTATTATTATTAAT
1 TATTATTATTATTAAT
4829491 TATTATTA-T-TTAA-
1 TATTATTATTATTAAT
* *
4829504 TATTAGTATTATTATT
1 TATTATTATTATTAAT
4829520 TATTATTATT
1 TATTATTATT
4829530 TATGTTATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
13 7 0.21
14 5 0.15
15 4 0.12
16 17 0.52
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.64
Consensus pattern (16 bp):
TATTATTATTATTAAT
Found at i:4829513 original size:29 final size:29
Alignment explanation
Indices: 4829475--4829531 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
4829465 TTACTATTAG
*
4829475 TATTATTATTATTAATTATTATTATTTAA
1 TATTAGTATTATTAATTATTATTATTTAA
*
4829504 TATTAGTATTATTATTTATTATTATTTA
1 TATTAGTATTATTAATTATTATTATTTA
4829532 TGTTATTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (29 bp):
TATTAGTATTATTAATTATTATTATTTAA
Found at i:4829530 original size:10 final size:10
Alignment explanation
Indices: 4829475--4829532 Score: 75
Period size: 10 Copynumber: 6.0 Consensus size: 10
4829465 TTACTATTAG
4829475 TATTA-TTAT
1 TATTATTTAT
*
4829484 TATTAATTAT
1 TATTATTTAT
*
4829494 TATTATTTAA
1 TATTATTTAT
*
4829504 TATTA-GTAT
1 TATTATTTAT
4829513 TATTATTTAT
1 TATTATTTAT
4829523 TATTATTTAT
1 TATTATTTAT
4829533 GTTATTTTTA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
9 12 0.29
10 30 0.71
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (10 bp):
TATTATTTAT
Found at i:4842249 original size:57 final size:57
Alignment explanation
Indices: 4842179--4842404 Score: 326
Period size: 57 Copynumber: 4.0 Consensus size: 57
4842169 CATAACCATA
* * * * * *
4842179 CAACCTCGTCACGAATAGTAAGGCCCTGAGCACAAAGCCAAGGAACCTACAAGTAAT
1 CAACCCCGTCACGAACAGTAAGGCTCTCAGCACAAAGCCGAGGAACCTGCAAGTAAT
* * * * *
4842236 CAACCCCGTCACGAACAATAAGGTTCTCAGCACAAAGCTGAGGAACTTGCAAGTATT
1 CAACCCCGTCACGAACAGTAAGGCTCTCAGCACAAAGCCGAGGAACCTGCAAGTAAT
*
4842293 CAACCCCGTCACGAACAGTAAGGCTCTCAGCACAAAGCTGAGGAACCTGCAAGTAAT
1 CAACCCCGTCACGAACAGTAAGGCTCTCAGCACAAAGCCGAGGAACCTGCAAGTAAT
* *
4842350 CAACCCCGTCACAAACAGTAAGGCTCTCAACACAAAGCCGAGGAACCTGCAAGTA
1 CAACCCCGTCACGAACAGTAAGGCTCTCAGCACAAAGCCGAGGAACCTGCAAGTA
4842405 TTCTTCCTCC
Statistics
Matches: 151, Mismatches: 18, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
57 151 1.00
ACGTcount: A:0.37, C:0.29, G:0.19, T:0.15
Consensus pattern (57 bp):
CAACCCCGTCACGAACAGTAAGGCTCTCAGCACAAAGCCGAGGAACCTGCAAGTAAT
Found at i:4847778 original size:40 final size:40
Alignment explanation
Indices: 4847734--4847814 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
4847724 TATTCATGTT
4847734 TCGATCTTAGTTCTTTACTACACTCGCATATGCCTTACAA
1 TCGATCTTAGTTCTTTACTACACTCGCATATGCCTTACAA
4847774 TCGATCTTAGTTCTTTACTACACTCGCATATGCCTTACAA
1 TCGATCTTAGTTCTTTACTACACTCGCATATGCCTTACAA
4847814 T
1 T
4847815 TTTAATAACT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.25, C:0.27, G:0.10, T:0.38
Consensus pattern (40 bp):
TCGATCTTAGTTCTTTACTACACTCGCATATGCCTTACAA
Found at i:4847929 original size:32 final size:32
Alignment explanation
Indices: 4847852--4847929 Score: 102
Period size: 32 Copynumber: 2.4 Consensus size: 32
4847842 ATTTTTATAC
**
4847852 ATATGAACCATTTACTAAAATAATATTATTTT
1 ATATGAAGAATTTACTAAAATAATATTATTTT
* **
4847884 ATATTAATCATTTACTAAAATAATATTATTTT
1 ATATGAAGAATTTACTAAAATAATATTATTTT
*
4847916 ATATGAGGAATTTA
1 ATATGAAGAATTTA
4847930 TGGAAATGCA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.44, C:0.06, G:0.05, T:0.45
Consensus pattern (32 bp):
ATATGAAGAATTTACTAAAATAATATTATTTT
Found at i:4848158 original size:2 final size:2
Alignment explanation
Indices: 4848151--4848177 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4848141 ATTTACTCTT
4848151 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 T
4848178 TAAATATAAT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4848542 original size:40 final size:40
Alignment explanation
Indices: 4848498--4848578 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
4848488 AACGCGTATC
4848498 ACTTTTTATCTTTTAAAATAATTTTTCTTAAAATTATTTT
1 ACTTTTTATCTTTTAAAATAATTTTTCTTAAAATTATTTT
*
4848538 ACTTTTTATCTTTTAAAATATTTTTTCTTAAAATTATTTT
1 ACTTTTTATCTTTTAAAATAATTTTTCTTAAAATTATTTT
4848578 A
1 A
4848579 AAAGATCAGG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.60
Consensus pattern (40 bp):
ACTTTTTATCTTTTAAAATAATTTTTCTTAAAATTATTTT
Found at i:4848696 original size:78 final size:78
Alignment explanation
Indices: 4848604--4848760 Score: 296
Period size: 78 Copynumber: 2.0 Consensus size: 78
4848594 ACTTACCTAC
*
4848604 TTAATTCAAATGTCAATGACGACTCAAAATTTATTTATTTATGCATTTATTTTAATACTCGATAT
1 TTAATCCAAATGTCAATGACGACTCAAAATTTATTTATTTATGCATTTATTTTAATACTCGATAT
4848669 TATTTTATTAAAT
66 TATTTTATTAAAT
*
4848682 TTAATCCAAATGTCAATGACGACTCAAAATTTATTTATTTATGCATTTATTTTAATACTTGATAT
1 TTAATCCAAATGTCAATGACGACTCAAAATTTATTTATTTATGCATTTATTTTAATACTCGATAT
4848747 TATTTTATTAAAT
66 TATTTTATTAAAT
4848760 T
1 T
4848761 ATATCGCTCC
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
78 77 1.00
ACGTcount: A:0.36, C:0.10, G:0.06, T:0.48
Consensus pattern (78 bp):
TTAATCCAAATGTCAATGACGACTCAAAATTTATTTATTTATGCATTTATTTTAATACTCGATAT
TATTTTATTAAAT
Found at i:4863827 original size:40 final size:40
Alignment explanation
Indices: 4863783--4863863 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
4863773 TATTCATGTT
4863783 TCGATCTTAGTTCTTTACTACACTCGCATATGCCTTACAA
1 TCGATCTTAGTTCTTTACTACACTCGCATATGCCTTACAA
4863823 TCGATCTTAGTTCTTTACTACACTCGCATATGCCTTACAA
1 TCGATCTTAGTTCTTTACTACACTCGCATATGCCTTACAA
4863863 T
1 T
4863864 TTTAATAAAC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.25, C:0.27, G:0.10, T:0.38
Consensus pattern (40 bp):
TCGATCTTAGTTCTTTACTACACTCGCATATGCCTTACAA
Found at i:4863941 original size:32 final size:32
Alignment explanation
Indices: 4863903--4863972 Score: 113
Period size: 32 Copynumber: 2.2 Consensus size: 32
4863893 ATTTTTATAC
*
4863903 ATATGAACCATTTACTAAAATAATATTATTTT
1 ATATGAACCATTTAATAAAATAATATTATTTT
**
4863935 ATATGAATTATTTAATAAAATAATATTATTTT
1 ATATGAACCATTTAATAAAATAATATTATTTT
4863967 ATATGA
1 ATATGA
4863973 GGAATTTATG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (32 bp):
ATATGAACCATTTAATAAAATAATATTATTTT
Found at i:4863987 original size:32 final size:32
Alignment explanation
Indices: 4863903--4863980 Score: 102
Period size: 32 Copynumber: 2.4 Consensus size: 32
4863893 ATTTTTATAC
** *
4863903 ATATGAACCATTTACTAAAATAATATTATTTT
1 ATATGAAGAATTTAATAAAATAATATTATTTT
**
4863935 ATATGAATTATTTAATAAAATAATATTATTTT
1 ATATGAAGAATTTAATAAAATAATATTATTTT
*
4863967 ATATGAGGAATTTA
1 ATATGAAGAATTTA
4863981 TGAAAATGCA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (32 bp):
ATATGAAGAATTTAATAAAATAATATTATTTT
Found at i:4864218 original size:2 final size:2
Alignment explanation
Indices: 4864211--4864247 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
4864201 ATTTACTCTT
4864211 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4864248 TAAATATAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4864599 original size:40 final size:40
Alignment explanation
Indices: 4864555--4864635 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
4864545 AACGCGTATC
4864555 ACTTTTTATCTTTTAAAATAATTTTTCTTAAAATTATTTT
1 ACTTTTTATCTTTTAAAATAATTTTTCTTAAAATTATTTT
*
4864595 ACTTTTTATCTTTTAAAATATTTTTTCTTAAAATTATTTT
1 ACTTTTTATCTTTTAAAATAATTTTTCTTAAAATTATTTT
4864635 A
1 A
4864636 AAAGATATTT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.60
Consensus pattern (40 bp):
ACTTTTTATCTTTTAAAATAATTTTTCTTAAAATTATTTT
Found at i:4864750 original size:27 final size:27
Alignment explanation
Indices: 4864720--4864803 Score: 93
Period size: 27 Copynumber: 3.2 Consensus size: 27
4864710 ATGCATTTAT
4864720 TTTAATACTTGATATTATTTTATTAAA
1 TTTAATACTTGATATTATTTTATTAAA
* ** * *
4864747 TTTAATCCTT-AT-TTA-TGCATTTAT
1 TTTAATACTTGATATTATTTTATTAAA
*
4864771 TTTAATACTCGATATTATTTTATTAAA
1 TTTAATACTTGATATTATTTTATTAAA
4864798 TTTAAT
1 TTTAAT
4864804 CTAAATGTCA
Statistics
Matches: 43, Mismatches: 11, Indels: 6
0.72 0.18 0.10
Matches are distributed among these distances:
24 13 0.30
25 5 0.12
26 5 0.12
27 20 0.47
ACGTcount: A:0.33, C:0.07, G:0.04, T:0.56
Consensus pattern (27 bp):
TTTAATACTTGATATTATTTTATTAAA
Found at i:4864759 original size:51 final size:51
Alignment explanation
Indices: 4864704--4864804 Score: 193
Period size: 51 Copynumber: 2.0 Consensus size: 51
4864694 CAAAATTTAT
*
4864704 TTATTTATGCATTTATTTTAATACTTGATATTATTTTATTAAATTTAATCC
1 TTATTTATGCATTTATTTTAATACTCGATATTATTTTATTAAATTTAATCC
4864755 TTATTTATGCATTTATTTTAATACTCGATATTATTTTATTAAATTTAATC
1 TTATTTATGCATTTATTTTAATACTCGATATTATTTTATTAAATTTAATC
4864805 TAAATGTCAA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.32, C:0.08, G:0.04, T:0.56
Consensus pattern (51 bp):
TTATTTATGCATTTATTTTAATACTCGATATTATTTTATTAAATTTAATCC
Found at i:4866262 original size:16 final size:17
Alignment explanation
Indices: 4866243--4866275 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
4866233 TTTACCCTAT
4866243 TTTTGTT-ATAATATAA
1 TTTTGTTGATAATATAA
*
4866259 TTTTGTTGATATTATAA
1 TTTTGTTGATAATATAA
4866276 AACCCATCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.33, C:0.00, G:0.09, T:0.58
Consensus pattern (17 bp):
TTTTGTTGATAATATAA
Found at i:4872922 original size:23 final size:23
Alignment explanation
Indices: 4872854--4872937 Score: 105
Period size: 23 Copynumber: 3.7 Consensus size: 23
4872844 TTAAATGATT
* * *
4872854 TTGATTGATTCAGCAAAATAATA
1 TTGAATGATTCAGCAAAATAGTG
*
4872877 TTGAATGATTCAACAAAATAGTG
1 TTGAATGATTCAGCAAAATAGTG
*
4872900 TTGAATGATTCAGCAAAACAGTG
1 TTGAATGATTCAGCAAAATAGTG
* *
4872923 CTAAATGATTCAGCA
1 TTGAATGATTCAGCA
4872938 CAGAAGTACA
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 53 1.00
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.30
Consensus pattern (23 bp):
TTGAATGATTCAGCAAAATAGTG
Found at i:4873713 original size:19 final size:19
Alignment explanation
Indices: 4873689--4873738 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
4873679 TAACACATTG
*
4873689 TGTATTTGCATTATC-GTTT
1 TGTATTTGC-TTATCAATTT
*
4873708 TGTATTAGCTTATCAATTT
1 TGTATTTGCTTATCAATTT
4873727 TGCTATTTGCTT
1 TG-TATTTGCTT
4873739 CTATAATAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
18 5 0.19
19 13 0.50
20 8 0.31
ACGTcount: A:0.18, C:0.12, G:0.14, T:0.56
Consensus pattern (19 bp):
TGTATTTGCTTATCAATTT
Found at i:4875310 original size:21 final size:21
Alignment explanation
Indices: 4875286--4875325 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
4875276 TTTGCATCTT
4875286 TACATTCACAT-ATATACATCA
1 TACATT-ACATAATATACATCA
*
4875307 TACATTGCATAATATACAT
1 TACATTACATAATATACAT
4875326 TGAATCTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.42, C:0.20, G:0.03, T:0.35
Consensus pattern (21 bp):
TACATTACATAATATACATCA
Found at i:4876828 original size:11 final size:10
Alignment explanation
Indices: 4876812--4876935 Score: 65
Period size: 11 Copynumber: 11.6 Consensus size: 10
4876802 AAACGATAGA
4876812 AAAAAAGAAGG
1 AAAAAAGAA-G
4876823 AAAAAAG-AG
1 AAAAAAGAAG
4876832 AAAAAAGAAAAG
1 AAAAAAG--AAG
* *
4876844 ATAAAAG-AT
1 AAAAAAGAAG
4876853 AAAAAAGATA-
1 AAAAAAGA-AG
*
4876863 AAAAAAAAAG
1 AAAAAAGAAG
*
4876873 AGAAAAGATAG
1 AAAAAAGA-AG
4876884 AAAAAGAAGAAG
1 -AAAA-AAGAAG
*
4876896 AAACAAAAAAG
1 AAA-AAAGAAG
* *
4876907 AGAAAAGGTAG
1 A-AAAAAGAAG
4876918 AAAAGAAAGAAG
1 -AAA-AAAGAAG
4876930 AAAAAA
1 AAAAAA
4876936 AGATAAAGAT
Statistics
Matches: 87, Mismatches: 13, Indels: 27
0.69 0.10 0.21
Matches are distributed among these distances:
9 16 0.18
10 17 0.20
11 28 0.32
12 22 0.25
13 4 0.05
ACGTcount: A:0.76, C:0.01, G:0.19, T:0.04
Consensus pattern (10 bp):
AAAAAAGAAG
Found at i:4876833 original size:21 final size:21
Alignment explanation
Indices: 4876809--4876983 Score: 80
Period size: 22 Copynumber: 8.3 Consensus size: 21
4876799 GAGAAACGAT
*
4876809 AGAAAAAAAGAAGGAAAAAAG
1 AGAAAAAAAGAAAGAAAAAAG
*
4876830 AG-AAAAAAGAAAAGATAAAAG
1 AGAAAAAAAG-AAAGAAAAAAG
* * *
4876851 ATAAAAAAGATAAAAAAAAAAG
1 AGAAAAAA-AGAAAGAAAAAAG
* *
4876873 AGAAAAGATAG-AA-AAAGAAG
1 AGAAAA-AAAGAAAGAAAAAAG
* *
4876893 AAGAAACAAA-AAAGAGAAAAGG
1 -AGAAAAAAAGAAAGA-AAAAAG
4876915 TAGAAAAGAAAG-AAGAAAAAA-
1 -AGAAAA-AAAGAAAGAAAAAAG
* * * *
4876936 AGATAAAGATAAAG-ATAAAG
1 AGAAAAAAAGAAAGAAAAAAG
*
4876956 ATAAAAAGGAA-AAAGAAAAAAG
1 AGAAAAA--AAGAAAGAAAAAAG
4876978 A-AAAAA
1 AGAAAAA
4876984 GAGAGAAAAT
Statistics
Matches: 114, Mismatches: 25, Indels: 30
0.67 0.15 0.18
Matches are distributed among these distances:
19 6 0.05
20 30 0.26
21 29 0.25
22 40 0.35
23 9 0.08
ACGTcount: A:0.75, C:0.01, G:0.19, T:0.05
Consensus pattern (21 bp):
AGAAAAAAAGAAAGAAAAAAG
Found at i:4876840 original size:7 final size:7
Alignment explanation
Indices: 4876824--4876985 Score: 82
Period size: 7 Copynumber: 23.1 Consensus size: 7
4876814 AAAAGAAGGA
4876824 AAAAAGAG
1 AAAAA-AG
4876832 AAAAAAG
1 AAAAAAG
* *
4876839 AAAAGAT
1 AAAAAAG
* *
4876846 AAAAGAT
1 AAAAAAG
4876853 AAAAAAG
1 AAAAAAG
*
4876860 ATAAAA-
1 AAAAAAG
4876866 AAAAAAG
1 AAAAAAG
*
4876873 AGAAAAG
1 AAAAAAG
* *
4876880 ATAGAA-
1 AAAAAAG
*
4876886 AAAGAAG
1 AAAAAAG
* *
4876893 AAGAAAC
1 AAAAAAG
4876900 AAAAAAG
1 AAAAAAG
*
4876907 AGAAAAGG
1 A-AAAAAG
*
4876915 TAGAAAAG
1 -AAAAAAG
*
4876923 AAAGAAG
1 AAAAAAG
4876930 AAAAAA-
1 AAAAAAG
*
4876936 AGATAAAG
1 A-AAAAAG
*
4876944 -ATAAAG
1 AAAAAAG
*
4876950 -ATAAAG
1 AAAAAAG
4876956 ATAAAAAG
1 A-AAAAAG
*
4876964 GAAAAAG
1 AAAAAAG
4876971 AAAAAAG
1 AAAAAAG
4876978 AAAAAAG
1 AAAAAAG
4876985 A
1 A
4876986 GAGAAAATAA
Statistics
Matches: 121, Mismatches: 25, Indels: 17
0.74 0.15 0.10
Matches are distributed among these distances:
6 23 0.19
7 78 0.64
8 19 0.16
9 1 0.01
ACGTcount: A:0.75, C:0.01, G:0.19, T:0.06
Consensus pattern (7 bp):
AAAAAAG
Found at i:4876904 original size:34 final size:33
Alignment explanation
Indices: 4876824--4876936 Score: 123
Period size: 34 Copynumber: 3.6 Consensus size: 33
4876814 AAAAGAAGGA
* *
4876824 AAAAAG-AGAA-AAAAGAAAAGATAAAAGATA-
1 AAAAAGAAGAAGAAAAAAAAAGAGAAAAGATAG
*
4876854 AAAAAG-A-TA-AAAAAAAAAGAGAAAAGATAG
1 AAAAAGAAGAAGAAAAAAAAAGAGAAAAGATAG
*
4876884 AAAAAGAAGAAGAAACAAAAAAGAGAAAAGGTAG
1 AAAAAGAAGAAGAAA-AAAAAAGAGAAAAGATAG
4876918 -AAAAGAAAGAAGAAAAAAA
1 AAAAAG-AAGAAGAAAAAAA
4876937 GATAAAGATA
Statistics
Matches: 72, Mismatches: 5, Indels: 9
0.84 0.06 0.10
Matches are distributed among these distances:
29 19 0.26
30 13 0.18
31 1 0.01
32 1 0.01
33 12 0.17
34 26 0.36
ACGTcount: A:0.76, C:0.01, G:0.19, T:0.04
Consensus pattern (33 bp):
AAAAAGAAGAAGAAAAAAAAAGAGAAAAGATAG
Found at i:4876921 original size:17 final size:17
Alignment explanation
Indices: 4876794--4876921 Score: 77
Period size: 17 Copynumber: 8.2 Consensus size: 17
4876784 ATAGATATAA
*
4876794 AAAAAGAGAAACGATAG
1 AAAAAGAGAAAAGATAG
* *
4876811 AAAAA-A-AGAAG-GA-
1 AAAAAGAGAAAAGATAG
4876824 AAAAAGAGAAAA-A-AG
1 AAAAAGAGAAAAGATAG
*
4876839 -AAAAGATAAAAGATA-
1 AAAAAGAGAAAAGATAG
*
4876854 AAAAAGA-TAAA-A-A-
1 AAAAAGAGAAAAGATAG
4876867 AAAAAGAGAAAAGATAG
1 AAAAAGAGAAAAGATAG
*
4876884 AAAAAGAAGAAGAA-ACA-
1 AAAAAG-AGAA-AAGATAG
*
4876901 AAAAAGAGAAAAGGTAG
1 AAAAAGAGAAAAGATAG
4876918 AAAA
1 AAAA
4876922 GAAAGAAGAA
Statistics
Matches: 86, Mismatches: 10, Indels: 30
0.68 0.08 0.24
Matches are distributed among these distances:
13 13 0.15
14 17 0.20
15 13 0.15
16 14 0.16
17 21 0.24
18 6 0.07
19 2 0.02
ACGTcount: A:0.74, C:0.02, G:0.20, T:0.05
Consensus pattern (17 bp):
AAAAAGAGAAAAGATAG
Found at i:4876968 original size:6 final size:6
Alignment explanation
Indices: 4876833--4876982 Score: 60
Period size: 6 Copynumber: 23.8 Consensus size: 6
4876823 AAAAAAGAGA
* * *
4876833 AAAAAG -AAAAG ATAAAAG ATAAA- AAAGAT AAAAA- AAAAAG AGAAAAG
1 AAAAAG AAAAAG A-AAAAG AAAAAG AAAAAG AAAAAG AAAAAG A-AAAAG
* * *
4876880 --ATAG AAAAAG AAGAAG AAACAA- AAAAGAG AAAAGG TAGAAAAG AAAGAAG
1 AAAAAG AAAAAG AAAAAG AAA-AAG AAAA-AG AAAAAG -A-AAAAG AAA-AAG
* * *
4876930 AAAAAAAG ATAAAG ATAAAG ATAAAGAT AAAAAGG AAAAAG AAAAAAG
1 --AAAAAG AAAAAG AAAAAG A-AAA-AG AAAAA-G AAAAAG -AAAAAG
4876978 AAAAA
1 AAAAA
4876983 AGAGAGAAAA
Statistics
Matches: 111, Mismatches: 14, Indels: 38
0.68 0.09 0.23
Matches are distributed among these distances:
4 3 0.03
5 14 0.13
6 44 0.40
7 38 0.34
8 9 0.08
9 3 0.03
ACGTcount: A:0.75, C:0.01, G:0.18, T:0.06
Consensus pattern (6 bp):
AAAAAG
Found at i:4876991 original size:105 final size:107
Alignment explanation
Indices: 4876793--4876992 Score: 284
Period size: 105 Copynumber: 1.9 Consensus size: 107
4876783 TATAGATATA
*
4876793 AAAAAAGAGAAACGATAGAAAAAAAGAAGGAAAAAAGAGAAAAAAGAAAAGATAAAAGATAAAAA
1 AAAAAAGAGAAAAGATAGAAAAAAAGAAGGAAAAAAGAGAAAAAAGAAAAGATAAAAGATAAAAA
* *
4876858 AGATAAAAAAAAAAGAGAAAAGATAGAAAAAGAAGAAGAAAC
66 AGATAAAAAAAAAAGAAAAAAGAGAGAAAAAGAAGAAGAAAC
* *
4876900 AAAAAAGAGAAAAGGTAGAAAAGAAAGAA-GAAAAAA-AG-ATAAAGATAAAGAT-AAAGATAAA
1 AAAAAAGAGAAAAGATAGAAAA-AAAGAAGGAAAAAAGAGAAAAAAGA-AAAGATAAAAGATAAA
*
4876961 AAGGA-AAAAGAAAAAAGAAAAAAGAGAGAAAA
64 AAAGATAAAA-AAAAAAGAAAAAAGAGAGAAAA
4876993 TAAATCAAGT
Statistics
Matches: 84, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
104 4 0.05
105 39 0.46
106 8 0.10
107 27 0.32
108 6 0.07
ACGTcount: A:0.74, C:0.01, G:0.20, T:0.05
Consensus pattern (107 bp):
AAAAAAGAGAAAAGATAGAAAAAAAGAAGGAAAAAAGAGAAAAAAGAAAAGATAAAAGATAAAAA
AGATAAAAAAAAAAGAAAAAAGAGAGAAAAAGAAGAAGAAAC
Found at i:4877968 original size:24 final size:24
Alignment explanation
Indices: 4877914--4877969 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
4877904 AGAAATGGGC
* *
4877914 AATATTTTTCAAATTTTTTTATTA
1 AATATTTTTAAAATTTTTTAATTA
*
4877938 AACATTTTTAAAATTCTTTTAATT-
1 AATATTTTTAAAATT-TTTTAATTA
*
4877962 GATATTTT
1 AATATTTT
4877970 CAATTTTTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
24 19 0.73
25 7 0.27
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.59
Consensus pattern (24 bp):
AATATTTTTAAAATTTTTTAATTA
Found at i:4878989 original size:38 final size:38
Alignment explanation
Indices: 4878945--4879017 Score: 92
Period size: 38 Copynumber: 1.9 Consensus size: 38
4878935 TTTCAATGTC
* * * *
4878945 ATTATTGGCTTCCTCGCGAATAGAAGTCAATCTTTGTT
1 ATTATTGACTCCCACGCGAAGAGAAGTCAATCTTTGTT
* *
4878983 ATTATTGACTCCCACTCGAAGAGGAGTCAATCTTT
1 ATTATTGACTCCCACGCGAAGAGAAGTCAATCTTT
4879018 CAATATCATT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
38 29 1.00
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.36
Consensus pattern (38 bp):
ATTATTGACTCCCACGCGAAGAGAAGTCAATCTTTGTT
Found at i:4879054 original size:42 final size:42
Alignment explanation
Indices: 4878927--4879142 Score: 154
Period size: 42 Copynumber: 5.2 Consensus size: 42
4878917 CATAAAGAAG
* * * * * *
4878927 AGTCAATATTTCAATGTCATTATTGGCTTCCTCGCGAATAGA
1 AGTCAATCTTTCAATATCATTCTTGACTTCCTCGTGAAGAGA
* * * * *
4878969 AGTCAATCTTT--GT-T-ATTATTGACTCCCAC-TCGAAGAGG
1 AGTCAATCTTTCAATATCATTCTTGACTTCCTCGT-GAAGAGA
* * *
4879007 AGTCAATCTTTCAATATCATTCTTGAATTTCTCGTAAAGAGA
1 AGTCAATCTTTCAATATCATTCTTGACTTCCTCGTGAAGAGA
* * * * *
4879049 AGTCAATCTTTAAGAATTGTCTTTCTTGACTCCCTTGTGAAGAGA
1 AGTCAATCTTT--CAA-TATCATTCTTGACTTCCTCGTGAAGAGA
* * * *
4879094 AGTCAATCTCTCAATCTTATTCTTGTCTTCCTCGTGAAGAGA
1 AGTCAATCTTTCAATATCATTCTTGACTTCCTCGTGAAGAGA
4879136 AGTCAAT
1 AGTCAAT
4879143 ATTTTGTGTT
Statistics
Matches: 133, Mismatches: 32, Indels: 18
0.73 0.17 0.10
Matches are distributed among these distances:
38 28 0.21
39 1 0.01
40 2 0.02
41 1 0.01
42 65 0.49
43 3 0.02
44 2 0.02
45 31 0.23
ACGTcount: A:0.28, C:0.19, G:0.16, T:0.37
Consensus pattern (42 bp):
AGTCAATCTTTCAATATCATTCTTGACTTCCTCGTGAAGAGA
Found at i:4879968 original size:20 final size:21
Alignment explanation
Indices: 4879945--4879985 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
4879935 AACTAAAGGA
4879945 GTAGTATCGATACTAC-ATAG
1 GTAGTATCGATACTACTATAG
* *
4879965 GTAGTATTGGTACTACTATAG
1 GTAGTATCGATACTACTATAG
4879986 TTTATGGTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.32, C:0.12, G:0.22, T:0.34
Consensus pattern (21 bp):
GTAGTATCGATACTACTATAG
Found at i:4881884 original size:24 final size:24
Alignment explanation
Indices: 4881848--4881893 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
4881838 GTCATTTCTT
4881848 GAGGATTGAGAGGAGGGTTTGGAA
1 GAGGATTGAGAGGAGGGTTTGGAA
*
4881872 GAGGATTTG-GAGGTGGGTTTGG
1 GAGGA-TTGAGAGGAGGGTTTGG
4881894 TGGTTGATTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 17 0.85
25 3 0.15
ACGTcount: A:0.22, C:0.00, G:0.52, T:0.26
Consensus pattern (24 bp):
GAGGATTGAGAGGAGGGTTTGGAA
Found at i:4882649 original size:20 final size:20
Alignment explanation
Indices: 4882620--4882712 Score: 71
Period size: 20 Copynumber: 4.5 Consensus size: 20
4882610 ATTCAAGTAA
*
4882620 TATCGGTACT-GGATGAATAG
1 TATCGATACTAGG-TGAATAG
* *
4882640 TATCGATACTAGGTTAGTAG
1 TATCGATACTAGGTGAATAG
** *
4882660 TATCGATACCTAGCAAGAGTAG
1 TATCGATA-CTAG-GTGAATAG
* * *
4882682 TGTCGATACTATGTGAGTAG
1 TATCGATACTAGGTGAATAG
4882702 TATCGATACTA
1 TATCGATACTA
4882713 AGTGCACAAA
Statistics
Matches: 59, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
20 38 0.64
21 9 0.15
22 12 0.20
ACGTcount: A:0.31, C:0.13, G:0.25, T:0.31
Consensus pattern (20 bp):
TATCGATACTAGGTGAATAG
Found at i:4883649 original size:13 final size:13
Alignment explanation
Indices: 4883645--4883687 Score: 68
Period size: 13 Copynumber: 3.3 Consensus size: 13
4883635 CCGTTGACTC
**
4883645 GACCCGACCTATT
1 GACCCGACCCGTT
4883658 GACCCGACCCGTT
1 GACCCGACCCGTT
4883671 GACCCGACCCGTT
1 GACCCGACCCGTT
4883684 GACC
1 GACC
4883688 GTTGACCAGC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.19, C:0.44, G:0.21, T:0.16
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:4883681 original size:18 final size:18
Alignment explanation
Indices: 4883627--4883668 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
4883617 GTCATAACCA
* *
4883627 GACCCGACCCGTTGACTC
1 GACCCGACCCATTGACCC
*
4883645 GACCCGACCTATTGACCC
1 GACCCGACCCATTGACCC
4883663 GACCCG
1 GACCCG
4883669 TTGACCCGAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.19, C:0.45, G:0.21, T:0.14
Consensus pattern (18 bp):
GACCCGACCCATTGACCC
Found at i:4888830 original size:13 final size:13
Alignment explanation
Indices: 4888826--4888885 Score: 75
Period size: 13 Copynumber: 4.5 Consensus size: 13
4888816 CCGTTGACTC
*
4888826 GACCCGACCTGTT
1 GACCCGACCCGTT
4888839 GACCCGACCCGTT
1 GACCCGACCCGTT
*
4888852 GACCCCACCCGTT
1 GACCCGACCCGTT
*
4888865 GACCGTTGACCCGTT
1 GACC--CGACCCGTT
4888880 GACCCG
1 GACCCG
4888886 TTGACTGTTG
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
13 29 0.73
15 11 0.28
ACGTcount: A:0.15, C:0.43, G:0.23, T:0.18
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:4888862 original size:18 final size:18
Alignment explanation
Indices: 4888803--4888849 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
4888793 GTCATAACCC
4888803 GACCCGACCCGACCCGTT
1 GACCCGACCCGACCCGTT
* *
4888821 GACTCGACCCGACCTGTT
1 GACCCGACCCGACCCGTT
4888839 GACCCGACCCG
1 GACCCGACCCG
4888850 TTGACCCCAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.17, C:0.47, G:0.23, T:0.13
Consensus pattern (18 bp):
GACCCGACCCGACCCGTT
Found at i:4888878 original size:15 final size:16
Alignment explanation
Indices: 4888858--4888908 Score: 61
Period size: 15 Copynumber: 3.2 Consensus size: 16
4888848 CGTTGACCCC
4888858 ACCCGTTGA-CCGTTG
1 ACCCGTTGACCCGTTG
4888873 ACCCGTTGACCCGTTG
1 ACCCGTTGACCCGTTG
*
4888889 A-CTGTTGACCACTGTTG
1 ACCCGTTGACC-C-GTTG
4888906 ACC
1 ACC
4888909 AAAACTTTGA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
15 17 0.55
16 8 0.26
17 5 0.16
18 1 0.03
ACGTcount: A:0.16, C:0.33, G:0.24, T:0.27
Consensus pattern (16 bp):
ACCCGTTGACCCGTTG
Found at i:4888880 original size:8 final size:8
Alignment explanation
Indices: 4888858--4888908 Score: 61
Period size: 8 Copynumber: 6.4 Consensus size: 8
4888848 CGTTGACCCC
4888858 ACCCGTTG
1 ACCCGTTG
4888866 A-CCGTTG
1 ACCCGTTG
4888873 ACCCGTTG
1 ACCCGTTG
4888881 ACCCGTTG
1 ACCCGTTG
*
4888889 A-CTGTTG
1 ACCCGTTG
4888896 ACCACTGTTG
1 ACC-C-GTTG
4888906 ACC
1 ACC
4888909 AAAACTTTGA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
7 13 0.35
8 17 0.46
10 7 0.19
ACGTcount: A:0.16, C:0.33, G:0.24, T:0.27
Consensus pattern (8 bp):
ACCCGTTG
Found at i:4888888 original size:23 final size:25
Alignment explanation
Indices: 4888858--4888908 Score: 79
Period size: 23 Copynumber: 2.1 Consensus size: 25
4888848 CGTTGACCCC
4888858 ACCCGTTGACCGTTGACC-C-GTTG
1 ACCCGTTGACCGTTGACCACTGTTG
*
4888881 ACCCGTTGACTGTTGACCACTGTTG
1 ACCCGTTGACCGTTGACCACTGTTG
4888906 ACC
1 ACC
4888909 AAAACTTTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 17 0.68
24 1 0.04
25 7 0.28
ACGTcount: A:0.16, C:0.33, G:0.24, T:0.27
Consensus pattern (25 bp):
ACCCGTTGACCGTTGACCACTGTTG
Found at i:4890219 original size:17 final size:18
Alignment explanation
Indices: 4890197--4890231 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
4890187 GTTCGAACGG
*
4890197 ATTGGAA-TAGATAATAA
1 ATTGGAATTAAATAATAA
4890214 ATTGGAATTAAATAATAA
1 ATTGGAATTAAATAATAA
4890232 GACCGGATGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.54, C:0.00, G:0.14, T:0.31
Consensus pattern (18 bp):
ATTGGAATTAAATAATAA
Found at i:4899242 original size:20 final size:20
Alignment explanation
Indices: 4899213--4899250 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
4899203 CCCCTTCAAA
*
4899213 GGGGGAATCGGTTCCCTCAT
1 GGGGGAATCGATTCCCTCAT
*
4899233 GGGGGGATCGATTCCCTC
1 GGGGGAATCGATTCCCTC
4899251 TGTACCAAAA
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:0.13, C:0.26, G:0.37, T:0.24
Consensus pattern (20 bp):
GGGGGAATCGATTCCCTCAT
Found at i:4908143 original size:42 final size:42
Alignment explanation
Indices: 4908076--4909069 Score: 707
Period size: 42 Copynumber: 24.6 Consensus size: 42
4908066 TTCAACATTT
* *
4908076 TGTTATTCTTGACTCCCTCGCGAAGAGGAGTCAATCTTTCAA
1 TGTTATTCTTGACTTCCTCGTGAAGAGGAGTCAATCTTTCAA
* * ** * *
4908118 TATCATTCTTGACTTTTTCGTGAAGAGAATTCAATCTTTCAGTA
1 TGTTATTCTTGACTTCCTCGTGAAGAGGAGTCAATCTTTCA--A
* * *
4908162 TTGTCT-TTCTTGACTCCCTCATGAAGAGGAGTCAATC-TCCTAA
1 -TGT-TATTCTTGACTTCCTCGTGAAGAGGAGTCAATCTTTC-AA
* * * *
4908205 TGTTATTCTTGAATTCCTCATGAAGAGAAGTCAA-CCTT---
1 TGTTATTCTTGACTTCCTCGTGAAGAGGAGTCAATCTTTCAA
* * * *
4908243 TGTTATTTTTTACTTCATCGTGAAGAGAAGTCAATC--T--A
1 TGTTATTCTTGACTTCCTCGTGAAGAGGAGTCAATCTTTCAA
* * *
4908281 TATTATTCTTGACTCCCTCGTGAAGAGGAGTCAATCTTTTAA
1 TGTTATTCTTGACTTCCTCGTGAAGAGGAGTCAATCTTTCAA
* * * * * *
4908323 TGTTATTCTCGACTTTCTCGTGAAGAGAAATCGAT-ATT---
1 TGTTATTCTTGACTTCCTCGTGAAGAGGAGTCAATCTTTCAA
* * *
4908361 TGTTATTATTGACTCCCTCGTGAAGAGGAGTCAATCTTTTAA
1 TGTTATTCTTGACTTCCTCGTGAAGAGGAGTCAATCTTTCAA
* * * * * *
4908403 TGTTATTCTCGACTTTCTCGTGAAGAGAAATCGAT-ATT---
1 TGTTATTCTTGACTTCCTCGTGAAGAGGAGTCAATCTTTCAA
* * * *
4908441 TGTTATTATTGACTTCCTCGTGAAGAGAAATCAAT-ATT---
1 TGTTATTCTTGACTTCCTCGTGAAGAGGAGTCAATCTTTCAA
* *
4908479 TGTTTTTCTTGAC-TCCTCATGAAGAGGAGTCAAT-TTTCAA
1 TGTTATTCTTGACTTCCTCGTGAAGAGGAGTCAATCTTTCAA
* *
4908519 TGTTATTCTTGACTTCCTCGTGAAGAGAAGTCAA----T-AT
1 TGTTATTCTTGACTTCCTCGTGAAGAGGAGTCAATCTTTCAA
* * * * * *
4908556 TGTTATTATTGTCTCCCTTGTGAAGAAGAGTCAATCTTTCAT
1 TGTTATTCTTGACTTCCTCGTGAAGAGGAGTCAATCTTTCAA
*
4908598 TGTCT-TACTTGAC-TCTCTCGTGAAGAGGAGTCAATCTTTCAA
1 TGT-TATTCTTGACTTC-CTCGTGAAGAGGAGTCAATCTTTCAA
* * * *
4908640 TGTTATTCTTGATTTTCTCGTGAA-AAGAGGTCAAT-ATT---
1 TGTTATTCTTGACTTCCTCGTGAAGAGGA-GTCAATCTTTCAA
* * *
4908678 TGTTATTCTTGTCTTCCTCGTGAAGAGAACTCAATC--TC--
1 TGTTATTCTTGACTTCCTCGTGAAGAGGAGTCAATCTTTCAA
* * *
4908716 TGTTATTCTTGAC-TCCATCATGAAGAAGAGTCAAGCTTTCAA
1 TGTTATTCTTGACTTCC-TCGTGAAGAGGAGTCAATCTTTCAA
* *
4908758 TATTATTCTTGACTTCCTCATGAAGA-GAGGTCAATC-TT---
1 TGTTATTCTTGACTTCCTCGTGAAGAGGA-GTCAATCTTTCAA
* **
4908796 TGTTATTCTTG-GTATCCTCGTGAAGAAAAGTCAATC-TT---
1 TGTTATTCTTGACT-TCCTCGTGAAGAGGAGTCAATCTTTCAA
*
4908834 TGTTATTCTTGAC-TCTCTCGTGAAGAAGAGTCAATCTTTCAA
1 TGTTATTCTTGACTTC-CTCGTGAAGAGGAGTCAATCTTTCAA
* * * **
4908876 TGTTATTCTTGACTTTCTCGTGAAGAGAATTCAATCTTTCGG
1 TGTTATTCTTGACTTCCTCGTGAAGAGGAGTCAATCTTTCAA
* * *
4908918 TGTTATCTTTCTTAACTCCCTCGTGAAGATGAGTCAATCTTTCAA
1 TGTTA---TTCTTGACTTCCTCGTGAAGAGGAGTCAATCTTTCAA
* * *
4908963 TGTTATTCTTAATTTCCTCGTAAAG-GGAAGTCAATC-TT---
1 TGTTATTCTTGACTTCCTCGTGAAGAGG-AGTCAATCTTTCAA
* *
4909001 TGTTATTCTTGACTCCCTCGTGAAGAGGAGTCAATCTTCCAA
1 TGTTATTCTTGACTTCCTCGTGAAGAGGAGTCAATCTTTCAA
*
4909043 TGTTATTCTTGACTTTCTCGTGAAGAG
1 TGTTATTCTTGACTTCCTCGTGAAGAG
4909070 AAGTTGATCG
Statistics
Matches: 760, Mismatches: 133, Indels: 118
0.75 0.13 0.12
Matches are distributed among these distances:
37 57 0.08
38 274 0.36
39 11 0.01
40 15 0.02
41 39 0.05
42 292 0.38
43 7 0.01
44 3 0.00
45 62 0.08
ACGTcount: A:0.26, C:0.18, G:0.17, T:0.39
Consensus pattern (42 bp):
TGTTATTCTTGACTTCCTCGTGAAGAGGAGTCAATCTTTCAA
Found at i:4908229 original size:87 final size:87
Alignment explanation
Indices: 4908081--4908243 Score: 211
Period size: 87 Copynumber: 1.9 Consensus size: 87
4908071 CATTTTGTTA
* * * ** *
4908081 TTCTTGACTCCCTCGCGAAGAGGAGTCAATCTTTCAATATCATTCTTGACTTTTTCGTGAAGAGA
1 TTCTTGACTCCCTCACGAAGAGGAGTCAATCTCTCAATATCATTCTTGAATTCCTCATGAAGAGA
* *
4908146 ATTCAATCTTTCAGTATTGTCT
66 AGTCAACCTTTCAGTATTGTCT
* * *
4908168 TTCTTGACTCCCTCATGAAGAGGAGTCAATCTC-CTAATGTTATTCTTGAATTCCTCATGAAGAG
1 TTCTTGACTCCCTCACGAAGAGGAGTCAATCTCTC-AATATCATTCTTGAATTCCTCATGAAGAG
4908232 AAGTCAACCTTT
65 AAGTCAACCTTT
4908244 GTTATTTTTT
Statistics
Matches: 64, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
86 1 0.02
87 63 0.98
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.37
Consensus pattern (87 bp):
TTCTTGACTCCCTCACGAAGAGGAGTCAATCTCTCAATATCATTCTTGAATTCCTCATGAAGAGA
AGTCAACCTTTCAGTATTGTCT
Found at i:4908267 original size:38 final size:38
Alignment explanation
Indices: 4908171--4909073 Score: 514
Period size: 38 Copynumber: 22.6 Consensus size: 38
4908161 ATTGTCTTTC
* * * *
4908171 TTGACTCCCTCATGAAGAGGAGTCAATCTCCTAATGTTATTC
1 TTGACTTCCTCGTGAAGAGAAGTCAATCT--T--TGTTATTT
* * *
4908213 TTGAATTCCTCATGAAGAGAAGTCAACCTTTGTTATTT
1 TTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTT
* * * * *
4908251 TTTACTTCATCGTGAAGAGAAGTCAATCTATATTATTC
1 TTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTT
* * *
4908289 TTGACTCCCTCGTGAAGAGGAGTCAATCTTTTAATGTTATTC
1 TTGACTTCCTCGTGAAGAGAAGTCAATC--TT--TGTTATTT
* * * * * *
4908331 TCGACTTTCTCGTGAAGAGAAATCGATATTTGTTATTA
1 TTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTT
* * *
4908369 TTGACTCCCTCGTGAAGAGGAGTCAATCTTTTAATGTTATTC
1 TTGACTTCCTCGTGAAGAGAAGTCAATC--TT--TGTTATTT
* * * * * *
4908411 TCGACTTTCTCGTGAAGAGAAATCGATATTTGTTATTA
1 TTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTT
* *
4908449 TTGACTTCCTCGTGAAGAGAAATCAATATTTGTT-TTT
1 TTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTT
* * * *
4908486 CTTGAC-TCCTCATGAAGAGGAGTCAATTTTCAATGTTATTC
1 -TTGACTTCCTCGTGAAGAGAAGTCAATCTT---TGTTATTT
* *
4908527 TTGACTTCCTCGTGAAGAGAAGTCAAT-ATTGTTATTA
1 TTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTT
* * * * *
4908564 TTGTCTCCCTTGTGAAGA-AGAGTCAATCTTTCATTGTCTT
1 TTGACTTCCTCGTGAAGAGA-AGTCAATCTTT-GTTAT-TT
* *
4908604 ACTTGAC-TCTCTCGTGAAGAGGAGTCAATCTTTCAATGTTATTC
1 --TTGACTTC-CTCGTGAAGAGAAGTCAATC-TT---TGTTATTT
* * * * * *
4908648 TTGATTTTCTCGTGAAAAGAGGTCAATATTTGTTATTC
1 TTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTT
* * * *
4908686 TTGTCTTCCTCGTGAAGAGAACTCAATCTCTGTTATTC
1 TTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTT
* * * *
4908724 TTGAC-TCCATCATGAAGA-AGAGTCAAGCTTTCAATATTATTC
1 TTGACTTCC-TCGTGAAGAGA-AGTCAATC-TT---TGTTATTT
* * *
4908766 TTGACTTCCTCATGAAGAGAGGTCAATCTTTGTTATTC
1 TTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTT
* * *
4908804 TTG-GTATCCTCGTGAAGAAAAGTCAATCTTTGTTATTC
1 TTGACT-TCCTCGTGAAGAGAAGTCAATCTTTGTTATTT
*
4908842 TTGAC-TCTCTCGTGAAGA-AGAGTCAATCTTTCAATGTTATTC
1 TTGACTTC-CTCGTGAAGAGA-AGTCAATC-TT---TGTTATTT
* *
4908884 TTGACTTTCTCGTGAAGAGAATTCAATCTTTCGGTGTTATCTTT
1 TTGACTTCCTCGTGAAGAGAAGTCAATC-TT---TGTTA--TTT
* * *
4908928 CTTAACTCCCTCGTGAAGATG-AGTCAATCTTTCAATGTTATTC
1 -TTGACTTCCTCGTGAAGA-GAAGTCAATC-TT---TGTTATTT
* * * * *
4908971 TTAATTTCCTCGTAAAGGGAAGTCAATCTTTGTTATTC
1 TTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTT
* * *
4909009 TTGACTCCCTCGTGAAGAGGAGTCAATCTTCCAATGTTATTC
1 TTGACTTCCTCGTGAAGAGAAGTCAATCTT----TGTTATTT
*
4909051 TTGACTTTCTCGTGAAGAGAAGT
1 TTGACTTCCTCGTGAAGAGAAGT
4909074 TGATCGTTCA
Statistics
Matches: 684, Mismatches: 123, Indels: 108
0.75 0.13 0.12
Matches are distributed among these distances:
36 1 0.00
37 59 0.09
38 282 0.41
39 6 0.01
40 19 0.03
41 29 0.04
42 238 0.35
43 11 0.02
44 3 0.00
45 34 0.05
46 2 0.00
ACGTcount: A:0.26, C:0.18, G:0.17, T:0.39
Consensus pattern (38 bp):
TTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTT
Found at i:4908329 original size:80 final size:79
Alignment explanation
Indices: 4908076--4909073 Score: 662
Period size: 80 Copynumber: 12.4 Consensus size: 79
4908066 TTCAACATTT
* * * * ***
4908076 TGTTATTCTTGACTCCCTCGCGAAGAGGAGTCAATCTTTCAATATCATTCTTGACTTTTTCGTGA
1 TGTTATTCTTGACT-TCTCGTGAAGAGAAGTCAATCTTT--GT-T-ATTCTTGACTCCCTCGTGA
* * *
4908141 AGAGAATTCAATCTTTCAGTAT
61 AGAGGAGTCAATCTTT---TAA
* * * * * *
4908163 TGTCT-TTCTTGACTCCCTCATGAAGAGGAGTCAATCTCCTAATGTTATTCTTGAATTCCTCATG
1 TGT-TATTCTTGACT-TCTCGTGAAGAGAAGTCAATCT--T--TGTTATTCTTGACTCCCTCGTG
* *
4908227 AAGAGAAGTCAA-C-CTT--
60 AAGAGGAGTCAATCTTTTAA
* * * *
4908243 TGTTATTTTTTACTTCATCGTGAAGAGAAGTCAATCTATATTATTCTTGACTCCCTCGTGAAGAG
1 TGTTATTCTTGACTTC-TCGTGAAGAGAAGTCAATCTTTGTTATTCTTGACTCCCTCGTGAAGAG
4908308 GAGTCAATCTTTTAA
65 GAGTCAATCTTTTAA
* * * * *
4908323 TGTTATTCTCGACTTTCTCGTGAAGAGAAATCGATATTTGTTATTATTGACTCCCTCGTGAAGAG
1 TGTTATTCTTGAC-TTCTCGTGAAGAGAAGTCAATCTTTGTTATTCTTGACTCCCTCGTGAAGAG
4908388 GAGTCAATCTTTTAA
65 GAGTCAATCTTTTAA
* * * * * *
4908403 TGTTATTCTCGACTTTCTCGTGAAGAGAAATCGATATTTGTTATTATTGACTTCCTCGTGAAGAG
1 TGTTATTCTTGAC-TTCTCGTGAAGAGAAGTCAATCTTTGTTATTCTTGACTCCCTCGTGAAGAG
* * *
4908468 AAATCAA--TATT--
65 GAGTCAATCTTTTAA
* * * * * *
4908479 TGTTTTTCTTGACTCCTCATGAAGAGGAGTCAATTTTCAATGTTATTCTTGACTTCCTCGTGAAG
1 TGTTATTCTTGACTTCTCGTGAAGAGAAGTCAATCTT---TGTTATTCTTGACTCCCTCGTGAAG
* *
4908544 AGAAGTCAA-----TAT
63 AGGAGTCAATCTTTTAA
* * * * * * *
4908556 TGTTATTATTGTCTCCCTTGTGAAGA-AGAGTCAATCTTTCATTGTCTTACTTGACTCTCTCGTG
1 TGTTATTCTTGACT-TCTCGTGAAGAGA-AGTCAATCTTT--GT-TATT-CTTGACTCCCTCGTG
*
4908620 AAGAGGAGTCAATCTTTCAA
60 AAGAGGAGTCAATCTTTTAA
* * * * * *
4908640 TGTTATTCTTGATTTTCTCGTGAAAAGAGGTCAATATTTGTTATTCTTGTCTTCCTCGTGAAGAG
1 TGTTATTCTTGA-CTTCTCGTGAAGAGAAGTCAATCTTTGTTATTCTTGACTCCCTCGTGAAGAG
* * *
4908705 AACTCAATC---T-C
65 GAGTCAATCTTTTAA
* * * * * *
4908716 TGTTATTCTTGACTCCATCATGAAGA-AGAGTCAAGCTTTCAATATTATTCTTGACTTCCTCATG
1 TGTTATTCTTGACTTC-TCGTGAAGAGA-AGTCAATC-TT---TGTTATTCTTGACTCCCTCGTG
4908780 AAGA-GAGGTCAATC--TT--
60 AAGAGGA-GTCAATCTTTTAA
* * *
4908796 TGTTATTCTTGGTA-TCCTCGTGAAGAAAAGTCAATCTTTGTTATTCTTGACTCTCTCGTGAAGA
1 TGTTATTCTT-G-ACTTCTCGTGAAGAGAAGTCAATCTTTGTTATTCTTGACTCCCTCGTGAAGA
* *
4908860 AGAGTCAATCTTTCAA
64 GGAGTCAATCTTTTAA
* *
4908876 TGTTATTCTTGACTTTCTCGTGAAGAGAATTCAATCTTTCGGTGTTATCTTTCTTAACTCCCTCG
1 TGTTATTCTTGAC-TTCTCGTGAAGAGAAGTCAATC-TT---TGTTA---TTCTTGACTCCCTCG
* *
4908941 TGAAGATGAGTCAATCTTTCAA
58 TGAAGAGGAGTCAATCTTTTAA
* * * *
4908963 TGTTATTCTTAATTTCCTCGTAAAGGGAAGTCAATCTTTGTTATTCTTGACTCCCTCGTGAAGAG
1 TGTTATTCTTGACTT-CTCGTGAAGAGAAGTCAATCTTTGTTATTCTTGACTCCCTCGTGAAGAG
**
4909028 GAGTCAATCTTCCAA
65 GAGTCAATCTTTTAA
4909043 TGTTATTCTTGACTTTCTCGTGAAGAGAAGT
1 TGTTATTCTTGAC-TTCTCGTGAAGAGAAGT
4909074 TGATCGTTCA
Statistics
Matches: 742, Mismatches: 112, Indels: 121
0.76 0.11 0.12
Matches are distributed among these distances:
75 23 0.03
76 93 0.13
77 17 0.02
78 60 0.08
79 30 0.04
80 329 0.44
81 16 0.02
82 3 0.00
83 5 0.01
84 33 0.04
85 3 0.00
86 5 0.01
87 120 0.16
88 2 0.00
89 2 0.00
91 1 0.00
ACGTcount: A:0.26, C:0.18, G:0.17, T:0.39
Consensus pattern (79 bp):
TGTTATTCTTGACTTCTCGTGAAGAGAAGTCAATCTTTGTTATTCTTGACTCCCTCGTGAAGAGG
AGTCAATCTTTTAA
Found at i:4908347 original size:118 final size:117
Alignment explanation
Indices: 4908076--4909073 Score: 615
Period size: 118 Copynumber: 8.3 Consensus size: 117
4908066 TTCAACATTT
* * * * **
4908076 TGTTATTCTTGACTCCCTCGCGAAGAGGAGTCAATCTTTCAATATCATTCTTGACTTTTTCGTGA
1 TGTTATTCTTGACTTCCTCGTGAAGAGAAGTCAATCTTT--GT-T-ATTCTTGACTTCCTCGTGA
* * * * *
4908141 AGAGAATTCAATCTTTCAGTATTGTCT-TTCTTGACTCCCTCATGAAGAGGAGTCAATCTCCTAA
62 AGAGAAGTCAA----TC--TA-TGT-TATTCTTGACTTCCTCGTGAAGAGGAGTCAATCT-TTTA
* * * * * *
4908205 TGTTATTCTTGAATTCCTCATGAAGAGAAGTCAACCTTTGTTATTTTTTACTTCATCGTGAAGAG
1 TGTTATTCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCTTGACTTCCTCGTGAAGAG
* *
4908270 AAGTCAATCTATATTATTCTTGACTCCCTCGTGAAGAGGAGTCAATCTTTTAA
66 AAGTCAATCTATGTTATTCTTGACTTCCTCGTGAAGAGGAGTCAATCTTTT-A
* * * * * * *
4908323 TGTTATTCTCGACTTTCTCGTGAAGAGAAATCGATATTTGTTATTATTGACTCCCTCGTGAAGAG
1 TGTTATTCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCTTGACTTCCTCGTGAAGAG
* * * * * * *
4908388 GAGTCAATCTTTTAATGTTATTCTCGACTTTCTCGTGAAGAGAAATCGA--TATT-
66 AAGTCAATC---T-ATGTTATTCTTGACTTCCTCGTGAAGAGGAGTCAATCTTTTA
* * * * *
4908441 TGTTATTATTGACTTCCTCGTGAAGAGAAATCAATATTTGTTTTTCTTGAC-TCCTCATGAAGAG
1 TGTTATTCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCTTGACTTCCTCGTGAAGAG
* * * *
4908505 GAGTCAATTTTCAATGTTATTCTTGACTTCCTCGTGAAGAGAAGTCAA---TAT-
66 AAGTCAA---TCTATGTTATTCTTGACTTCCTCGTGAAGAGGAGTCAATCTTTTA
* * * * * *
4908556 TGTTATTATTGTCTCCCTTGTGAAGA-AGAGTCAATCTTTCATTGTCTTACTTGAC-TCTCTCGT
1 TGTTATTCTTGACTTCCTCGTGAAGAGA-AGTCAATCTTT--GT-TATT-CTTGACTTC-CTCGT
* * * * *
4908619 GAAGAGGAGTCAATCTTTCAATGTTATTCTTGATTTTCTCGTGAA-AAGAGGTCAA--TATT-
60 GAAGAGAAGTCAATC--T--ATGTTATTCTTGACTTCCTCGTGAAGAGGA-GTCAATCTTTTA
* * * *
4908678 TGTTATTCTTGTCTTCCTCGTGAAGAGAACTCAATCTCTGTTATTCTTGAC-TCCATCATGAAGA
1 TGTTATTCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCTTGACTTCC-TCGTGAAGA
* * *
4908742 -AGAGTCAAGCTTTCAATATTATTCTTGACTTCCTCATGAAGA-GAGGTCAATC--TT-
65 GA-AGTCAA----TCTATGTTATTCTTGACTTCCTCGTGAAGAGGA-GTCAATCTTTTA
* *
4908796 TGTTATTCTTG-GTATCCTCGTGAAGAAAAGTCAATCTTTGTTATTCTTGAC-TCTCTCGTGAAG
1 TGTTATTCTTGACT-TCCTCGTGAAGAGAAGTCAATCTTTGTTATTCTTGACTTC-CTCGTGAAG
* * * **
4908859 A-AGAGTCAATCTTTCAATGTTATTCTTGACTTTCTCGTGAAGAGAATTCAATCTTTCGG
64 AGA-AGTCAATC--T--ATGTTATTCTTGACTTCCTCGTGAAGAGGAGTCAATCTTT-TA
* * * *
4908918 TGTTATCTTTCTTAACTCCCTCGTGAAGATG-AGTCAATCTTTCAATGTTATTCTTAATTTCCTC
1 TGTTA---TTCTTGACTTCCTCGTGAAGA-GAAGTCAATC-TT---TGTTATTCTTGACTTCCTC
* * * * **
4908982 GTAAAGGGAAGTCAATCTTTGTTATTCTTGACTCCCTCGTGAAGAGGAGTCAATCTTCCAA
58 GTGAAGAGAAGTCAATCTATGTTATTCTTGACTTCCTCGTGAAGAGGAGTCAATCTT-TTA
*
4909043 TGTTATTCTTGACTTTCTCGTGAAGAGAAGT
1 TGTTATTCTTGACTTCCTCGTGAAGAGAAGT
4909074 TGATCGTTCA
Statistics
Matches: 702, Mismatches: 112, Indels: 117
0.75 0.12 0.13
Matches are distributed among these distances:
114 3 0.00
115 33 0.05
116 31 0.04
117 25 0.04
118 289 0.41
119 16 0.02
120 26 0.04
121 32 0.05
122 89 0.13
123 1 0.00
125 88 0.13
126 4 0.01
127 2 0.00
129 60 0.09
130 3 0.00
ACGTcount: A:0.26, C:0.18, G:0.17, T:0.39
Consensus pattern (117 bp):
TGTTATTCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCTTGACTTCCTCGTGAAGAG
AAGTCAATCTATGTTATTCTTGACTTCCTCGTGAAGAGGAGTCAATCTTTTA
Found at i:4909416 original size:20 final size:20
Alignment explanation
Indices: 4909393--4909438 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
4909383 TTTTGTCTTT
*
4909393 CTCAAAGACCTTTTAACTTG
1 CTCAAAGACCTGTTAACTTG
*
4909413 CTCAAAGACCTGTTAACTTT
1 CTCAAAGACCTGTTAACTTG
4909433 CTCAAA
1 CTCAAA
4909439 AGATTAATGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.33, C:0.26, G:0.09, T:0.33
Consensus pattern (20 bp):
CTCAAAGACCTGTTAACTTG
Found at i:4910071 original size:134 final size:133
Alignment explanation
Indices: 4909749--4910338 Score: 582
Period size: 134 Copynumber: 4.4 Consensus size: 133
4909739 AATGTTTGAT
* * * ** * * *
4909749 TTTCATATTTGGTCTTCCTAAAGAGCAGCGAAGCAAACCATGTTTAATTCAATATTTCC-TGAAG
1 TTTCAGATTTGGTCTTCCTGAAGAGCAGTGAAGCAAATGAT-TCTGATTCAAT-CTTCCTTGAAG
* * * * *
4909813 AGTAGTGAAGTAGATCAAAGA-TTTCTCTAGTCTGATTTACCCTAAAGAGTAGTGTAGTAGAA-T
64 AGTAGTGAAGTAGATCAAA-ATTTTCTCGAGTCTGATCTCCCCTAAAGAGTAGTGGAGCA-AATT
*
4909876 ATTCTTC
127 CTTCTTC
* * ** * * * ** * *
4909883 TTTTAGATTTGGTATTCCTGAAGAGCAGCAAAGCAAGTCACGTTC-GATTTAATCTTTTTTTAAT
1 TTTCAGATTTGGTCTTCCTGAAGAGCAGTGAAGCAAATGA--TTCTGATTCAATCTTCCTTGAAG
* * *
4909947 AGTATTTAAGTAGATCAAAGA-TTTCTTGAGTCTGATCTCCCCTAAAGAGTAGTGGAGCAAATTC
64 AGTAGTGAAGTAGATCAAA-ATTTTCTCGAGTCTGATCTCCCCTAAAGAGTAGTGGAGCAAATTC
*
4910011 TTCATC
128 TTCTTC
* * *
4910017 TTTCAGTTTTGGTCTTCCTGAAGAGCAGTGAATCAAAATGATTCTGATTCAATCTTCCCTGAAGA
1 TTTCAGATTTGGTCTTCCTGAAGAGCAGTGAAGC-AAATGATTCTGATTCAATCTTCCTTGAAGA
* * * * **
4910082 GAAGTGAAGTGGATCAAAATTTTCTCGAGTATGATCTCCCCTAAAGAGTAGTGGAGCAGACGCTT
65 GTAGTGAAGTAGATCAAAATTTTCTCGAGTCTGATCTCCCCTAAAGAGTAGTGGAGCAAATTCTT
4910147 CTTC
130 CTTC
* *
4910151 TTTCAGATTTGGTCTTCCTG-ATAGTAGTGAAGCAAATCGATTCTGATTCAATCTTCCTTGAAGA
1 TTTCAGATTTGGTCTTCCTGAAGAGCAGTGAAGCAAAT-GATTCTGATTCAATCTTCCTTGAAGA
* * * * * *
4910215 TTAGCGAAGTGGATCAAAATTTTCTCGAGTC-GAATCTCTCCTAAAAAGTAGTGGAGCATATTCT
65 GTAGTGAAGTAGATCAAAATTTTCTCGAGTCTG-ATCTCCCCTAAAGAGTAGTGGAGCAAATTCT
4910279 TCTTC
129 TCTTC
* * **
4910284 TTTCAGATTTGGTCTTCCTGAAGAGCAATGAAGTAAATCGATTCCCATTCAATCT
1 TTTCAGATTTGGTCTTCCTGAAGAGCAGTGAAGCAAAT-GATTCTGATTCAATCT
4910339 CCCCGGAATA
Statistics
Matches: 377, Mismatches: 69, Indels: 20
0.81 0.15 0.04
Matches are distributed among these distances:
132 5 0.01
133 121 0.32
134 245 0.65
135 5 0.01
136 1 0.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.34
Consensus pattern (133 bp):
TTTCAGATTTGGTCTTCCTGAAGAGCAGTGAAGCAAATGATTCTGATTCAATCTTCCTTGAAGAG
TAGTGAAGTAGATCAAAATTTTCTCGAGTCTGATCTCCCCTAAAGAGTAGTGGAGCAAATTCTTC
TTC
Found at i:4910584 original size:3 final size:3
Alignment explanation
Indices: 4910570--4910626 Score: 69
Period size: 3 Copynumber: 18.3 Consensus size: 3
4910560 ATCCTGCTAC
* * *
4910570 TAT TAA TAT TAT TAT TAAT TAT TAT TAT TAT TAT TATT TAA TAT TAA
1 TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TA-T TAT TAT TAT
4910617 TAT TAT TAT T
1 TAT TAT TAT T
4910627 TATGTTAGTT
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
3 40 0.87
4 6 0.13
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:4910598 original size:19 final size:19
Alignment explanation
Indices: 4910570--4910629 Score: 84
Period size: 19 Copynumber: 3.2 Consensus size: 19
4910560 ATCCTGCTAC
* *
4910570 TATTAATATTATTATTAAT
1 TATTATTATTATTATTATT
4910589 TATTATTATTATTATTATT
1 TATTATTATTATTATTATT
* *
4910608 TAATATTAATATTATTATT
1 TATTATTATTATTATTATT
4910627 TAT
1 TAT
4910630 GTTAGTTTTA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 36 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
TATTATTATTATTATTATT
Found at i:4910676 original size:17 final size:17
Alignment explanation
Indices: 4910641--4910695 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
4910631 TTAGTTTTAC
*
4910641 AAACAAAAAATAGAAAAA
1 AAACAAAAAAT-GACAAA
*
4910659 AAATAAAAAA-GTACAAA
1 AAACAAAAAATG-ACAAA
*
4910676 AAGCAAAAAATGACAAA
1 AAACAAAAAATGACAAA
4910693 AAA
1 AAA
4910696 AAGTTACCCC
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
16 1 0.03
17 19 0.63
18 10 0.33
ACGTcount: A:0.78, C:0.07, G:0.07, T:0.07
Consensus pattern (17 bp):
AAACAAAAAATGACAAA
Found at i:4912820 original size:20 final size:20
Alignment explanation
Indices: 4912795--4912834 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
4912785 GAATGTTATC
4912795 TTGTATAGG-AAATTTATGTA
1 TTGTAT-GGAAAATTTATGTA
4912815 TTGTATGGAAAATTTATGTA
1 TTGTATGGAAAATTTATGTA
4912835 AACGCGTCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.11
20 17 0.89
ACGTcount: A:0.35, C:0.00, G:0.20, T:0.45
Consensus pattern (20 bp):
TTGTATGGAAAATTTATGTA
Found at i:4933726 original size:58 final size:58
Alignment explanation
Indices: 4933655--4933770 Score: 214
Period size: 58 Copynumber: 2.0 Consensus size: 58
4933645 AACATACAGA
4933655 TTGATATTCAGATTACTCAACTAGTAGCTTAGTTAAATTCTTCACACTTGTTGAACTC
1 TTGATATTCAGATTACTCAACTAGTAGCTTAGTTAAATTCTTCACACTTGTTGAACTC
* *
4933713 TTGATATTGAGATTACTCAACTAGTAGCTTAGTTAAATTCTTCGCACTTGTTGAACTC
1 TTGATATTCAGATTACTCAACTAGTAGCTTAGTTAAATTCTTCACACTTGTTGAACTC
4933771 ATTCGTGGTA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
58 56 1.00
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.40
Consensus pattern (58 bp):
TTGATATTCAGATTACTCAACTAGTAGCTTAGTTAAATTCTTCACACTTGTTGAACTC
Found at i:4935052 original size:21 final size:21
Alignment explanation
Indices: 4935001--4935050 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
4934991 GTGGTGGATT
*
4935001 CAGAAATTTATAAATAGGGTT
1 CAGAAATTTATAAATAGGGTA
4935022 CAGAAATTTATAAAT-GGGATA
1 CAGAAATTTATAAATAGGG-TA
4935043 CA-AAATTT
1 CAGAAATTT
4935051 TAATTTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 9 0.33
21 18 0.67
ACGTcount: A:0.46, C:0.06, G:0.16, T:0.32
Consensus pattern (21 bp):
CAGAAATTTATAAATAGGGTA
Found at i:4939767 original size:3 final size:3
Alignment explanation
Indices: 4939759--4939867 Score: 137
Period size: 3 Copynumber: 35.7 Consensus size: 3
4939749 TCATTTAAAT
** *
4939759 TTA TTA TTA TTA TTA AAA TTA TTA TTA TTA TTA TTA GTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
4939807 TTA TTA TAA TTA TTA TTA TCA TTA TTTA TTA TTA TTA TTA ATA CTA
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA
4939853 TATA TTA TTA TTA TT
1 T-TA TTA TTA TTA TT
4939868 TAATAAATAA
Statistics
Matches: 91, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
3 85 0.93
4 6 0.07
ACGTcount: A:0.37, C:0.02, G:0.01, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:4941398 original size:8 final size:9
Alignment explanation
Indices: 4941387--4941418 Score: 50
Period size: 8 Copynumber: 3.8 Consensus size: 9
4941377 TAAATATATA
4941387 TATTTATT-
1 TATTTATTC
4941395 TATTTATTC
1 TATTTATTC
4941404 TATTT-TTC
1 TATTTATTC
4941412 TATTTAT
1 TATTTAT
4941419 AAATTTAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 16 0.73
9 6 0.27
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.72
Consensus pattern (9 bp):
TATTTATTC
Found at i:4944433 original size:43 final size:44
Alignment explanation
Indices: 4944386--4944468 Score: 132
Period size: 43 Copynumber: 1.9 Consensus size: 44
4944376 AATAGAGAAA
* *
4944386 TTAGGAGTGAAAGTTATTCCCTATATGT-AAAGTTTTGTTGAAG
1 TTAGGACTGAAAGTTATCCCCTATATGTAAAAGTTTTGTTGAAG
*
4944429 TTAGGACTGAAAGTTGTCCCCTATATGTAAAAGTTTTGTT
1 TTAGGACTGAAAGTTATCCCCTATATGTAAAAGTTTTGTT
4944469 TAATACACGG
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
43 25 0.69
44 11 0.31
ACGTcount: A:0.29, C:0.10, G:0.22, T:0.40
Consensus pattern (44 bp):
TTAGGACTGAAAGTTATCCCCTATATGTAAAAGTTTTGTTGAAG
Found at i:4946847 original size:2 final size:2
Alignment explanation
Indices: 4946840--4946869 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4946830 TTATCCTTTA
4946840 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
4946870 CCTTGGTTGT
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:4947079 original size:14 final size:15
Alignment explanation
Indices: 4947060--4947089 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4947050 CAACAAAGAA
4947060 AGAAGAA-AAAAAAG
1 AGAAGAAGAAAAAAG
4947074 AGAAGAAGAAAAAAG
1 AGAAGAAGAAAAAAG
4947089 A
1 A
4947090 AAATTGAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (15 bp):
AGAAGAAGAAAAAAG
Found at i:4947081 original size:17 final size:16
Alignment explanation
Indices: 4947054--4947087 Score: 59
Period size: 17 Copynumber: 2.1 Consensus size: 16
4947044 CTTATCCAAC
4947054 AAAGAAAGAAGAAAAA
1 AAAGAAAGAAGAAAAA
4947070 AAAGAGAAGAAGAAAAA
1 AAAGA-AAGAAGAAAAA
4947087 A
1 A
4947088 GAAAATTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (16 bp):
AAAGAAAGAAGAAAAA
Found at i:4951200 original size:54 final size:54
Alignment explanation
Indices: 4951110--4951225 Score: 189
Period size: 54 Copynumber: 2.1 Consensus size: 54
4951100 ACTTCAATGA
* *
4951110 TTACGAACATCTGAGCAGAAGCCACAAAAAAGGATGAATGTATTGTCAAATGTT
1 TTACGAACATCTGAGCAGAAGCCACAAAAAAGGATGAATGCACTGTCAAATGTT
*
4951164 TTACGAACATCTGAGCAGAAGCCACAGGAAAA-GATGAATGCACTGTCAAATGTT
1 TTACGAACATCTGAGCAGAAGCCACA-AAAAAGGATGAATGCACTGTCAAATGTT
4951218 TTACGAAC
1 TTACGAAC
4951226 CTGTTATTCT
Statistics
Matches: 58, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
54 54 0.93
55 4 0.07
ACGTcount: A:0.40, C:0.17, G:0.21, T:0.22
Consensus pattern (54 bp):
TTACGAACATCTGAGCAGAAGCCACAAAAAAGGATGAATGCACTGTCAAATGTT
Found at i:4951654 original size:22 final size:22
Alignment explanation
Indices: 4951587--4951665 Score: 68
Period size: 22 Copynumber: 3.6 Consensus size: 22
4951577 ACATCTGCAT
* *
4951587 TTTTTAAAGATAATAGATTCTC
1 TTTTCAAAGATGATAGATTCTC
** * * * *
4951609 ACTTCAGAGATGACAAATTTTC
1 TTTTCAAAGATGATAGATTCTC
*
4951631 TTTTTAAAGATGATAGATTCTC
1 TTTTCAAAGATGATAGATTCTC
*
4951653 TTTTCAAAAATGA
1 TTTTCAAAGATGA
4951666 AAGCTTTATG
Statistics
Matches: 40, Mismatches: 17, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.41
Consensus pattern (22 bp):
TTTTCAAAGATGATAGATTCTC
Found at i:4952403 original size:47 final size:47
Alignment explanation
Indices: 4952334--4952426 Score: 186
Period size: 47 Copynumber: 2.0 Consensus size: 47
4952324 CTATTTCTCA
4952334 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGT
4952381 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGG
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGG
4952427 AGCTTTTTGA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.31
Consensus pattern (47 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGT
Found at i:4952494 original size:76 final size:76
Alignment explanation
Indices: 4952368--4953556 Score: 2261
Period size: 76 Copynumber: 15.6 Consensus size: 76
4952358 ATGTTTCCAA
4952368 AAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTT
1 AAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTT
4952433 TTGATGTTTTC
66 TTGATGTTTTC
4952444 AAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTT
1 AAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTT
4952509 TTGATGTTTTC
66 TTGATGTTTTC
* *
4952520 AAAGCCTTCAGGTCATCTGTATGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTT
1 AAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTT
4952585 TTGATGTTTTC
66 TTGATGTTTTC
*
4952596 AAATCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTT
1 AAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTT
4952661 TTGATGTTTTC
66 TTGATGTTTTC
*
4952672 AAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTT
1 AAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTT
4952737 TTGATGTTTTC
66 TTGATGTTTTC
*
4952748 AAATCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTT
1 AAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTT
4952813 TTGATGTTTTC
66 TTGATGTTTTC
4952824 AAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAAGCCTTCGGGAGCTT
1 AAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCC-AAAAAGCCTTCGGGAGCTT
4952889 TTTGATGTTTTC
65 TTTGATGTTTTC
*
4952901 AAATCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTT
1 AAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTT
4952966 TTGATGTTTTC
66 TTGATGTTTTC
4952977 AAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTT
1 AAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTT
4953042 TTGATGTTTTC
66 TTGATGTTTTC
*
4953053 AAAGCCTTCAGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTT
1 AAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTT
4953118 TTGATGTTTTC
66 TTGATGTTTTC
*
4953129 AAATCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTT
1 AAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTT
4953194 TTGATGTTTTC
66 TTGATGTTTTC
*
4953205 AAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTT
1 AAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTT
4953270 TTGATGTTTTC
66 TTGATGTTTTC
4953281 AAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTT
1 AAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTT
4953346 TTGATGTTTTC
66 TTGATGTTTTC
*
4953357 AAAGCCTTTGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTT
1 AAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTT
4953422 TTGATGTTTTC
66 TTGATGTTTTC
4953433 AAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTT
1 AAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTT
*
4953498 TTGATATTTTC
66 TTGATGTTTTC
*
4953509 AAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAA
1 AAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAA
4953557 CATTTCCATC
Statistics
Matches: 1090, Mismatches: 22, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
76 1015 0.93
77 75 0.07
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.36
Consensus pattern (76 bp):
AAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTT
TTGATGTTTTC
Found at i:4953690 original size:3 final size:3
Alignment explanation
Indices: 4953682--4953793 Score: 152
Period size: 3 Copynumber: 36.7 Consensus size: 3
4953672 TCATTTAAAT
** *
4953682 TTA TTA TTA TTA TTA AAA TTA TTA TTA TTA TTA TTA GTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
4953730 TTA TTA TAA TTA TTA TTA TCA TTA TTTA TTA TTA TTA TTA TTA ATA
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA
4953776 TTA TATA TTA TTA TTA TT
1 TTA T-TA TTA TTA TTA TT
4953794 TAATAAATAA
Statistics
Matches: 95, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
3 89 0.94
4 6 0.06
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:4956789 original size:19 final size:19
Alignment explanation
Indices: 4956756--4956814 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 19
4956746 ATTTAACTAA
*
4956756 AAATAAAT-CAAATTAATGT
1 AAATAAATAAAAATTAAT-T
4956775 GAAAT-AAT-AAAATTAATT
1 -AAATAAATAAAAATTAATT
*
4956793 AAATAAATAAAAATTAAAT
1 AAATAAATAAAAATTAATT
4956812 AAA
1 AAA
4956815 AGAATTAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
17 4 0.11
18 4 0.11
19 23 0.66
20 4 0.11
ACGTcount: A:0.66, C:0.02, G:0.03, T:0.29
Consensus pattern (19 bp):
AAATAAATAAAAATTAATT
Found at i:4956824 original size:19 final size:19
Alignment explanation
Indices: 4956782--4956824 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
4956772 TGTGAAATAA
*
4956782 TAAAATTAATTAAATAAAT
1 TAAAATTAAATAAATAAAT
*
4956801 AAAAATTAAATAAA-AGAAT
1 TAAAATTAAATAAATA-AAT
4956820 TAAAA
1 TAAAA
4956825 GAAAATTTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 1 0.05
19 19 0.95
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (19 bp):
TAAAATTAAATAAATAAAT
Found at i:4957980 original size:22 final size:22
Alignment explanation
Indices: 4957955--4958271 Score: 123
Period size: 22 Copynumber: 14.2 Consensus size: 22
4957945 AAAACCAAAA
4957955 ATAAAATTAATAATAATATAAT
1 ATAAAATTAATAATAATATAAT
*
4957977 ATAATA-T-ATAA-AATA-AAT
1 ATAAAATTAATAATAATATAAT
*
4957995 A-ATAA-TAATAATAATATAAT
1 ATAAAATTAATAATAATATAAT
* * *
4958015 ATAATACTAGT-AT-ATA-ATAT
1 ATAAAATTAATAATAATATA-AT
4958035 ATAAAATGTAACTATATAATAT-AT
1 ATAAAAT-TAA-TA-ATAATATAAT
4958059 AATACTAAATATAATAATATATATAAT
1 -ATA--AAAT-TAATAATA-ATATAAT
*
4958086 ATATAATATAACT-ATAATAT-AT
1 ATAAAAT-TAA-TAATAATATAAT
*
4958108 ACTATAA-T-ATAATATATATATAT
1 A-TAAAATTAATAATA-ATATA-AT
* * *
4958131 ATAATATAATATAATATTATAAT
1 ATAAAATTA-ATAATAATATAAT
*
4958154 ATATATAA-T-ATAAT-ATAGAAT
1 ATA-A-AATTAATAATAATATAAT
* * *
4958175 ATAGAA-TACTATATTATATAAT
1 ATAAAATTAATA-ATAATATAAT
* *
4958197 ATATACTATAATATATAATATAAT
1 ATAAAAT-TAATA-ATAATATAAT
*
4958221 ATAATATATATATATATAATATAAT
1 ATAAAAT-TA-ATA-ATAATATAAT
*
4958246 ATAATATT-ATAATATATATAAT
1 ATAAAATTAATAATA-ATATAAT
4958268 ATAA
1 ATAA
4958272 TATAGAATAT
Statistics
Matches: 231, Mismatches: 29, Indels: 70
0.70 0.09 0.21
Matches are distributed among these distances:
17 3 0.01
18 8 0.03
19 13 0.06
20 24 0.10
21 25 0.11
22 44 0.19
23 17 0.07
24 41 0.18
25 38 0.16
26 9 0.04
27 9 0.04
ACGTcount: A:0.57, C:0.02, G:0.01, T:0.40
Consensus pattern (22 bp):
ATAAAATTAATAATAATATAAT
Found at i:4957987 original size:7 final size:7
Alignment explanation
Indices: 4957975--4958389 Score: 247
Period size: 7 Copynumber: 57.4 Consensus size: 7
4957965 TAATAATATA
4957975 ATATAAT
1 ATATAAT
*
4957982 ATATAAA
1 ATATAAT
4957989 ATA-AAT
1 ATATAAT
4957995 A-ATAAT
1 ATATAAT
4958001 A-ATAAT
1 ATATAAT
4958007 AATATAAT
1 -ATATAAT
4958015 ATAATACTAGT
1 AT-ATA--A-T
4958026 ATATAAT
1 ATATAAT
*
4958033 ATATAAA
1 ATATAAT
*
4958040 ATGTAACT
1 ATATAA-T
4958048 ATATAAT
1 ATATAAT
4958055 ATATAAT
1 ATATAAT
*
4958062 A-CTAA-
1 ATATAAT
4958067 ATATAAT
1 ATATAAT
4958074 A-AT-AT
1 ATATAAT
4958079 ATATAAT
1 ATATAAT
4958086 ATAT-A-
1 ATATAAT
4958091 ATATAA-
1 ATATAAT
*
4958097 CTATAAT
1 ATATAAT
4958104 ATATACTAT
1 ATATA--AT
4958113 AATATAAT
1 -ATATAAT
4958121 ATATATAT
1 ATATA-AT
4958129 ATATAATAT
1 ATAT-A-AT
4958138 AATATAAT
1 -ATATAAT
4958146 ATTATAAT
1 A-TATAAT
4958154 ATAT-AT
1 ATATAAT
4958160 AATATAAT
1 -ATATAAT
*
4958168 ATAGAAT
1 ATATAAT
*
4958175 ATAGAAT
1 ATATAAT
*
4958182 ACTATATT
1 A-TATAAT
4958190 ATATAAT
1 ATATAAT
4958197 ATAT-A-
1 ATATAAT
*
4958202 CTATAAT
1 ATATAAT
4958209 ATATAATAT
1 ATAT-A-AT
4958218 AATATAAT
1 -ATATAAT
4958226 ATATATAT
1 ATATA-AT
4958234 ATATAATAT
1 ATAT-A-AT
4958243 AATATAAT
1 -ATATAAT
4958251 ATTATAAT
1 A-TATAAT
4958259 ATAT-AT
1 ATATAAT
4958265 AATATAAT
1 -ATATAAT
*
4958273 ATAGAAT
1 ATATAAT
*
4958280 ATAGAAT
1 ATATAAT
*
4958287 ACTATATT
1 A-TATAAT
4958295 ATATAAT
1 ATATAAT
4958302 ATAT-A-
1 ATATAAT
*
4958307 CTATAAT
1 ATATAAT
4958314 ATATAAGAT
1 ATAT-A-AT
4958323 AATATAAT
1 -ATATAAT
4958331 ATAT-AT
1 ATATAAT
**
4958337 CATATTCT
1 -ATATAAT
4958345 ATATAAAT
1 ATAT-AAT
4958353 ACTATAAT
1 A-TATAAT
*
4958361 ATACAAT
1 ATATAAT
*
4958368 ATAAAAT
1 ATATAAT
4958375 A-AT-AT
1 ATATAAT
*
4958380 ATAGAAT
1 ATATAAT
4958387 ATA
1 ATA
4958390 GTGTATATTA
Statistics
Matches: 332, Mismatches: 29, Indels: 94
0.73 0.06 0.21
Matches are distributed among these distances:
5 18 0.05
6 41 0.12
7 151 0.45
8 73 0.22
9 21 0.06
10 25 0.08
11 3 0.01
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.40
Consensus pattern (7 bp):
ATATAAT
Found at i:4958019 original size:5 final size:5
Alignment explanation
Indices: 4957962--4958389 Score: 265
Period size: 5 Copynumber: 83.4 Consensus size: 5
4957952 AAAATAAAAT
4957962 TAATAA TAATA TAATA TAATA T-ATA -AA-A TAA-A TAATAA TAATAA
1 TAAT-A TAATA TAATA TAATA TAATA TAATA TAATA TAAT-A TAAT-A
* *
4958006 TAATA TAATA TAATA CTAGTATA TAATA T-ATA AAATG TAACTA T-ATA
1 TAATA TAATA TAATA -TA--ATA TAATA TAATA TAATA TAA-TA TAATA
4958053 -ATATA TAATA CTAAATA TAATAA TATATA TAATATA TAATA TAACTA TAATA
1 TA-ATA TAATA -T-AATA TAAT-A TA-ATA T-A-ATA TAATA TAA-TA TAATA
4958105 TATACTA TAATA TAATA T-ATA TATATA TAATA TAATA TAATA T--TA
1 TA-A-TA TAATA TAATA TAATA TA-ATA TAATA TAATA TAATA TAATA
* *
4958150 TAATA T-ATA TAATA TAATA TAGA-A T-ATA GAATA CT-ATA TTATA TAATA
1 TAATA TAATA TAATA TAATA TA-ATA TAATA TAATA -TAATA TAATA TAATA
4958198 TATACTA TAATATA TAATA TAATA TAATA T-ATA TATATA TAATA TAATA
1 TA-A-TA T-A-ATA TAATA TAATA TAATA TAATA TA-ATA TAATA TAATA
*
4958247 TAATA T--TA TAATA T-ATA TAATA TAATA TAGA-A T-ATA GAATA CT-ATA
1 TAATA TAATA TAATA TAATA TAATA TAATA TA-ATA TAATA TAATA -TAATA
* * *
4958293 TTATA TAATA TATACTA TAATATA TAAGA TAATA TAATA T-ATA TCATA
1 TAATA TAATA TA-A-TA T-A-ATA TAATA TAATA TAATA TAATA TAATA
* * * *
4958341 TTCTATA TAA-A TACTA TAATA TACAATA TAAAA TAATA T-ATA GAATA
1 -T-AATA TAATA TAATA TAATA T--AATA TAATA TAATA TAATA TAATA
4958388 TA
1 TA
4958390 GTGTATATTA
Statistics
Matches: 349, Mismatches: 20, Indels: 107
0.73 0.04 0.22
Matches are distributed among these distances:
3 9 0.03
4 45 0.13
5 195 0.56
6 53 0.15
7 38 0.11
8 9 0.03
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.39
Consensus pattern (5 bp):
TAATA
Found at i:4958064 original size:42 final size:41
Alignment explanation
Indices: 4957970--4958361 Score: 231
Period size: 43 Copynumber: 9.2 Consensus size: 41
4957960 ATTAATAATA
* *
4957970 ATATAATA-TAATATATAAAATAAATAATA-ATAATAATAATAT
1 ATATAATACT-ATATATAATATATATAATATATAAT-ATAA-AT
* * *
4958012 AATATAATACTA-GTAT-ATAATATATAAAATGTAACTATATAAT
1 -ATATAATACTATATATAAT-ATATATAATATATAA-TATA-AAT
*
4958055 ATATAATACTAAATATAATAATATATATAATATATAATATAACT
1 ATATAATACT--ATAT-ATAATATATATAATATATAATATAAAT
4958099 ATAATATATACTATAATATAATATATAT-ATATATAATATAATAT
1 AT-ATA-ATACTAT-ATATAATATATATAATATATAATATAA-AT
* * * *
4958143 AATATTATAATATATATAATATAATATAGAATATAGAATACTATATT
1 -ATATAATACTATATATAATAT-ATAT--AATATATAATA-TA-AAT
*
4958190 ATATAATA-TATACTATAATATATA-ATATAATATAATATATAT
1 ATATAATACTATA-TATAATATATATA-AT-ATATAATATAAAT
*
4958232 ATAT-ATAATATAATATAATAT-TATAATATAT-ATAATATAAT
1 ATATAATACTAT-ATATAATATATATAATATATAAT-ATA-AAT
* * *
4958273 ATAGAATA-TAGA-ATACTATATTATATAATATATACTAT-AAT
1 ATATAATACTATATATA--ATA-TATATAATATATAATATAAAT
* * *
4958314 ATATAAGA-TA-ATATAATATATATCATAT-TCTATATAAAT
1 ATATAATACTATATATAATATATATAATATAT-AATATAAAT
4958353 ACTATAATA
1 A-TATAATA
4958362 TACAATATAA
Statistics
Matches: 282, Mismatches: 28, Indels: 81
0.72 0.07 0.21
Matches are distributed among these distances:
37 1 0.00
38 12 0.04
39 12 0.04
40 15 0.05
41 32 0.11
42 52 0.18
43 57 0.20
44 32 0.11
45 19 0.07
46 44 0.16
47 5 0.02
48 1 0.00
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.40
Consensus pattern (41 bp):
ATATAATACTATATATAATATATATAATATATAATATAAAT
Found at i:4958072 original size:12 final size:12
Alignment explanation
Indices: 4957964--4958382 Score: 304
Period size: 12 Copynumber: 32.8 Consensus size: 12
4957954 AATAAAATTA
4957964 ATAATAATATAAT
1 ATAAT-ATATAAT
*
4957977 ATAATATATAAA
1 ATAATATATAAT
4957989 ATAA-ATAATAAT
1 ATAATAT-ATAAT
4958001 AATAATAATATAAT
1 -ATAAT-ATATAAT
4958015 ATAATACTAGT-AT
1 ATAATA-TA-TAAT
4958028 ATAATATATAAAAT
1 ATAATATAT--AAT
*
4958042 GTAACTATATAAT
1 ATAA-TATATAAT
4958055 AT-ATAATACTAAAT
1 ATAAT-ATA-T-AAT
4958069 ATAATA-ATATAT
1 ATAATATATA-AT
4958081 ATAATATATAAT
1 ATAATATATAAT
*
4958093 ATAA-CTATAAT
1 ATAATATATAAT
4958104 AT-ATACTATAAT
1 ATAATA-TATAAT
4958116 ATAATATAT-AT
1 ATAATATATAAT
4958127 ATATATAATATAAT
1 ATA-AT-ATATAAT
4958141 ATAATATTATAAT
1 ATAATA-TATAAT
4958154 ATATATAATATAAT
1 ATA-AT-ATATAAT
4958168 ATAGA-ATATAGA-
1 ATA-ATATATA-AT
* *
4958180 ATACTATATTAT
1 ATAATATATAAT
*
4958192 ATAATATATACT
1 ATAATATATAAT
4958204 ATAATATATAAT
1 ATAATATATAAT
4958216 ATAATATA-ATAT
1 ATAATATATA-AT
4958228 ATATATATATAAT
1 ATA-ATATATAAT
*
4958241 ATAATATAATATT
1 ATAATAT-ATAAT
4958254 ATAATATATATAAT
1 AT-A-ATATATAAT
*
4958268 ATAATATAGAAT
1 ATAATATATAAT
4958280 ATAGAATACTATATTAT
1 AT--AATA-TATA--AT
*
4958297 ATAATATATACT
1 ATAATATATAAT
*
4958309 ATAATATATAAG
1 ATAATATATAAT
4958321 ATAATATAATATAT
1 ATAATAT-ATA-AT
* *
4958335 ATCATAT-TCTAT
1 ATAATATAT-AAT
4958347 ATAAATACTATAAT
1 AT-AATA-TATAAT
*
4958361 ATACA-ATATAAA
1 ATA-ATATATAAT
4958373 ATAATATATA
1 ATAATATATA
4958383 GAATATAGTG
Statistics
Matches: 333, Mismatches: 26, Indels: 95
0.73 0.06 0.21
Matches are distributed among these distances:
10 1 0.00
11 21 0.06
12 145 0.44
13 77 0.23
14 63 0.19
15 22 0.07
17 4 0.01
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.40
Consensus pattern (12 bp):
ATAATATATAAT
Found at i:4958242 original size:105 final size:105
Alignment explanation
Indices: 4957993--4958341 Score: 500
Period size: 105 Copynumber: 3.3 Consensus size: 105
4957983 TATAAAATAA
*
4957993 ATAATA-ATAATAATAATATAATATAATACTAGTATATAATAT-ATA-AA-ATGTA-ACTATATA
1 ATAATATATAAT-ATAATATAATAT-ATA-TA-TATATAATATAATATAATAT-TATAATATATA
*
4958053 -ATATATAATACTA-AATATAATAATA-TATATAATATATAATATA-ACT
61 TA-ATATAATA-TAGAATAT-AGAATACTATAT--TATATAATATATACT
*
4958099 ATAATATATACTATAATATAATATATATATATATAATATAATATAATATTATAATATATATAATA
1 ATAATATATAATATAATATAATATATATATATATAATATAATATAATATTATAATATATATAATA
4958164 TAATATAGAATATAGAATACTATATTATATAATATATACT
66 TAATATAGAATATAGAATACTATATTATATAATATATACT
4958204 ATAATATATAATATAATATAATATATATATATATAATATAATATAATATTATAATATATATAATA
1 ATAATATATAATATAATATAATATATATATATATAATATAATATAATATTATAATATATATAATA
4958269 TAATATAGAATATAGAATACTATATTATATAATATATACT
66 TAATATAGAATATAGAATACTATATTATATAATATATACT
*
4958309 ATAATATATAAGATAATATAATATATATCATAT
1 ATAATATATAATATAATATAATATATAT-ATAT
4958342 TCTATATAAA
Statistics
Matches: 228, Mismatches: 5, Indels: 20
0.90 0.02 0.08
Matches are distributed among these distances:
103 10 0.04
104 16 0.07
105 148 0.65
106 49 0.21
107 5 0.02
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.40
Consensus pattern (105 bp):
ATAATATATAATATAATATAATATATATATATATAATATAATATAATATTATAATATATATAATA
TAATATAGAATATAGAATACTATATTATATAATATATACT
Found at i:4958370 original size:105 final size:105
Alignment explanation
Indices: 4957999--4958390 Score: 465
Period size: 105 Copynumber: 3.8 Consensus size: 105
4957989 ATAAATAATA
* * *
4957999 ATAATA-ATAATATAATATAATACTAGTATATAATATATAAAATGTAACTATATAATATATA-AT
1 ATAATATATAATATAATATAATA-TA-TATAT-ATATATATAATATAA-TATATAATATAAATAT
* * *
4958062 ACTA-AATAT--AATA-A-TATA-TATAATATATAATATA-ACT
62 AATATAATATAGAATATAGAATACTATATTATATAATATATACT
*
4958099 ATAATATATACTATAATATAATATATATATATATAATATAATATAATATTATAATAT--ATATAA
1 ATAATATATAATATAATATAATATATATATATAT-ATATAATATAATA-TATAATATAAATATAA
4958162 TATAATATAGAATATAGAATACTATATTATATAATATATACT
64 TATAATATAGAATATAGAATACTATATTATATAATATATACT
4958204 ATAATATATAATATAATATAATATATATATATATAATATAATATAATATTATAATAT--ATATAA
1 ATAATATATAATATAATATAATATATATATATAT-ATATAATATAATA-TATAATATAAATATAA
4958267 TATAATATAGAATATAGAATACTATATTATATAATATATACT
64 TATAATATAGAATATAGAATACTATATTATATAATATATACT
* *
4958309 ATAATATATAAGATAATATAATATATATCATAT-TCTAT-ATA-AATACTATAATATACAATATA
1 ATAATATATAATATAATATAATATATAT-ATATATATATAATATAATA-TATAATATA-AATATA
*
4958371 AAATAATATATAGAATATAG
63 ATAT-A-ATATAGAATATAG
4958391 TGTATATTAT
Statistics
Matches: 264, Mismatches: 11, Indels: 27
0.87 0.04 0.09
Matches are distributed among these distances:
97 1 0.00
98 11 0.04
99 27 0.10
100 8 0.03
101 19 0.07
102 13 0.05
103 6 0.02
104 18 0.07
105 143 0.54
106 5 0.02
107 13 0.05
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.40
Consensus pattern (105 bp):
ATAATATATAATATAATATAATATATATATATATATATAATATAATATATAATATAAATATAATA
TAATATAGAATATAGAATACTATATTATATAATATATACT
Found at i:4958749 original size:38 final size:38
Alignment explanation
Indices: 4958698--4958777 Score: 160
Period size: 38 Copynumber: 2.1 Consensus size: 38
4958688 GGTTGACCCA
4958698 TTCGTCATGAATTCGAGTCAATATCGAACATGATATCC
1 TTCGTCATGAATTCGAGTCAATATCGAACATGATATCC
4958736 TTCGTCATGAATTCGAGTCAATATCGAACATGATATCC
1 TTCGTCATGAATTCGAGTCAATATCGAACATGATATCC
4958774 TTCG
1 TTCG
4958778 CTGTGAAGTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 42 1.00
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.33
Consensus pattern (38 bp):
TTCGTCATGAATTCGAGTCAATATCGAACATGATATCC
Found at i:4964994 original size:42 final size:42
Alignment explanation
Indices: 4964935--4965032 Score: 135
Period size: 42 Copynumber: 2.3 Consensus size: 42
4964925 GGTTGTACGC
4964935 GGTCCTTCGAGG-CATATATGTGATCCTTTGGAACATATATGA
1 GGTCCTTCG-GGACATATATGTGATCCTTTGGAACATATATGA
* * * *
4964977 GGTCCTTCGGGATATATATTTGGTCCTTTGGAACATATATGT
1 GGTCCTTCGGGACATATATGTGATCCTTTGGAACATATATGA
*
4965019 GGTCCTTAGGGACA
1 GGTCCTTCGGGACA
4965033 ATTCTACGTG
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
41 2 0.04
42 47 0.96
ACGTcount: A:0.23, C:0.16, G:0.26, T:0.35
Consensus pattern (42 bp):
GGTCCTTCGGGACATATATGTGATCCTTTGGAACATATATGA
Found at i:4965066 original size:21 final size:21
Alignment explanation
Indices: 4964935--4965071 Score: 105
Period size: 21 Copynumber: 6.4 Consensus size: 21
4964925 GGTTGTACGC
*
4964935 GGTCCTTCGAGG-CATATATGT
1 GGTCCTTCG-GGATATATATGT
* * * * *
4964956 GATCCTTTGGAACATATATGA
1 GGTCCTTCGGGATATATATGT
*
4964977 GGTCCTTCGGGATATATATTT
1 GGTCCTTCGGGATATATATGT
* * *
4964998 GGTCCTTTGGAACATATATGT
1 GGTCCTTCGGGATATATATGT
* * * *
4965019 GGTCCTTAGGGACAATTCTACGT
1 GGTCCTTCGGGA-TA-TATATGT
*
4965042 GGTCATTCGGGATATATATGT
1 GGTCCTTCGGGATATATATGT
4965063 GGTCCTTCG
1 GGTCCTTCG
4965072 AAATAATTTT
Statistics
Matches: 88, Mismatches: 25, Indels: 6
0.74 0.21 0.05
Matches are distributed among these distances:
20 1 0.01
21 70 0.80
22 2 0.02
23 15 0.17
ACGTcount: A:0.22, C:0.17, G:0.26, T:0.36
Consensus pattern (21 bp):
GGTCCTTCGGGATATATATGT
Found at i:4966615 original size:14 final size:15
Alignment explanation
Indices: 4966591--4966619 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
4966581 TATCCCAAAA
4966591 AATATTTATTATTAT
1 AATATTTATTATTAT
4966606 AATA-TTATTATTAT
1 AATATTTATTATTAT
4966620 TACAAGAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
AATATTTATTATTAT
Found at i:4967860 original size:14 final size:15
Alignment explanation
Indices: 4967836--4967864 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
4967826 TGTCCCAAAA
4967836 AATATTTATTATTAT
1 AATATTTATTATTAT
4967851 AATA-TTATTATTAT
1 AATATTTATTATTAT
4967865 TACAAAAAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
AATATTTATTATTAT
Found at i:4968248 original size:18 final size:18
Alignment explanation
Indices: 4968227--4968278 Score: 86
Period size: 18 Copynumber: 2.9 Consensus size: 18
4968217 TCTAAGAATA
* *
4968227 AAGACTACTCTAGCAATG
1 AAGACTGCTCTTGCAATG
4968245 AAGACTGCTCTTGCAATG
1 AAGACTGCTCTTGCAATG
4968263 AAGACTGCTCTTGCAA
1 AAGACTGCTCTTGCAA
4968279 CTATTCCTGA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (18 bp):
AAGACTGCTCTTGCAATG
Found at i:4969161 original size:44 final size:44
Alignment explanation
Indices: 4969070--4969170 Score: 118
Period size: 44 Copynumber: 2.3 Consensus size: 44
4969060 TCAATCTCGG
* *
4969070 CTCGATT-CATCACATAAGGAGTTGGATCAGCACCAGCACTTTG
1 CTCGATTCCATCACATAAGAAGTTGGATCAGCACCAGCACTTTA
* * *
4969113 CTCGATTCCATCATATAAGAAGTTGGATCAGTATC-GC-CATTTCA
1 CTCGATTCCATCACATAAGAAGTTGGATCAGCACCAGCAC-TTT-A
4969157 CTCGATTCCATCAC
1 CTCGATTCCATCAC
4969171 TGAATGAGAA
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
42 1 0.02
43 12 0.24
44 36 0.73
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.29
Consensus pattern (44 bp):
CTCGATTCCATCACATAAGAAGTTGGATCAGCACCAGCACTTTA
Found at i:4969427 original size:198 final size:198
Alignment explanation
Indices: 4969190--4969546 Score: 556
Period size: 198 Copynumber: 1.8 Consensus size: 198
4969180 AGGATCAAAT
* * *
4969190 TTTCTAATGGAAGGGTTCGTAATGAGAAGAACTCATCCGATGAGGGAGAAGAATTTCATAATGAG
1 TTTCCAATGGAAAGGTTCGTAATAAGAAGAACTCATCCGATGAGGGAGAAGAATTTCATAATGAG
* * *
4969255 AATAACTT-TCTCAACCATTGCTCGATTCCATCAAAGAATGAGGTGGATCAACA-TTTCTAATGA
66 AAAAACTTGT-TCAACCATTGCTCGATTCCATCAAAGAAAGAGATGGATCAACATTTTC-AATGA
*
4969318 AGAAGTTCCTAATAAGAAGAACTTGTTCAACATTCCACTCGATTTCATCACAAATGGAGGTGGAT
129 AGAAGTTCATAATAAGAAGAACTTGTTCAACATTCCACTCGATTTCATCACAAATGGAGGTGGAT
4969383 CATCA
194 CATCA
* *
4969388 TTTCCAATGGAAAGGTTCGTACTAAGAAGAACTCATCCGATTAGGGAGAAGAATTTCATAATGAG
1 TTTCCAATGGAAAGGTTCGTAATAAGAAGAACTCATCCGATGAGGGAGAAGAATTTCATAATGAG
* * *
4969453 AAAAACTTGTTCAACCTTTGGTCGATTCCATCACAGAAAGAGATGGATCAACATTTTCAATGAAG
66 AAAAACTTGTTCAACCATTGCTCGATTCCATCAAAGAAAGAGATGGATCAACATTTTCAATGAAG
* *
4969518 AAGTTTATAATGAGAAGAACTTGTTCAAC
131 AAGTTCATAATAAGAAGAACTTGTTCAAC
4969547 CTTAGCTCGA
Statistics
Matches: 143, Mismatches: 14, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
198 138 0.97
199 5 0.03
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.28
Consensus pattern (198 bp):
TTTCCAATGGAAAGGTTCGTAATAAGAAGAACTCATCCGATGAGGGAGAAGAATTTCATAATGAG
AAAAACTTGTTCAACCATTGCTCGATTCCATCAAAGAAAGAGATGGATCAACATTTTCAATGAAG
AAGTTCATAATAAGAAGAACTTGTTCAACATTCCACTCGATTTCATCACAAATGGAGGTGGATCA
TCA
Found at i:4969584 original size:79 final size:79
Alignment explanation
Indices: 4969435--4969584 Score: 196
Period size: 79 Copynumber: 1.9 Consensus size: 79
4969425 CGATTAGGGA
* * *
4969435 GAAGAATTTCATAATGAGAAAAACTTGTTCAACCTTTGGTCGATTCCATCACAGAAAGAGATGGA
1 GAAGAATTTCATAATGAGAAAAACTTGTTCAACCTTAGCTCGATTCCATCACAGAAAGAGATAGA
*
4969500 TCAACATTTTCAAT
66 ACAACATTTTCAAT
* * * *
4969514 GAAGAAGTTT-ATAATGAGAAGAACTTGTTCAACCTTAGCTCGATTCTATCACATAAGGA-ATTA
1 GAAGAA-TTTCATAATGAGAAAAACTTGTTCAACCTTAGCTCGATTCCATCACAGAAAGAGA-TA
4969577 GAACAACA
64 GAACAACA
4969585 CCACCTTGGC
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
78 1 0.02
79 57 0.93
80 3 0.05
ACGTcount: A:0.39, C:0.16, G:0.17, T:0.28
Consensus pattern (79 bp):
GAAGAATTTCATAATGAGAAAAACTTGTTCAACCTTAGCTCGATTCCATCACAGAAAGAGATAGA
ACAACATTTTCAAT
Found at i:4969633 original size:40 final size:40
Alignment explanation
Indices: 4969561--4969657 Score: 95
Period size: 40 Copynumber: 2.4 Consensus size: 40
4969551 GCTCGATTCT
* * *
4969561 ATCACATAAGGAATTAGAACAACACCACCTTGGCTCATCC
1 ATCACATAAGGAGTTGGAACAACACCACCTTGGCTCAACC
* ** * *
4969601 ATCACATAAGGAGTTGGATCAACATTATCTTGGGTCAACC
1 ATCACATAAGGAGTTGGAACAACACCACCTTGGCTCAACC
** *
4969641 ATCGTAAAAGGAGTTGG
1 ATCACATAAGGAGTTGG
4969658 GTTAGCATTT
Statistics
Matches: 46, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
40 46 1.00
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.24
Consensus pattern (40 bp):
ATCACATAAGGAGTTGGAACAACACCACCTTGGCTCAACC
Found at i:4977924 original size:443 final size:443
Alignment explanation
Indices: 4977098--4977987 Score: 1708
Period size: 443 Copynumber: 2.0 Consensus size: 443
4977088 GGAATTACCA
*
4977098 ATTTGACTGAGCTGAACTTGTAGAGACTTCATATTAGATCCTAGTACCCTGAAGAAAAATAGTTT
1 ATTTGACCGAGCTGAACTTGTAGAGACTTCATATTAGATCCTAGTACCCTGAAGAAAAATAGTTT
*
4977163 TCAGATAATAATTAGTGGTAGAAGAAAATCAGAATTCAGACATATTTATTTATCAATAACAACAG
66 TCAGATAATAATTAGTGGTAGAAGAAAATCAGAATTCAGACATATTTATTTATAAATAACAACAG
4977228 TAACCATAGAACAGGAATCAGACAATCATGCTTAAACTTTATTAAATCAGATATCAGACTTTAAA
131 TAACCATAGAACAGGAATCAGACAATCATGCTTAAACTTTATTAAATCAGATATCAGACTTTAAA
*
4977293 TCATATAAATCATACGAAATCAAGTCAAACAGATAGTCACATTGCAAAGACGATAAACCAATCAT
196 TCATATAAATCATACGAAATCAAGTCAAACAGATAGTCACATTGCAAAGACGATAAAACAATCAT
4977358 GTACATATTATTTTTCAAACATATAATTAAAACAAGTATATGACACACAAGGAACACACCTCGCA
261 GTACATATTATTTTTCAAACATATAATTAAAACAAGTATATGACACACAAGGAACACACCTCGCA
*
4977423 AAAAGTATCAGTCTGGGATATCTTATCGAACACTGACTTTACTAGGCTCTTCGACTGAACGAGAA
326 AAAAGTATCAGTCTGGGAGATCTTATCGAACACTGACTTTACTAGGCTCTTCGACTGAACGAGAA
4977488 CCTAAGTTATTACAGAAAAAAGTTATAATCGGAGTAAATATACTAAACTGAAT
391 CCTAAGTTATTACAGAAAAAAGTTATAATCGGAGTAAATATACTAAACTGAAT
4977541 ATTTGACCGAGCTGAACTTGTAGAGACTTCATATTAGATCCTAGTACCCTGAAGAAAAATAGTTT
1 ATTTGACCGAGCTGAACTTGTAGAGACTTCATATTAGATCCTAGTACCCTGAAGAAAAATAGTTT
*
4977606 TCAGATAATAATTAGTGGTAGAAGGAAATCAGAATTCAGACATATTTATTTATAAATAACAACAG
66 TCAGATAATAATTAGTGGTAGAAGAAAATCAGAATTCAGACATATTTATTTATAAATAACAACAG
* *
4977671 TAACCATAGAACAGGAATCATACAATCATGCTTAAACTTTATTAAATCAGATATCATACTTTAAA
131 TAACCATAGAACAGGAATCAGACAATCATGCTTAAACTTTATTAAATCAGATATCAGACTTTAAA
4977736 TCATATAAATCATACGAAATCAAGTCAAACAGATAGTCACATTGCAAAGACGATAAAACAATCAT
196 TCATATAAATCATACGAAATCAAGTCAAACAGATAGTCACATTGCAAAGACGATAAAACAATCAT
*
4977801 GTACATATTATTTTTCAAGCATATAATTAAAACAAGTATATGACACACAAGGAACACACCTCGCA
261 GTACATATTATTTTTCAAACATATAATTAAAACAAGTATATGACACACAAGGAACACACCTCGCA
4977866 AAAAGTATCAGTCTGGGAGATCTTATCGAACACTGACTTTACTAGGCTCTTCGACTGAACGAGAA
326 AAAAGTATCAGTCTGGGAGATCTTATCGAACACTGACTTTACTAGGCTCTTCGACTGAACGAGAA
4977931 CCTAAGTTATTACAGAAAAAAGTTATAATCGGAGTAAATATACTAAACTGAAT
391 CCTAAGTTATTACAGAAAAAAGTTATAATCGGAGTAAATATACTAAACTGAAT
4977984 ATTT
1 ATTT
4977988 AACAGGGTTA
Statistics
Matches: 439, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
443 439 1.00
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (443 bp):
ATTTGACCGAGCTGAACTTGTAGAGACTTCATATTAGATCCTAGTACCCTGAAGAAAAATAGTTT
TCAGATAATAATTAGTGGTAGAAGAAAATCAGAATTCAGACATATTTATTTATAAATAACAACAG
TAACCATAGAACAGGAATCAGACAATCATGCTTAAACTTTATTAAATCAGATATCAGACTTTAAA
TCATATAAATCATACGAAATCAAGTCAAACAGATAGTCACATTGCAAAGACGATAAAACAATCAT
GTACATATTATTTTTCAAACATATAATTAAAACAAGTATATGACACACAAGGAACACACCTCGCA
AAAAGTATCAGTCTGGGAGATCTTATCGAACACTGACTTTACTAGGCTCTTCGACTGAACGAGAA
CCTAAGTTATTACAGAAAAAAGTTATAATCGGAGTAAATATACTAAACTGAAT
Found at i:4978333 original size:20 final size:20
Alignment explanation
Indices: 4978296--4978335 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
4978286 TGACTTTTTG
*
4978296 GGTCAAAGTCAACGGTCAAT
1 GGTCAAAGTCAACAGTCAAT
* *
4978316 GGTCAAATTCATCAGTCAAT
1 GGTCAAAGTCAACAGTCAAT
4978336 TATGGTCAAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (20 bp):
GGTCAAAGTCAACAGTCAAT
Found at i:4980619 original size:30 final size:30
Alignment explanation
Indices: 4980585--4980647 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
4980575 GTTATATGAG
*
4980585 CTATGTGATAAAGGTATGGAAATGATATGT
1 CTATGTGATAAAGGTATGGAAATAATATGT
4980615 CTATGTGATAAAGGTATGGAAATAATATGT
1 CTATGTGATAAAGGTATGGAAATAATATGT
4980645 CTA
1 CTA
4980648 CGCGATATAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.38, C:0.05, G:0.24, T:0.33
Consensus pattern (30 bp):
CTATGTGATAAAGGTATGGAAATAATATGT
Found at i:4981024 original size:9 final size:9
Alignment explanation
Indices: 4981010--4981049 Score: 55
Period size: 9 Copynumber: 4.4 Consensus size: 9
4981000 TATCATGGGC
4981010 TATTGAACT
1 TATTGAACT
*
4981019 TATTGAACC
1 TATTGAACT
4981028 TATTGAA-T
1 TATTGAACT
4981036 CTATTGAACT
1 -TATTGAACT
4981046 TATT
1 TATT
4981050 ATAGGAATTC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
9 26 0.96
10 1 0.04
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.45
Consensus pattern (9 bp):
TATTGAACT
Found at i:4981558 original size:22 final size:22
Alignment explanation
Indices: 4981530--4981579 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
4981520 ACTGTAGCAC
4981530 TGTTCATGATAATGTTCATTAT
1 TGTTCATGATAATGTTCATTAT
* *
4981552 TGTTCATGGTACTGTTCATTAT
1 TGTTCATGATAATGTTCATTAT
4981574 TGTTCA
1 TGTTCA
4981580 CGGTACTGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.22, C:0.12, G:0.16, T:0.50
Consensus pattern (22 bp):
TGTTCATGATAATGTTCATTAT
Found at i:4981584 original size:22 final size:22
Alignment explanation
Indices: 4981542--4981592 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
4981532 TTCATGATAA
*
4981542 TGTTCATTATTGTTCATGGTAC
1 TGTTCATTATTGTTCACGGTAC
4981564 TGTTCATTATTGTTCACGGTAC
1 TGTTCATTATTGTTCACGGTAC
4981586 TGTTCAT
1 TGTTCAT
4981593 ACCGTATAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.18, C:0.16, G:0.18, T:0.49
Consensus pattern (22 bp):
TGTTCATTATTGTTCACGGTAC
Found at i:4986241 original size:78 final size:79
Alignment explanation
Indices: 4986156--4986312 Score: 280
Period size: 79 Copynumber: 2.0 Consensus size: 79
4986146 AAATTTAAAT
*
4986156 TATAGTGAATGAAATAAAAGA-TAAAATTCAATTATTAAATTTATAGTTTTCTCTCTCTATATAT
1 TATAGTGAATGAAATAAAAGAGTAAAATTCAATTATTAAATTTATAGTTTACTCTCTCTATATAT
4986220 ATTATAAAAAATAC
66 ATTATAAAAAATAC
* *
4986234 TATAGTGAGTGAAATAAAAGAGTAAAATTCAATTATTAAATTTATAGTTTACTTTCTCTATATAT
1 TATAGTGAATGAAATAAAAGAGTAAAATTCAATTATTAAATTTATAGTTTACTCTCTCTATATAT
4986299 ATTATAAAAAATAC
66 ATTATAAAAAATAC
4986313 AATATAAGAT
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
78 20 0.27
79 55 0.73
ACGTcount: A:0.46, C:0.07, G:0.08, T:0.39
Consensus pattern (79 bp):
TATAGTGAATGAAATAAAAGAGTAAAATTCAATTATTAAATTTATAGTTTACTCTCTCTATATAT
ATTATAAAAAATAC
Found at i:4986357 original size:18 final size:19
Alignment explanation
Indices: 4986328--4986369 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 19
4986318 AAGATTTTTA
*
4986328 TGAACTTAAAGTTCAGGTT
1 TGAACTTAAAGTTCAAGTT
4986347 TGAAC-TAAAGTTCAAGTT
1 TGAACTTAAAGTTCAAGTT
4986365 TGAAC
1 TGAAC
4986370 CGTACTTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 17 0.77
19 5 0.23
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.33
Consensus pattern (19 bp):
TGAACTTAAAGTTCAAGTT
Found at i:4986469 original size:25 final size:26
Alignment explanation
Indices: 4986441--4986492 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
4986431 CAAGCTTGAA
4986441 TCGAACTTCAA-TTTTTTATTTCGAG
1 TCGAACTTCAATTTTTTTATTTCGAG
*
4986466 TCGAGCTTCAATTTTTTTATTTCGAG
1 TCGAACTTCAATTTTTTTATTTCGAG
4986492 T
1 T
4986493 TTAAATCAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
25 10 0.40
26 15 0.60
ACGTcount: A:0.21, C:0.15, G:0.13, T:0.50
Consensus pattern (26 bp):
TCGAACTTCAATTTTTTTATTTCGAG
Found at i:4994591 original size:17 final size:17
Alignment explanation
Indices: 4994569--4994602 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
4994559 ATAAAGTTTG
4994569 AATAT-ATTTATTTTGTT
1 AATATAATTT-TTTTGTT
4994586 AATATAATTTTTTTGTT
1 AATATAATTTTTTTGTT
4994603 TATGACAGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (17 bp):
AATATAATTTTTTTGTT
Found at i:4994932 original size:23 final size:22
Alignment explanation
Indices: 4994905--4994953 Score: 89
Period size: 23 Copynumber: 2.2 Consensus size: 22
4994895 TAGGGATTAA
4994905 GGTTTATGGTTTAGAGGTTATAG
1 GGTTTATGGTTTAGAGG-TATAG
4994928 GGTTTATGGTTTAGAGGTATAG
1 GGTTTATGGTTTAGAGGTATAG
4994950 GGTT
1 GGTT
4994954 ATCAATTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 9 0.35
23 17 0.65
ACGTcount: A:0.20, C:0.00, G:0.37, T:0.43
Consensus pattern (22 bp):
GGTTTATGGTTTAGAGGTATAG
Found at i:4994993 original size:14 final size:14
Alignment explanation
Indices: 4994971--4995044 Score: 51
Period size: 14 Copynumber: 5.4 Consensus size: 14
4994961 AAACAACTTA
* *
4994971 AAACCATAAAGCAT
1 AAACTATAAACCAT
*
4994985 AAACTATAAACCCT
1 AAACTATAAACCAT
* *
4994999 AAACTCTAAACCCT
1 AAACTATAAACCAT
**
4995013 AAACCCTAAACCAT
1 AAACTATAAACCAT
* * *
4995027 TAA-TCTAAACCCT
1 AAACTATAAACCAT
4995040 AAACT
1 AAACT
4995045 CTAATTTAAA
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
13 10 0.20
14 39 0.80
ACGTcount: A:0.49, C:0.30, G:0.01, T:0.20
Consensus pattern (14 bp):
AAACTATAAACCAT
Found at i:4995014 original size:7 final size:7
Alignment explanation
Indices: 4994991--4995048 Score: 64
Period size: 7 Copynumber: 8.4 Consensus size: 7
4994981 GCATAAACTA
4994991 TAAACCC
1 TAAACCC
*
4994998 TAAACTC
1 TAAACCC
4995005 TAAACCC
1 TAAACCC
4995012 TAAACCC
1 TAAACCC
*
4995019 TAAACCA
1 TAAACCC
* *
4995026 TTAA-TC
1 TAAACCC
4995032 TAAACCC
1 TAAACCC
*
4995039 TAAACTC
1 TAAACCC
4995046 TAA
1 TAA
4995049 TTTAAAATCC
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
6 3 0.07
7 38 0.93
ACGTcount: A:0.45, C:0.33, G:0.00, T:0.22
Consensus pattern (7 bp):
TAAACCC
Found at i:5001477 original size:13 final size:14
Alignment explanation
Indices: 5001454--5001483 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
5001444 TTCCCATTAC
5001454 AGACGTGCATATGA
1 AGACGTGCATATGA
5001468 AGAC-TGCATATGA
1 AGACGTGCATATGA
5001481 AGA
1 AGA
5001484 TTGTCCAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.40, C:0.13, G:0.27, T:0.20
Consensus pattern (14 bp):
AGACGTGCATATGA
Found at i:5002896 original size:34 final size:34
Alignment explanation
Indices: 5002853--5002923 Score: 142
Period size: 34 Copynumber: 2.1 Consensus size: 34
5002843 ACATACTTTG
5002853 TACCCTGAATTTATTCCTTGCTTCATATGTATAT
1 TACCCTGAATTTATTCCTTGCTTCATATGTATAT
5002887 TACCCTGAATTTATTCCTTGCTTCATATGTATAT
1 TACCCTGAATTTATTCCTTGCTTCATATGTATAT
5002921 TAC
1 TAC
5002924 TTCTACTTCG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.24, C:0.21, G:0.08, T:0.46
Consensus pattern (34 bp):
TACCCTGAATTTATTCCTTGCTTCATATGTATAT
Found at i:5005716 original size:8 final size:8
Alignment explanation
Indices: 5005703--5005781 Score: 51
Period size: 7 Copynumber: 11.6 Consensus size: 8
5005693 GTTAGGGATT
5005703 TATATATA
1 TATATATA
5005711 TATATATA
1 TATATATA
5005719 TA-ATA-A
1 TATATATA
5005725 TAT-TATA
1 TATATATA
5005732 T-TAT-TA
1 TATATATA
*
5005738 TATATTTA
1 TATATATA
5005746 -AT-TAT-
1 TATATATA
5005751 TA-ATA-A
1 TATATATA
5005757 TATAT-TA
1 TATATATA
5005764 T-TATATA
1 TATATATA
5005771 T-TAT-TA
1 TATATATA
5005777 TATAT
1 TATAT
5005782 TTAATTATTA
Statistics
Matches: 58, Mismatches: 1, Indels: 25
0.69 0.01 0.30
Matches are distributed among these distances:
6 22 0.38
7 24 0.41
8 12 0.21
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (8 bp):
TATATATA
Found at i:5005718 original size:10 final size:10
Alignment explanation
Indices: 5005703--5005781 Score: 51
Period size: 8 Copynumber: 9.3 Consensus size: 10
5005693 GTTAGGGATT
5005703 TATATATATA
1 TATATATATA
5005713 TATATATA-A
1 TATATATATA
5005722 TA-ATAT-TA
1 TATATATATA
5005730 TAT-TAT-TA
1 TATATATATA
*
5005738 TATATTTA-A
1 TATATATATA
5005747 T-TAT-TA-A
1 TATATATATA
5005754 TA-ATATAT-
1 TATATATATA
5005762 TAT-TATATA
1 TATATATATA
5005771 T-TAT-TATA
1 TATATATATA
5005779 TAT
1 TAT
5005782 TTAATTATTA
Statistics
Matches: 57, Mismatches: 1, Indels: 23
0.70 0.01 0.28
Matches are distributed among these distances:
7 6 0.11
8 33 0.58
9 10 0.18
10 8 0.14
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (10 bp):
TATATATATA
Found at i:5005782 original size:10 final size:10
Alignment explanation
Indices: 5005702--5005782 Score: 76
Period size: 10 Copynumber: 7.9 Consensus size: 10
5005692 GGTTAGGGAT
5005702 TTATATATATA
1 TTATATAT-TA
*
5005713 TATATATAATA
1 T-TATATATTA
*
5005724 ATATTATATTA
1 TTA-TATATTA
5005735 TTATATATT-
1 TTATATATTA
*
5005744 TAAT-TATTAA
1 TTATATATT-A
*
5005754 TAATATATTA
1 TTATATATTA
5005764 TTATATATTA
1 TTATATATTA
5005774 TTATATATT
1 TTATATATT
5005783 TAATTATTAA
Statistics
Matches: 59, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
8 4 0.07
9 3 0.05
10 31 0.53
11 15 0.25
12 6 0.10
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (10 bp):
TTATATATTA
Found at i:5007308 original size:2 final size:2
Alignment explanation
Indices: 5007288--5007543 Score: 131
Period size: 2 Copynumber: 138.5 Consensus size: 2
5007278 TAAATAAATA
*
5007288 AT AT AA AT AT A- AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
5007328 AT A- AT AT A- AC AT AT AT ACT AT A- AT AA AT AT AT AT -T AT GAG
1 AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT -AT
*
5007368 AT A- AT AT A- AT GT AT A- AT ACT AT A- AT A- AT A- AT AT AT A-
1 AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT
5007404 AT AT A- AT AT A- AT AT AT A- AT AT -T AT ACT AT A- AT AT AT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT
* *
5007441 AT A- AT AT -T CT AT AT A- AT AT AT ACT AT AT AT A- AC AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT
* *
5007480 -T AT A- AT A- AT AC ACC AT AT AT -T AT AT A- AT AT AT -T AT AT
1 AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT
*
5007517 ACT ACT AT AA AT AT AT AT -T AT ACT AT A
1 A-T A-T AT AT AT AT AT AT AT AT A-T AT A
5007544 ACATAAACGG
Statistics
Matches: 201, Mismatches: 15, Indels: 76
0.69 0.05 0.26
Matches are distributed among these distances:
1 30 0.15
2 153 0.76
3 18 0.09
ACGTcount: A:0.52, C:0.05, G:0.01, T:0.42
Consensus pattern (2 bp):
AT
Found at i:5007317 original size:20 final size:19
Alignment explanation
Indices: 5007288--5007544 Score: 166
Period size: 19 Copynumber: 13.4 Consensus size: 19
5007278 TAAATAAATA
5007288 ATATA-AATATA-AT-TAT
1 ATATATAATATATATATAT
5007304 ATATATATATATATATATAT
1 ATATATA-ATATATATATAT
*
5007324 ATATATAATATA-ACATAT
1 ATATATAATATATATATAT
*
5007342 ATACTATAATAAATATATATT
1 ATA-TATAATATATATATA-T
* *
5007363 ATGAGATAATATA-ATGTAT
1 AT-ATATAATATATATATAT
5007382 AATACTATAATA-ATA-ATAT
1 -ATA-TATAATATATATATAT
5007401 ATAATATAATATA-ATATAT
1 AT-ATATAATATATATATAT
*
5007420 A-ATATTATACTATA-ATAT
1 ATATATAATA-TATATATAT
*
5007438 ATA-ATAATAT-TCTATAT
1 ATATATAATATATATATAT
* *
5007455 AATATATACTATATATAACAT
1 -ATATATAATATATAT-ATAT
* *
5007476 ATATTATAATAATACACCATAT
1 ATA-TATAAT-ATATA-TATAT
5007498 ATTATATAATATAT-TATAT
1 A-TATATAATATATATATAT
5007517 ACTACTATAA-ATATATAT-T
1 A-TA-TATAATATATATATAT
5007536 ATACTATAA
1 ATA-TATAA
5007545 CATAAACGGG
Statistics
Matches: 192, Mismatches: 21, Indels: 54
0.72 0.08 0.20
Matches are distributed among these distances:
16 6 0.03
17 13 0.07
18 46 0.24
19 49 0.26
20 40 0.21
21 21 0.11
22 15 0.08
23 2 0.01
ACGTcount: A:0.52, C:0.05, G:0.01, T:0.42
Consensus pattern (19 bp):
ATATATAATATATATATAT
Found at i:5016440 original size:25 final size:26
Alignment explanation
Indices: 5016389--5016440 Score: 72
Period size: 25 Copynumber: 2.0 Consensus size: 26
5016379 GTTGATTTTG
5016389 AATGTCAAGAAATGAAAATGCAAGAA
1 AATGTCAAGAAATGAAAATGCAAGAA
*
5016415 AATGT-AA-AAATGAAATATGCATGAA
1 AATGTCAAGAAATGAAA-ATGCAAGAA
5016440 A
1 A
5016441 CTTTTGAGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 8 0.33
25 11 0.46
26 5 0.21
ACGTcount: A:0.58, C:0.06, G:0.17, T:0.19
Consensus pattern (26 bp):
AATGTCAAGAAATGAAAATGCAAGAA
Found at i:5016488 original size:19 final size:19
Alignment explanation
Indices: 5016464--5016503 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
5016454 AATCCAAAAC
5016464 GTGTTTGTTATTATAAATA
1 GTGTTTGTTATTATAAATA
*
5016483 GTGTTTGTTTTTATAAATA
1 GTGTTTGTTATTATAAATA
5016502 GT
1 GT
5016504 ATTTATTGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.28, C:0.00, G:0.17, T:0.55
Consensus pattern (19 bp):
GTGTTTGTTATTATAAATA
Found at i:5018673 original size:16 final size:16
Alignment explanation
Indices: 5018646--5018687 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
5018636 TAAATGATGA
*
5018646 AAATAAAA-AAAAAGG
1 AAATAAAACAAAAACG
5018661 AAATAAAACAAAAACG
1 AAATAAAACAAAAACG
*
5018677 AAAGAAAACAA
1 AAATAAAACAA
5018688 GTTAGTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 8 0.33
16 16 0.67
ACGTcount: A:0.79, C:0.07, G:0.10, T:0.05
Consensus pattern (16 bp):
AAATAAAACAAAAACG
Found at i:5020992 original size:5 final size:5
Alignment explanation
Indices: 5020958--5021135 Score: 69
Period size: 5 Copynumber: 35.6 Consensus size: 5
5020948 TAAAATCAAA
5020958 ATAA- ATAA- ATAA- ATAAT ATAAAT ATAA- AT-AT AATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT AT-AAT ATAAT ATAAT -ATAAT ATAAT ATAAT
* * *
5021005 AT-AT AATAA- ATAAC AT-AT AATACT ATAAT ATAATAT ATAAT GTACA-
1 ATAAT -ATAAT ATAAT ATAAT -ATAAT ATAAT AT-A-AT ATAAT ATA-AT
* *
5021051 ATACT ATAAT AATAAT A-ATAT ATCAT ATAAT A-ATAT ATAAT AT-AT
1 ATAAT ATAAT -ATAAT ATA-AT ATAAT ATAAT ATA-AT ATAAT ATAAT
* *
5021096 AATATAT AAGAAT ATACT AT-AT ACT-AT ATAAT ATAAT ATA
1 -ATA-AT -ATAAT ATAAT ATAAT A-TAAT ATAAT ATAAT ATA
5021136 TACTATATAC
Statistics
Matches: 137, Mismatches: 13, Indels: 47
0.70 0.07 0.24
Matches are distributed among these distances:
3 1 0.01
4 28 0.20
5 79 0.58
6 20 0.15
7 9 0.07
ACGTcount: A:0.58, C:0.04, G:0.01, T:0.37
Consensus pattern (5 bp):
ATAAT
Found at i:5021010 original size:7 final size:7
Alignment explanation
Indices: 5020973--5021207 Score: 193
Period size: 7 Copynumber: 33.7 Consensus size: 7
5020963 TAAATAAATA
5020973 ATATAA-
1 ATATAAT
5020979 ATATAA-
1 ATATAAT
5020985 ATATAAT
1 ATATAAT
5020992 A-AT-AT
1 ATATAAT
5020997 AATATAAT
1 -ATATAAT
5021005 ATATAAT
1 ATATAAT
* *
5021012 AAATAAC
1 ATATAAT
5021019 ATATAAT
1 ATATAAT
5021026 ACTAT-A-
1 A-TATAAT
5021032 ATATAAT
1 ATATAAT
5021039 ATATAAT
1 ATATAAT
* *
5021046 GTACAAT
1 ATATAAT
5021053 ACTATAAT
1 A-TATAAT
5021061 AATAATAAT
1 -AT-ATAAT
*
5021070 ATATCAT
1 ATATAAT
5021077 ATAATAAT
1 AT-ATAAT
5021085 ATATAAT
1 ATATAAT
5021092 ATATAAT
1 ATATAAT
*
5021099 ATATAAGA
1 ATATAA-T
*
5021107 ATATACT
1 ATATAAT
*
5021114 ATATACT
1 ATATAAT
5021121 ATAT-A-
1 ATATAAT
5021126 ATATAAT
1 ATATAAT
*
5021133 ATATACT
1 ATATAAT
*
5021140 ATATACT
1 ATATAAT
*
5021147 GTATAAT
1 ATATAAT
5021154 ATATAAT
1 ATATAAT
5021161 AT-T-AT
1 ATATAAT
5021166 ACTATAAT
1 A-TATAAT
5021174 ATATAAT
1 ATATAAT
**
5021181 AATATTCT
1 -ATATAAT
5021189 ATATAAT
1 ATATAAT
*
5021196 ATATACT
1 ATATAAT
5021203 ATATA
1 ATATA
5021208 CAACATATAC
Statistics
Matches: 188, Mismatches: 23, Indels: 35
0.76 0.09 0.14
Matches are distributed among these distances:
5 12 0.06
6 20 0.11
7 118 0.63
8 32 0.17
9 6 0.03
ACGTcount: A:0.54, C:0.05, G:0.01, T:0.40
Consensus pattern (7 bp):
ATATAAT
Found at i:5021034 original size:22 final size:23
Alignment explanation
Indices: 5020965--5021268 Score: 153
Period size: 22 Copynumber: 13.3 Consensus size: 23
5020955 AAAATAAATA
5020965 AATA-AATAATATA-AATA-TA-
1 AATATAATAATATATAATACTAT
5020984 AATATAATAATATAATATAATA-TAT
1 AATATAAT-A-AT-ATATAATACTAT
*
5021009 AATA-AATAACATATAATACTAT
1 AATATAATAATATATAATACTAT
*
5021031 AATATAATATATAATGTACAATACTAT
1 AATATAATA-AT-A--TATAATACTAT
*
5021058 AATAATAATAATATATCATA-TAAT
1 AAT-ATAATAATATATAATACT-AT
5021082 AATAT-ATAATATATAATA-TAT
1 AATATAATAATATATAATACTAT
* * *
5021103 AAGA-ATATACTATATACTA-TAT
1 AATATA-ATAATATATAATACTAT
5021125 AATATAAT-ATATACTATATACTGTAT
1 AATATAATAATATA-TA-ATAC--TAT
5021151 AATAT-ATAATAT-T-ATACTAT
1 AATATAATAATATATAATACTAT
**
5021171 AATAT-ATAATAATATTCTA-TAT
1 AATATAATAAT-ATATAATACTAT
*
5021193 AATAT-ATACTATATACA-ACATAT
1 AATATAATAATATATA-ATAC-TAT
* * **
5021216 ACTATAATAATACACCATA-TAT
1 AATATAATAATATATAATACTAT
* * *
5021238 TATATAATATACCATATACTACTAT
1 AATATAATA-A-TATATAATACTAT
5021263 AATATA
1 AATATA
5021269 TATTATACTA
Statistics
Matches: 222, Mismatches: 29, Indels: 62
0.71 0.09 0.20
Matches are distributed among these distances:
19 4 0.02
20 16 0.07
21 25 0.11
22 71 0.32
23 25 0.11
24 32 0.14
25 15 0.07
26 13 0.06
27 15 0.07
28 6 0.03
ACGTcount: A:0.54, C:0.07, G:0.01, T:0.38
Consensus pattern (23 bp):
AATATAATAATATATAATACTAT
Found at i:5021088 original size:2 final size:2
Alignment explanation
Indices: 5021068--5021207 Score: 78
Period size: 2 Copynumber: 74.5 Consensus size: 2
5021058 AATAATAATA
*
5021068 AT AT AT CAT AT A- AT A- AT AT AT A- AT AT AT A- AT AT AT A- AG
1 AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5021106 A- AT AT ACT AT AT ACT AT AT A- AT AT A- AT AT AT ACT AT AT ACT
1 AT AT AT A-T AT AT A-T AT AT AT AT AT AT AT AT AT A-T AT AT A-T
*
5021147 GT AT A- AT AT AT A- AT AT -T AT ACT AT A- AT AT AT A- AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT
*
5021184 AT -T CT AT AT A- AT AT AT ACT AT AT A
1 AT AT AT AT AT AT AT AT AT A-T AT AT A
5021208 CAACATATAC
Statistics
Matches: 112, Mismatches: 3, Indels: 46
0.70 0.02 0.29
Matches are distributed among these distances:
1 16 0.14
2 83 0.74
3 13 0.12
ACGTcount: A:0.51, C:0.06, G:0.01, T:0.42
Consensus pattern (2 bp):
AT
Found at i:5021117 original size:75 final size:71
Alignment explanation
Indices: 5020973--5021207 Score: 198
Period size: 75 Copynumber: 3.3 Consensus size: 71
5020963 TAAATAAATA
* * *
5020973 ATATAA-ATATAA-ATATAATAAT-ATAATATA-ATATATAATAAATAACATATAATACTAT--A
1 ATATAATATACAATATATAATAATAATAATATATATATATAATATATAATATATAATA-TATAAA
*
5021032 ATATAAT
65 ATATACT
*
5021039 ATATAATGTACAATACTATAATAATAATAATATATCATATAATAATATATAATATATAATATATA
1 ATATAATATACAATA-TATAATAATAATAATATAT-ATAT-ATAATATATAATATATAATATATA
5021104 AGAATATACT
63 A-AATATACT
* * * * *
5021114 ATATACTATATAATATAATATATACTATATACTGTATAATATATAATAT-T-ATACTATAATATA
1 ATATAATATACAATAT-ATA-ATAATA-ATAATATAT-ATATATAATATATAATA-TATAATATA
*
5021177 TAATAATATTCT
61 TAA-AATATACT
* *
5021189 ATATAATATATACTATATA
1 ATATAATATACAATATATA
5021208 CAACATATAC
Statistics
Matches: 139, Mismatches: 16, Indels: 20
0.79 0.09 0.11
Matches are distributed among these distances:
66 6 0.04
67 4 0.03
68 1 0.01
69 9 0.06
70 8 0.06
72 7 0.05
73 18 0.13
74 7 0.05
75 56 0.40
76 12 0.09
77 11 0.08
ACGTcount: A:0.54, C:0.05, G:0.01, T:0.40
Consensus pattern (71 bp):
ATATAATATACAATATATAATAATAATAATATATATATATAATATATAATATATAATATATAAAA
TATACT
Found at i:5021208 original size:7 final size:7
Alignment explanation
Indices: 5021084--5021280 Score: 108
Period size: 7 Copynumber: 28.6 Consensus size: 7
5021074 CATATAATAA
*
5021084 TATATAA
1 TATATAC
*
5021091 TATATAA
1 TATATAC
*
5021098 TATATAAG
1 TATAT-AC
*
5021106 AATATAC
1 TATATAC
5021113 TATATAC
1 TATATAC
5021120 TATATA-
1 TATATAC
*
5021126 -ATATAA
1 TATATAC
5021132 TATATAC
1 TATATAC
5021139 TATATAC
1 TATATAC
* *
5021146 TGTATAA
1 TATATAC
*
5021153 TATATAA
1 TATATAC
5021160 TATTATAC
1 TA-TATAC
5021168 TATA-A-
1 TATATAC
*
5021173 TATATAA
1 TATATAC
*
5021180 TAATATTC
1 T-ATATAC
*
5021188 TATATAA
1 TATATAC
5021195 TATATAC
1 TATATAC
5021202 TATATAC
1 TATATAC
*
5021209 AACATATAC
1 --TATATAC
5021218 TATA-A-
1 TATATAC
*
5021223 TAATACAC
1 T-ATATAC
* *
5021231 CATATAT
1 TATATAC
5021238 TATATA-
1 TATATAC
5021244 -ATATAC
1 TATATAC
*
5021250 CATATAC
1 TATATAC
*
5021257 TACTATAA
1 TA-TATAC
5021265 TATATA-
1 TATATAC
5021271 T-TATAC
1 TATATAC
5021277 TATA
1 TATA
5021281 ACATAAACGG
Statistics
Matches: 151, Mismatches: 22, Indels: 34
0.73 0.11 0.16
Matches are distributed among these distances:
5 19 0.13
6 8 0.05
7 96 0.64
8 22 0.15
9 6 0.04
ACGTcount: A:0.49, C:0.09, G:0.01, T:0.41
Consensus pattern (7 bp):
TATATAC
Found at i:5021221 original size:5 final size:4
Alignment explanation
Indices: 5020973--5021207 Score: 91
Period size: 3 Copynumber: 64.2 Consensus size: 4
5020963 TAAATAAATA
* * *
5020973 ATAT AAAT ATAA ATAT A-AT A-AT ATA- ATAT A-AT ATAT A-AT AAAT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
* * *
5021016 A-AC ATAT A-AT ACTAT A-AT ATA- ATAT ATA- ATGT ACA- ATACT ATA-
1 ATAT ATAT ATAT A-TAT ATAT ATAT ATAT ATAT ATAT ATAT ATA-T ATAT
5021059 ATA- ATA- ATA- ATAT ATCAT ATA- ATA- ATAT ATA- ATAT ATA- ATAT
1 ATAT ATAT ATAT ATAT AT-AT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
* *
5021101 ATA- AGA- ATAT ACTAT ATACT ATAT A-AT ATA- ATAT ATACT ATAT ACTGT
1 ATAT ATAT ATAT A-TAT ATA-T ATAT ATAT ATAT ATAT ATA-T ATAT A-TAT
*
5021149 ATA- ATAT ATA- ATAT -TAT ACTAT A-AT ATAT A-AT A-AT AT-T CTAT
1 ATAT ATAT ATAT ATAT ATAT A-TAT ATAT ATAT ATAT ATAT ATAT ATAT
5021191 ATA- ATAT ATACT ATAT A
1 ATAT ATAT ATA-T ATAT A
5021208 CAACATATAC
Statistics
Matches: 182, Mismatches: 16, Indels: 66
0.69 0.06 0.25
Matches are distributed among these distances:
3 87 0.48
4 62 0.34
5 33 0.18
ACGTcount: A:0.54, C:0.05, G:0.01, T:0.40
Consensus pattern (4 bp):
ATAT
Found at i:5021249 original size:82 final size:80
Alignment explanation
Indices: 5021050--5021281 Score: 186
Period size: 82 Copynumber: 2.8 Consensus size: 80
5021040 TATAATGTAC
* * * * *
5021050 AATACTATAATAATAATAATATATCATATAATAATA-TATAATATATAAT-ATATAAGAATATAC
1 AATACTATAATAATAACAATATATTATATAAT-ATACTATAATATATAATAATATTA-TATATAA
*
5021113 TATATACTATATAATAT
64 TATATACTATATAACAT
* ** * *
5021130 AATA-TATACT-ATATACTGTATAATATATAATATTATACTATAATATATAATAATATTCTATAT
1 AATACTATAATAATA-ACAATAT-AT-TAT-ATAATATACTATAATATATAATAATATTATATAT
5021193 AATATATACTATATACAACAT
62 AATATATACTATAT--AACAT
* *
5021214 -ATACTATAATAATACACCATATATTATATAATATACCATATACTACTATAATATATATTATACT
1 AATACTATAATAATA-ACAATATATTATATAATATA-C-TATAATA-TATAATA-ATATTATA-T
5021278 ATAA
60 ATAA
5021282 CATAAACGGG
Statistics
Matches: 119, Mismatches: 18, Indels: 23
0.74 0.11 0.14
Matches are distributed among these distances:
78 3 0.03
79 9 0.08
80 6 0.05
81 5 0.04
82 41 0.34
83 11 0.09
84 17 0.14
85 15 0.13
86 7 0.06
87 5 0.04
ACGTcount: A:0.51, C:0.09, G:0.01, T:0.40
Consensus pattern (80 bp):
AATACTATAATAATAACAATATATTATATAATATACTATAATATATAATAATATTATATATAATA
TATACTATATAACAT
Found at i:5021268 original size:20 final size:19
Alignment explanation
Indices: 5021205--5021266 Score: 79
Period size: 20 Copynumber: 3.2 Consensus size: 19
5021195 TATATACTAT
*
5021205 ATACAACATATACTATAATA
1 ATACACCATATACTAT-ATA
*
5021225 ATACACCATATATTATATA
1 ATACACCATATACTATATA
*
5021244 ATATACCATATACTACTATA
1 ATACACCATATACTA-TATA
5021264 ATA
1 ATA
5021267 TATATTATAC
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
19 16 0.43
20 21 0.57
ACGTcount: A:0.50, C:0.16, G:0.00, T:0.34
Consensus pattern (19 bp):
ATACACCATATACTATATA
Done.