Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 13 of 362
Found at i:4258157 original size:22 final size:23
Alignment explanation
Indices: 4258132--4258185 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 23
4258122 AGTATAAAGG
4258132 ATATATATAGACATGAACTAA-A
1 ATATATATAGACATGAACTAACA
* * * *
4258154 ATATGTGTATACATGAATTAACA
1 ATATATATAGACATGAACTAACA
*
4258177 AAATATATA
1 ATATATATA
4258186 AAGTATATTA
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
22 17 0.71
23 7 0.29
ACGTcount: A:0.52, C:0.07, G:0.09, T:0.31
Consensus pattern (23 bp):
ATATATATAGACATGAACTAACA
Found at i:4258628 original size:3 final size:3
Alignment explanation
Indices: 4258620--4258678 Score: 91
Period size: 3 Copynumber: 19.7 Consensus size: 3
4258610 AATAAATAGG
* * *
4258620 TAA TAA TAA TAA TAG TAG TAG TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
4258668 TAA TAA TAA TA
1 TAA TAA TAA TA
4258679 GGACTAATTC
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:4259755 original size:15 final size:16
Alignment explanation
Indices: 4259729--4259758 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
4259719 TAGTGTTTAG
4259729 GTGGGTTATTGGGTTT
1 GTGGGTTATTGGGTTT
4259745 GTGGG-TATTGGGTT
1 GTGGGTTATTGGGTT
4259759 CTTTTGTTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.07, C:0.00, G:0.47, T:0.47
Consensus pattern (16 bp):
GTGGGTTATTGGGTTT
Found at i:4262640 original size:26 final size:26
Alignment explanation
Indices: 4262564--4262647 Score: 132
Period size: 26 Copynumber: 3.2 Consensus size: 26
4262554 CATGAAATTC
* * *
4262564 TTATCATGAAATATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTA
4262590 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
*
4262616 TTATCATGGAACATTTACCTAACCTT
1 TTATCATGGAACATTTACCTAACCTA
4262642 TTATCA
1 TTATCA
4262648 ATTTGTATCA
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.35, C:0.23, G:0.06, T:0.37
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCTA
Found at i:4266077 original size:3 final size:3
Alignment explanation
Indices: 4266069--4266272 Score: 148
Period size: 3 Copynumber: 67.3 Consensus size: 3
4266059 TGCTATTACC
*
4266069 ATT ATT ATT ATT ATT ATT ATC ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * *
4266117 ATT ATT ATT ATT A-T ATT CGTT AGTT TTT ACCT -TT ATT -TT CTTT ACT
1 ATT ATT ATT ATT ATT ATT -ATT A-TT ATT A-TT ATT ATT ATT -ATT ATT
* * * * * * *
4266163 ATT -TT TTT ATT ATC ATT AACT ACT ATC ATT ATT ATA AAT A-T ATT
1 ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * *
4266207 ATT ATT ACT ATT TTT ATT ACT ATT ATT ATT ATT ATT ATT ACT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
4266255 CTT ATT AATGT ATT ATT A
1 ATT ATT -AT-T ATT ATT A
4266273 CTACTACTAC
Statistics
Matches: 158, Mismatches: 31, Indels: 24
0.74 0.15 0.11
Matches are distributed among these distances:
2 9 0.06
3 135 0.85
4 13 0.08
5 1 0.01
ACGTcount: A:0.31, C:0.07, G:0.01, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:4268808 original size:16 final size:16
Alignment explanation
Indices: 4268762--4268808 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
4268752 GATTAGGTGA
4268762 ATTAATTTGAATTAAGG
1 ATTAATTTGAA-TAAGG
*
4268779 -TTAATTTGGTATAAGG
1 ATTAATTT-GAATAAGG
*
4268795 ATTAAATTGAATAA
1 ATTAATTTGAATAA
4268809 AGTGTGAAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
16 17 0.68
17 8 0.32
ACGTcount: A:0.43, C:0.00, G:0.17, T:0.40
Consensus pattern (16 bp):
ATTAATTTGAATAAGG
Found at i:4268993 original size:13 final size:12
Alignment explanation
Indices: 4268961--4268998 Score: 51
Period size: 13 Copynumber: 3.1 Consensus size: 12
4268951 ATTATTTAAG
4268961 TAATAATAATAAT
1 TAATAAT-ATAAT
4268974 T-ATAATATAAT
1 TAATAATATAAT
4268985 ATAATAATATAAT
1 -TAATAATATAAT
4268998 T
1 T
4268999 GTCGAAACCA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
11 5 0.22
12 7 0.30
13 11 0.48
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
TAATAATATAAT
Found at i:4269721 original size:131 final size:130
Alignment explanation
Indices: 4269482--4269813 Score: 492
Period size: 131 Copynumber: 2.6 Consensus size: 130
4269472 AAAAACCGAG
* * * *
4269482 ACCCAGCAC-AGTAGGGCACGATTCCTCGAATTTCTAGACATTGAACATTGCCTT-GTTTT--AG
1 ACCCAGCACGA-TAGGGCACGATTCCTCGAATTGCCAAACATCGAACATTGCCTTCGTTTTAAAG
** * * **
4269543 AATTTAGAAAACATGAGTGAAATTCTAAAGGGATATTCGATTATTTTGAACAAACGGGAAATTGC
65 AATTTTTAAAACATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAAAAGGAAATTGC
4269608 A
130 A
* *
4269609 ACCCAGCACGATAGGGCACGATTCCTCGAATTGCCAAACATCAAACATTTCCTTCGTTTTAAAGA
1 ACCCAGCACGATAGGGCACGATTCCTCGAATTGCCAAACATCGAACATTGCCTTCGTTTTAAAGA
4269674 ATTTTTAAAGACATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAAAAGGAAATTGC
66 ATTTTTAAA-ACATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAAAAGGAAATTGC
4269739 A
130 A
* *
4269740 ACCCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATCGCCTTCGTTTTAAAGA
1 ACCCAGCACGATAGGGCACGATTCCTCGAATTGCCAAACATCGAACATTGCCTTCGTTTTAAAGA
4269805 ATTTTTAAA
66 ATTTTTAAA
4269814 TGGATAATTA
Statistics
Matches: 184, Mismatches: 16, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
127 46 0.25
128 6 0.03
130 10 0.05
131 122 0.66
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (130 bp):
ACCCAGCACGATAGGGCACGATTCCTCGAATTGCCAAACATCGAACATTGCCTTCGTTTTAAAGA
ATTTTTAAAACATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAAAAGGAAATTGCA
Found at i:4273410 original size:131 final size:130
Alignment explanation
Indices: 4273184--4273504 Score: 452
Period size: 131 Copynumber: 2.5 Consensus size: 130
4273174 CCCCGCACAT
** * * * **
4273184 TAGGGCACGATTCATCGAATTTCTAGACATTGAACATTGCCTT-GTTTT--AGAATTTAGAAAAC
1 TAGGGCACGATTCCCCGAATTGCTAAACATCGAACATTGCCTTCGTTTTAAAGAATTTTTAAAAC
* *
4273246 ATGAGTGAAATTCTAAAGGGATATTCGATTATTTTGAACAAAC-GGTAAATTGCAACCCAGCACG
66 ATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACAGG-AAATTGCAACCCAGCACG
4273310 A
130 A
* *
4273311 TAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTTCCTTCGTTTTAAAGAATTTTTAAAGA
1 TAGGGCACGATTCCCCGAATTGCTAAACATCGAACATTGCCTTCGTTTTAAAGAATTTTTAAA-A
*
4273376 CGTGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACAGGAAATTGCAACCCAGCACG
65 CATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACAGGAAATTGCAACCCAGCACG
4273441 A
130 A
* ** *
4273442 TAAGGCACGATTCCCTAAATTGCTAAACATCGAACATGGCCTTCGTTTTAAAGAATTTTTAAA
1 TAGGGCACGATTCCCCGAATTGCTAAACATCGAACATTGCCTTCGTTTTAAAGAATTTTTAAA
4273505 TGGATAATTA
Statistics
Matches: 171, Mismatches: 18, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
127 36 0.21
128 5 0.03
130 10 0.06
131 118 0.69
132 2 0.01
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.29
Consensus pattern (130 bp):
TAGGGCACGATTCCCCGAATTGCTAAACATCGAACATTGCCTTCGTTTTAAAGAATTTTTAAAAC
ATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACAGGAAATTGCAACCCAGCACGA
Found at i:4276308 original size:41 final size:41
Alignment explanation
Indices: 4276142--4276297 Score: 276
Period size: 41 Copynumber: 3.8 Consensus size: 41
4276132 TTTATCGTTA
* *
4276142 GTGACATAATTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
4276183 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
4276224 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
* *
4276265 GTGACACATTTCGGACTATAAGTCTAGTAGGCT
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCT
4276298 AAGAGCCGGT
Statistics
Matches: 111, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 111 1.00
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (41 bp):
GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
Found at i:4276568 original size:33 final size:32
Alignment explanation
Indices: 4276512--4276575 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
4276502 ATAGATATGT
4276512 ATATATATATATGTTGCATTCGGCATAGGTGG
1 ATATATATATATGTTGCATTCGGCATAGGTGG
* *
4276544 ATATATTTATGTGTATGCATTCGGCATAGGTG
1 ATATATATATATGT-TGCATTCGGCATAGGTG
4276576 AAAATAAGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.27, C:0.09, G:0.25, T:0.39
Consensus pattern (32 bp):
ATATATATATATGTTGCATTCGGCATAGGTGG
Found at i:4276592 original size:33 final size:33
Alignment explanation
Indices: 4276519--4276592 Score: 87
Period size: 33 Copynumber: 2.3 Consensus size: 33
4276509 TGTATATATA
* * **
4276519 TATATGT-TGCATTCGGCATAGGTGGATATATT
1 TATATGTATGCATTCGGCATAGGTGAAAATAAG
*
4276551 TATGTGTATGCATTCGGCATAGGTGAAAATAAG
1 TATATGTATGCATTCGGCATAGGTGAAAATAAG
*
4276584 TGTATGTAT
1 TATATGTAT
4276593 CTATGCATTC
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
32 6 0.18
33 28 0.82
ACGTcount: A:0.28, C:0.08, G:0.26, T:0.38
Consensus pattern (33 bp):
TATATGTATGCATTCGGCATAGGTGAAAATAAG
Found at i:4283366 original size:41 final size:41
Alignment explanation
Indices: 4283309--4283512 Score: 309
Period size: 41 Copynumber: 4.8 Consensus size: 41
4283299 TTTATCGTTA
* *
4283309 GTGACATAATTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
4283350 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
*
4283391 GTGGCACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCGGTGCACG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAA------TGC-CG
4283439 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
*
4283480 GTGACACATTTCGGACTATAAGTCTAGCAGGCT
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCT
4283513 AAGAGCCGGT
Statistics
Matches: 151, Mismatches: 5, Indels: 14
0.89 0.03 0.08
Matches are distributed among these distances:
41 108 0.72
42 3 0.02
47 3 0.02
48 37 0.25
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (41 bp):
GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
Found at i:4283499 original size:89 final size:89
Alignment explanation
Indices: 4283348--4283512 Score: 312
Period size: 89 Copynumber: 1.9 Consensus size: 89
4283338 GGCTTAATGC
*
4283348 CGGTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCGGTGGCACATTTCAGACTATAAG
1 CGGTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCGGTGACACATTTCAGACTATAAG
4283413 TCTAGCAGGCTTAATGCCGGTGCA
66 TCTAGCAGGCTTAATGCCGGTGCA
*
4283437 CGGTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCGGTGACACATTTCGGACTATAAG
1 CGGTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCGGTGACACATTTCAGACTATAAG
4283502 TCTAGCAGGCT
66 TCTAGCAGGCT
4283513 AAGAGCCGGT
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
89 74 1.00
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.26
Consensus pattern (89 bp):
CGGTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCGGTGACACATTTCAGACTATAAG
TCTAGCAGGCTTAATGCCGGTGCA
Found at i:4283521 original size:41 final size:41
Alignment explanation
Indices: 4283437--4283523 Score: 140
Period size: 41 Copynumber: 2.1 Consensus size: 41
4283427 TGCCGGTGCA
*
4283437 CGGTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGC
1 CGGTGACACATTTCAGACTATAAGTCTAGCAGGCTTAAAGC
*
4283478 CGGTGACACATTTCGGACTATAAGTCTAGCAGGC-TAAGAGC
1 CGGTGACACATTTCAGACTATAAGTCTAGCAGGCTTAA-AGC
4283519 CGGTG
1 CGGTG
4283524 TATTGAATCA
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
40 3 0.07
41 40 0.93
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (41 bp):
CGGTGACACATTTCAGACTATAAGTCTAGCAGGCTTAAAGC
Found at i:4286123 original size:37 final size:38
Alignment explanation
Indices: 4286023--4286126 Score: 113
Period size: 37 Copynumber: 2.7 Consensus size: 38
4286013 CGACCACGAG
4286023 CCGATGAGACACTGGGTGTCAAACTATTACTTCGGATAAAT
1 CCGATGAGACACTGGGTGTC-AAC--TTACTTCGGATAAAT
* * * * *
4286064 TCGACGAGATACTGGGTATCAACTTACTTCGGCAT-GA-
1 CCGATGAGACACTGGGTGTCAACTTACTTCGG-ATAAAT
4286101 CCGATGAGACACTGGGTGTCAACTTA
1 CCGATGAGACACTGGGTGTCAACTTA
4286127 TTACTTCGAA
Statistics
Matches: 53, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
37 22 0.42
38 10 0.19
39 2 0.04
40 3 0.06
41 16 0.30
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (38 bp):
CCGATGAGACACTGGGTGTCAACTTACTTCGGATAAAT
Found at i:4286147 original size:40 final size:39
Alignment explanation
Indices: 4286025--4286158 Score: 114
Period size: 40 Copynumber: 3.4 Consensus size: 39
4286015 ACCACGAGCC
*
4286025 GATGAGACACTGGGTGTCAAACTATTACTTCGGATAAAT-T
1 GATGAGACACTGGGTGTC-AACTATTACTTCGAAT-AATCT
* * * * * *
4286065 CGACGAGATACTGGGTATCAAC--TTACTTCGGCATGA-CC
1 -GATGAGACACTGGGTGTCAACTATTACTTC-GAATAATCT
*
4286103 GATGAGACACTGGGTGTCAACTTATTACTTCGAATTATCT
1 GATGAGACACTGGGTGTCAAC-TATTACTTCGAATAATCT
*
4286143 GATGAGGCACTGGGTG
1 GATGAGACACTGGGTG
4286159 CCATACTGGT
Statistics
Matches: 74, Mismatches: 13, Indels: 13
0.74 0.13 0.13
Matches are distributed among these distances:
37 18 0.24
38 8 0.11
39 7 0.09
40 26 0.35
41 15 0.20
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (39 bp):
GATGAGACACTGGGTGTCAACTATTACTTCGAATAATCT
Found at i:4290810 original size:13 final size:13
Alignment explanation
Indices: 4290794--4290857 Score: 62
Period size: 13 Copynumber: 5.0 Consensus size: 13
4290784 TCGTTCTCAC
4290794 ATTTTTATTTATT
1 ATTTTTATTTATT
4290807 ATTTTTATTTATT
1 ATTTTTATTTATT
*
4290820 ATTCTCT-TTTATT
1 ATT-TTTATTTATT
**
4290833 ATGCTT-TTT-TT
1 ATTTTTATTTATT
4290844 ATTTTTCATTTATT
1 ATTTTT-ATTTATT
4290858 TTGCTTATTT
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
11 6 0.15
12 4 0.10
13 27 0.66
14 4 0.10
ACGTcount: A:0.19, C:0.06, G:0.02, T:0.73
Consensus pattern (13 bp):
ATTTTTATTTATT
Found at i:4298427 original size:37 final size:35
Alignment explanation
Indices: 4298366--4298435 Score: 104
Period size: 37 Copynumber: 1.9 Consensus size: 35
4298356 TCTGAGTAAG
*
4298366 TATTCTTTTATTCTTCATTCCATTCATAACCAAAA
1 TATTATTTTATTCTTCATTCCATTCATAACCAAAA
*
4298401 TATTATTTTATTCTTTTCATTTCATTCATAACCAA
1 TATTATTTTATTC--TTCATTCCATTCATAACCAA
4298436 TCATATGGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
35 12 0.39
37 19 0.61
ACGTcount: A:0.30, C:0.20, G:0.00, T:0.50
Consensus pattern (35 bp):
TATTATTTTATTCTTCATTCCATTCATAACCAAAA
Found at i:4304424 original size:51 final size:51
Alignment explanation
Indices: 4304305--4304409 Score: 183
Period size: 51 Copynumber: 2.1 Consensus size: 51
4304295 AACCAAGTTA
* * *
4304305 TCCGGATGAAATATGAAACTCTTGTTGAAGCTAGAGCAATAAAGTAATAAT
1 TCCGAATGAAATATGAAGCTCTTGTTGAAGCTAGAGCAACAAAGTAATAAT
4304356 TCCGAATGAAATATGAAGCTCTTGTTGAAGCTAGAGCAACAAAGTAATAAT
1 TCCGAATGAAATATGAAGCTCTTGTTGAAGCTAGAGCAACAAAGTAATAAT
4304407 TCC
1 TCC
4304410 AGATAAAGTA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.40, C:0.14, G:0.19, T:0.27
Consensus pattern (51 bp):
TCCGAATGAAATATGAAGCTCTTGTTGAAGCTAGAGCAACAAAGTAATAAT
Found at i:4305203 original size:21 final size:21
Alignment explanation
Indices: 4305179--4305250 Score: 58
Period size: 21 Copynumber: 3.2 Consensus size: 21
4305169 CTTTCTGAAA
4305179 TGAAATGTGTAAGACCATGGT
1 TGAAATGTGTAAGACCATGGT
* *
4305200 TGAAA-G-ATACCATGACAACATGAT
1 TGAAATGTGTA--A-GAC--CATGGT
4305224 ATGAAATGTGTAAGACCATGGT
1 -TGAAATGTGTAAGACCATGGT
4305246 TGAAA
1 TGAAA
4305251 GATACTATGG
Statistics
Matches: 39, Mismatches: 4, Indels: 16
0.66 0.07 0.27
Matches are distributed among these distances:
19 2 0.05
20 1 0.03
21 11 0.28
22 8 0.21
24 8 0.21
25 6 0.15
26 1 0.03
27 2 0.05
ACGTcount: A:0.40, C:0.11, G:0.24, T:0.25
Consensus pattern (21 bp):
TGAAATGTGTAAGACCATGGT
Found at i:4305230 original size:46 final size:45
Alignment explanation
Indices: 4305177--4305359 Score: 213
Period size: 46 Copynumber: 4.0 Consensus size: 45
4305167 TGCTTTCTGA
* *
4305177 AATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAACATG
1 AATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
* * *
4305222 ATATGAAATGTGTAAGACCATGGTTGAAAGATACTATGGCAACGTG
1 A-ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
* * * *
4305268 ACATGAAAAGAATAAAACCATGGTTGAAAGATATCATGGCAACATG
1 A-ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
* * * * *
4305314 ACTGAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 AATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
4305360 TCGATGGAGG
Statistics
Matches: 116, Mismatches: 20, Indels: 3
0.83 0.14 0.02
Matches are distributed among these distances:
45 3 0.03
46 113 0.97
ACGTcount: A:0.42, C:0.13, G:0.22, T:0.22
Consensus pattern (45 bp):
AATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
Found at i:4306388 original size:89 final size:88
Alignment explanation
Indices: 4306220--4306389 Score: 196
Period size: 89 Copynumber: 1.9 Consensus size: 88
4306210 CCATGGTGAA
* * * * *
4306220 TCTTATCTCCCTGAAGTTGCAGCGGAACAGATTAAAGCCACAATACTTATCTGCCTGAAGTTGCA
1 TCTTATCTCCCTAAAGTTGCAACGGAACAGACTAAAGACACAATACTTATCTCCCTGAAGTTGCA
*** *
4306285 GTGGTGTAGGTTAAAGTTACAAG
66 GTGGAACAGATTAAAGTTACAAG
* * ** * *
4306308 TCTTATCTCCCTAAAGTTGCAATGGAGCAGACTGGAGACAGCAATTCTTATTTCCCTGAAGTTGC
1 TCTTATCTCCCTAAAGTTGCAACGGAACAGACTAAAGACA-CAATACTTATCTCCCTGAAGTTGC
4306373 AGTGGAACAGATTAAAG
65 AGTGGAACAGATTAAAG
4306390 CTATGAATTA
Statistics
Matches: 66, Mismatches: 15, Indels: 1
0.80 0.18 0.01
Matches are distributed among these distances:
88 32 0.48
89 34 0.52
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.28
Consensus pattern (88 bp):
TCTTATCTCCCTAAAGTTGCAACGGAACAGACTAAAGACACAATACTTATCTCCCTGAAGTTGCA
GTGGAACAGATTAAAGTTACAAG
Found at i:4306498 original size:140 final size:133
Alignment explanation
Indices: 4306221--4306602 Score: 320
Period size: 140 Copynumber: 2.8 Consensus size: 133
4306211 CATGGTGAAT
* * *
4306221 CTTATCTCCCTGAAGTTGCAGCGGAACAGATTAAAGCCACAATACTTATCTGCCTGAAGTTGCAG
1 CTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCCACAATACTTATCTCCCTAAAGTTGCAG
* ** * * *
4306286 TGGTGTAGGTTAAAGTTACAAGTCTTATCTCCCTAAAGTTGCAATGGAGCAGACTGGAGACAGCA
66 TGGAGTAAATTAAAGTTACAAGTCTAATCTCCCTAAAGTTGCAATGGAGCAGACTGAAGACAGAA
**
4306351 ATT
131 AAA
* * *
4306354 CTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTATGAATTACAAACCTTATCTCCCTAAA
1 CTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCCA-CAA-T----A-CTTATCTCCCTAAA
* * * *
4306419 GTTGCAGTGGAGTAAATTGAAGTTAC-TGATCTAATCTCCCTAGAGTTGCAATGGAGTAGA-TCG
59 GTTGCAGTGGAGTAAATTAAAGTTACAAG-TCTAATCTCCCTAAAGTTGCAATGGAGCAGACT-G
*
4306482 AAGATAGAAAAA
122 AAGACAGAAAAA
* * ** * * ** * *
4306494 CTTATCCCCCTGAAGATGCAGTGGGGCAGGTTGAAGTTACGAGT-CTTATCTCCCTGAAGTTGCA
1 CTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCCAC-AATACTTATCTCCCTAAAGTTGCA
* * * * * * *
4306558 GTGGAGCAGATTGAAGATAGCAAATCTTATCTCCCTGAAGTTGCA
65 GTGGAGTAAATTAAAGTTA-CAAGTCTAATCTCCCTAAAGTTGCA
4306603 CTAGAGTAGA
Statistics
Matches: 199, Mismatches: 38, Indels: 23
0.77 0.15 0.09
Matches are distributed among these distances:
133 71 0.36
134 21 0.11
135 1 0.01
139 4 0.02
140 102 0.51
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.28
Consensus pattern (133 bp):
CTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCCACAATACTTATCTCCCTAAAGTTGCAG
TGGAGTAAATTAAAGTTACAAGTCTAATCTCCCTAAAGTTGCAATGGAGCAGACTGAAGACAGAA
AAA
Found at i:4306530 original size:89 final size:89
Alignment explanation
Indices: 4306435--4306602 Score: 232
Period size: 89 Copynumber: 1.9 Consensus size: 89
4306425 GTGGAGTAAA
*
4306435 TTGAAGTTACTGA-TCTAATCTCCCT-AGAGTTGCAATGGAGTAGATCGAAGATAGAAAAACTTA
1 TTGAAGTTAC-GAGTCTAATCTCCCTGA-AGTTGCAATGGAGCAGATCGAAGATAGAAAAACTTA
4306498 TCCCCCTGAAGATGCAGTGGGGCAGG
64 TCCCCCTGAAGATGCAGTGGGGCAGG
* * * * *
4306524 TTGAAGTTACGAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATC
1 TTGAAGTTACGAGTCTAATCTCCCTGAAGTTGCAATGGAGCAGATCGAAGATAGAAAAACTTATC
* *
4306589 TCCCTGAAGTTGCA
66 CCCCTGAAGATGCA
4306603 CTAGAGTAGA
Statistics
Matches: 69, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
88 2 0.03
89 66 0.96
90 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.27
Consensus pattern (89 bp):
TTGAAGTTACGAGTCTAATCTCCCTGAAGTTGCAATGGAGCAGATCGAAGATAGAAAAACTTATC
CCCCTGAAGATGCAGTGGGGCAGG
Found at i:4306558 original size:44 final size:45
Alignment explanation
Indices: 4306218--4306602 Score: 278
Period size: 44 Copynumber: 8.5 Consensus size: 45
4306208 CACCATGGTG
* * * **
4306218 AATCTTATCTCCCTGAAGTTGCAGCGGAACAGATTAAAGCCA-C-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCA
* * * * * *
4306261 AATACTTATCTGCCTGAAGTTGCAGTGGTGTAGGTTAAAGTTA-CA
1 AAT-CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCA
* * * * * *
4306306 AGTCTTATCTCCCTAAAGTTGCAATGGAGCAGACTGGAGACAGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCA
* * * * *
4306351 ATTCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTATGAATTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG--AT--A--GCA
* * * * * *
4306402 AACCTTATCTCCCTAAAGTTGCAGTGGAGTAAATTGAAGTTA-CT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCA
* * * * * *
4306446 GATCTAATCTCCCT-AGAGTTGCAATGGAGTAGATCGAAGATAGAA
1 AATCTTATCTCCCTGA-AGTTGCAGTGGAGCAGATTGAAGATAGCA
* * * * * * *
4306491 AAACTTATCCCCCTGAAGATGCAGTGGGGCAGGTTGAAGTTA-CG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCA
*
4306535 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCA
4306580 AATCTTATCTCCCTGAAGTTGCA
1 AATCTTATCTCCCTGAAGTTGCA
4306603 CTAGAGTAGA
Statistics
Matches: 258, Mismatches: 71, Indels: 24
0.73 0.20 0.07
Matches are distributed among these distances:
43 4 0.02
44 129 0.50
45 87 0.34
46 1 0.00
47 2 0.01
49 2 0.01
51 33 0.13
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (45 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCA
Found at i:4306708 original size:50 final size:50
Alignment explanation
Indices: 4306654--4306752 Score: 128
Period size: 51 Copynumber: 2.0 Consensus size: 50
4306644 GCAGAAGGTC
* * * *
4306654 AGATTAAATCTACCG-TAGCAAGTCTTATCTCCTTAAAGTTGCAGTGGAAT
1 AGATTAAAGCTACAGATA-CAAATCTTATCTCCCTAAAGTTGCAGTGGAAT
*
4306704 AGATTAAAGCTACAGATTACAAATCTTATCTCCCTAAAGTTGTAGTGGA
1 AGATTAAAGCTACAGA-TACAAATCTTATCTCCCTAAAGTTGCAGTGGA
4306753 GTGGATCGAA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
50 13 0.31
51 27 0.64
52 2 0.05
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.31
Consensus pattern (50 bp):
AGATTAAAGCTACAGATACAAATCTTATCTCCCTAAAGTTGCAGTGGAAT
Found at i:4307614 original size:467 final size:467
Alignment explanation
Indices: 4306735--4307673 Score: 1770
Period size: 467 Copynumber: 2.0 Consensus size: 467
4306725 AATCTTATCT
*
4306735 CCCTAAAGTTGTAGTGGAGTGGATCGAAGCAACAATTCCTATACCCTTGAAGATGCAGTGGGATG
1 CCCTAAAGTTGTAGTGGAGTGGATCGAAGCAACAATTCCTATACCCTTAAAGATGCAGTGGGATG
4306800 AAATAAGGCTACTTTAAGAAAAGAAGCACCAAAAAATCAAGATTCGGCAAAACCAGGCAAAATTG
66 AAATAAGGCTACTTTAAGAAAAGAAGCACCAAAAAATCAAGATTCGGCAAAACCAGGCAAAATTG
4306865 ACCCTTTTAAAAGTCTTTGCTCCATTCACGCTACACGTCAACGAGCAAAAAAGGGAAACTATAAT
131 ACCCTTTTAAAAGTCTTTGCTCCATTCACGCTACACGTCAACGAGCAAAAAAGGGAAACTATAAT
*
4306930 AGGCCAATTTTAGCCTGGGCCAGATTACAAAACTAAACCCAAACCAAATAAATAAAAAATAGTCC
196 AGGCCAATTTTAGCCTAGGCCAGATTACAAAACTAAACCCAAACCAAATAAATAAAAAATAGTCC
4306995 AAAATTAATGGTCCATTTACAAACCAAATAACGTAAACTAAGACCCATTACATACCAAGCCTAAA
261 AAAATTAATGGTCCATTTACAAACCAAATAACGTAAACTAAGACCCATTACATACCAAGCCTAAA
* *
4307060 GGAAGCCCAAGCAGATGACCCCAACTAAAATCCAAACCAAAACTAAACCAGCCCAAAGTTAAAAC
326 GGAAGCCCAAGCAGATGACCCAAACTAAAACCCAAACCAAAACTAAACCAGCCCAAAGTTAAAAC
*
4307125 CCAATTACAAACCCAATAACCTAAACCCTAATAGCCCAATACAACCTAAAACAAAAGTAAGCAGA
391 CCAATTACAAACCCAATAACCTAAACCCTAATAGCCCAATACAACCCAAAACAAAAGTAAGCAGA
4307190 AGAAAGAAAAAA
456 AGAAAGAAAAAA
* *
4307202 CCCTGAAGTTGTAGTGGAGTGGATTGAAGCAACAATTCCTATACCCTTAAAGATGCAGTGGGATG
1 CCCTAAAGTTGTAGTGGAGTGGATCGAAGCAACAATTCCTATACCCTTAAAGATGCAGTGGGATG
*
4307267 AAATAAGGCTACTTTAAGAAAAGAAGCACCAAAAAGTCAAGATTCGGCAAAACCAGGCAAAATTG
66 AAATAAGGCTACTTTAAGAAAAGAAGCACCAAAAAATCAAGATTCGGCAAAACCAGGCAAAATTG
*
4307332 ACCCTTTTAAAAGTCTTTGCTCCATTCACGCTACACGTCAACGAGCAAAAAAGGGCAACTATAAT
131 ACCCTTTTAAAAGTCTTTGCTCCATTCACGCTACACGTCAACGAGCAAAAAAGGGAAACTATAAT
*
4307397 AGGCCAATTTTGGCCTAGGCCAGATTACAAAACTAAACCCAAACCAAATAAATAAAAAATAGTCC
196 AGGCCAATTTTAGCCTAGGCCAGATTACAAAACTAAACCCAAACCAAATAAATAAAAAATAGTCC
4307462 AAAATTAATGGTCCATTTACAAACCAAATAACGTAAACTAAGACCCATTACATACCAAGCCTAAA
261 AAAATTAATGGTCCATTTACAAACCAAATAACGTAAACTAAGACCCATTACATACCAAGCCTAAA
4307527 GGAAGCCCAAGCAGATGACCCAAACTAAAACCCAAACCAAAACTAAACCAGCCCAAAGTTAAAAC
326 GGAAGCCCAAGCAGATGACCCAAACTAAAACCCAAACCAAAACTAAACCAGCCCAAAGTTAAAAC
* *
4307592 CCAATTACAAACCTATTAACCTAAACCCTAATAGCCCAATACAACCCAAAACAAAAGTAAGCAGA
391 CCAATTACAAACCCAATAACCTAAACCCTAATAGCCCAATACAACCCAAAACAAAAGTAAGCAGA
4307657 AGAAAGAAAAAA
456 AGAAAGAAAAAA
4307669 CCCTA
1 CCCTA
4307674 GGTGTGCCGC
Statistics
Matches: 459, Mismatches: 13, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
467 459 1.00
ACGTcount: A:0.45, C:0.23, G:0.14, T:0.18
Consensus pattern (467 bp):
CCCTAAAGTTGTAGTGGAGTGGATCGAAGCAACAATTCCTATACCCTTAAAGATGCAGTGGGATG
AAATAAGGCTACTTTAAGAAAAGAAGCACCAAAAAATCAAGATTCGGCAAAACCAGGCAAAATTG
ACCCTTTTAAAAGTCTTTGCTCCATTCACGCTACACGTCAACGAGCAAAAAAGGGAAACTATAAT
AGGCCAATTTTAGCCTAGGCCAGATTACAAAACTAAACCCAAACCAAATAAATAAAAAATAGTCC
AAAATTAATGGTCCATTTACAAACCAAATAACGTAAACTAAGACCCATTACATACCAAGCCTAAA
GGAAGCCCAAGCAGATGACCCAAACTAAAACCCAAACCAAAACTAAACCAGCCCAAAGTTAAAAC
CCAATTACAAACCCAATAACCTAAACCCTAATAGCCCAATACAACCCAAAACAAAAGTAAGCAGA
AGAAAGAAAAAA
Found at i:4311284 original size:35 final size:35
Alignment explanation
Indices: 4311186--4311660 Score: 422
Period size: 35 Copynumber: 13.5 Consensus size: 35
4311176 TGGCAAAGTG
* * * *
4311186 TGAAATGTAGGTATGGTAT-TTCCATACAGAGCTA
1 TGAAACGTAGGTATGGTATCATCCATACTGAGTTA
*
4311220 TGAAACGTAGGTATGGTATTATCAAATCCAAACTGAGTTA
1 TGAAACGTAGGTATGG---TATC--ATCCATACTGAGTTA
* *
4311260 AGAAACGTAGGTATGGTATCATCCATA-TCGAGTTG
1 TGAAACGTAGGTATGGTATCATCCATACT-GAGTTA
* * * *
4311295 TGAAATGTAGGTATGGTATTAACCATACTGAGTTG
1 TGAAACGTAGGTATGGTATCATCCATACTGAGTTA
* *
4311330 TGAAATGTAGGTATGGTATCATCCATACTGAGTTG
1 TGAAACGTAGGTATGGTATCATCCATACTGAGTTA
* * * * *
4311365 TGAAACATAGGTATGGTATTAACCATACCGAGTTG
1 TGAAACGTAGGTATGGTATCATCCATACTGAGTTA
* * * *
4311400 TGAAACGTAGGTATGGTATTAACCATACTGAGCTG
1 TGAAACGTAGGTATGGTATCATCCATACTGAGTTA
* * *
4311435 TGAAACGTAGGTATGGTAT-TTCCATACCGAGCTA
1 TGAAACGTAGGTATGGTATCATCCATACTGAGTTA
* * *
4311469 TGAAACGTAGGTATGGTAT-TTCCATACCGAGCTA
1 TGAAACGTAGGTATGGTATCATCCATACTGAGTTA
* ** * *
4311503 TGAAACGTAAGTATGGCGTCGTCCATACTGAGCTA
1 TGAAACGTAGGTATGGTATCATCCATACTGAGTTA
* * *
4311538 TGATACGTAGGTATGGCATCGTCCATACTGAGTTA
1 TGAAACGTAGGTATGGTATCATCCATACTGAGTTA
** ** * *
4311573 TGAAATATAGGTATGGTATTTTCCATACCGAG-CA
1 TGAAACGTAGGTATGGTATCATCCATACTGAGTTA
* * ** *
4311607 TGAAAAGTAGGTATGGTGTTTTCCATA-TCGAGTTG
1 TGAAACGTAGGTATGGTATCATCCATACT-GAGTTA
4311642 TGAAACGTAGGTATGGTAT
1 TGAAACGTAGGTATGGTAT
4311661 TTCAATGAGG
Statistics
Matches: 379, Mismatches: 51, Indels: 21
0.84 0.11 0.05
Matches are distributed among these distances:
34 105 0.28
35 240 0.63
36 1 0.00
37 7 0.02
40 26 0.07
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.31
Consensus pattern (35 bp):
TGAAACGTAGGTATGGTATCATCCATACTGAGTTA
Found at i:4311586 original size:173 final size:172
Alignment explanation
Indices: 4311261--4311663 Score: 482
Period size: 173 Copynumber: 2.3 Consensus size: 172
4311251 ACTGAGTTAA
* * * *
4311261 GAAACGTAGGTATGGTATCATCCATATCGAGTTGTGAAATGTAGGTATGGTATTAACCATACTGA
1 GAAACGTAGGTATGGTAT-TTCCATATCGAGTTGTGAAACGTAGGTATGGTATT-TCCATACCGA
* * * * * * * * *
4311326 GTTGTGAAATGTAGGTATGGTATCATCCATACTGAGTTGTGAAACATAGGTATGGTATTAACCAT
64 GCTATGAAACGTAAGTATGGCATCATCCATACTGAGCTATGAAACATAGGTATGGCATCAACCAT
* * * *
4311391 ACCGAGTTGTGAAACGTAGGTATGGTATTAACCATACTGAGCTGT
129 ACCGAGTTATGAAACATAGGTATGGTATTAACCATACCGAGC-AT
* * *
4311436 GAAACGTAGGTATGGTATTTCCATACCGAGCTATGAAACGTAGGTATGGTATTTCCATACCGAGC
1 GAAACGTAGGTATGGTATTTCCATATCGAGTTGTGAAACGTAGGTATGGTATTTCCATACCGAGC
* * * * **
4311501 TATGAAACGTAAGTATGGCGTCGTCCATACTGAGCTATGATACGTAGGTATGGCATCGTCCATAC
66 TATGAAACGTAAGTATGGCATCATCCATACTGAGCTATGAAACATAGGTATGGCATCAACCATAC
* * **
4311566 TGAGTTATGAAATATAGGTATGGTATTTTCCATACCGAGCAT
131 CGAGTTATGAAACATAGGTATGGTATTAACCATACCGAGCAT
* *
4311608 GAAAAGTAGGTATGGTGTTTTCCATATCGAGTTGTGAAACGTAGGTATGGTATTTC
1 GAAACGTAGGTATGGT-ATTTCCATATCGAGTTGTGAAACGTAGGTATGGTATTTC
4311664 AATGAGGAAA
Statistics
Matches: 192, Mismatches: 35, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
172 16 0.08
173 128 0.67
174 30 0.16
175 18 0.09
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (172 bp):
GAAACGTAGGTATGGTATTTCCATATCGAGTTGTGAAACGTAGGTATGGTATTTCCATACCGAGC
TATGAAACGTAAGTATGGCATCATCCATACTGAGCTATGAAACATAGGTATGGCATCAACCATAC
CGAGTTATGAAACATAGGTATGGTATTAACCATACCGAGCAT
Found at i:4311806 original size:31 final size:31
Alignment explanation
Indices: 4311757--4311817 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
4311747 ATAAGTAATT
*
4311757 TGATTAGTGAAAAATGGTAGCTCCGGCTACC
1 TGATCAGTGAAAAATGGTAGCTCCGGCTACC
* * *
4311788 TGATCAGTGAATAGTGGTAGCTTCGGCTAC
1 TGATCAGTGAAAAATGGTAGCTCCGGCTAC
4311818 AAGTGACAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (31 bp):
TGATCAGTGAAAAATGGTAGCTCCGGCTACC
Found at i:4318105 original size:2 final size:2
Alignment explanation
Indices: 4318100--4318140 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
4318090 CCTAGATGAC
4318100 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
4318141 AAGCGTGTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4319931 original size:22 final size:22
Alignment explanation
Indices: 4319893--4319946 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
4319883 CCATGCCAAA
4319893 TTTCAAAA-AA-TT-AAATTAAG
1 TTTCAAAATAATTTAAAATT-AG
4319913 TTT-AAAATAATTTAAAATTAG
1 TTTCAAAATAATTTAAAATTAG
*
4319934 TTTCAAATTAATT
1 TTTCAAAATAATT
4319947 GAAACAAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
19 4 0.14
20 5 0.17
21 7 0.24
22 13 0.45
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.43
Consensus pattern (22 bp):
TTTCAAAATAATTTAAAATTAG
Found at i:4322637 original size:80 final size:80
Alignment explanation
Indices: 4322504--4322663 Score: 302
Period size: 80 Copynumber: 2.0 Consensus size: 80
4322494 TTATTTTCGA
4322504 GGCTAACATTTTTACTCAAACATTATCAAATTTTAGACAAACTTTCGAGCCTCGATAAATAACTC
1 GGCTAACATTTTTACTCAAACATTATCAAATTTTAGACAAACTTTCGAGCCTCGATAAATAACTC
4322569 GACCCATAAATAATT
66 GACCCATAAATAATT
* *
4322584 GGCTAACATTTTTACTCAAACATTCTCAAATTTTAGATAAACTTTCGAGCCTCGATAAATAACTC
1 GGCTAACATTTTTACTCAAACATTATCAAATTTTAGACAAACTTTCGAGCCTCGATAAATAACTC
4322649 GACCCATAAATAATT
66 GACCCATAAATAATT
4322664 CTAGAATGAC
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
80 78 1.00
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.32
Consensus pattern (80 bp):
GGCTAACATTTTTACTCAAACATTATCAAATTTTAGACAAACTTTCGAGCCTCGATAAATAACTC
GACCCATAAATAATT
Found at i:4323443 original size:15 final size:15
Alignment explanation
Indices: 4323423--4323453 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4323413 TTAATTTGAG
4323423 TTAATTTGATTAATT
1 TTAATTTGATTAATT
*
4323438 TTAATTTGGTTAATT
1 TTAATTTGATTAATT
4323453 T
1 T
4323454 GGTTAAATGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.10, T:0.61
Consensus pattern (15 bp):
TTAATTTGATTAATT
Found at i:4323453 original size:24 final size:25
Alignment explanation
Indices: 4323413--4323459 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
4323403 ACCAATTCAG
4323413 TTAATTTGAGTTAATTTGATTAATT
1 TTAATTTGAGTTAATTTGATTAATT
*
4323438 TTAATTTG-GTTAATTTGGTTAA
1 TTAATTTGAGTTAATTTGATTAA
4323460 ATGAACATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 13 0.62
25 8 0.38
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.55
Consensus pattern (25 bp):
TTAATTTGAGTTAATTTGATTAATT
Found at i:4324497 original size:16 final size:18
Alignment explanation
Indices: 4324460--4324493 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4324450 AAATTTTAAC
*
4324460 TTTT-TTAATTTATATAA
1 TTTTATTAATATATATAA
4324477 TTTTATTAATATATATA
1 TTTTATTAATATATATA
4324494 TTTACCTTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TTTTATTAATATATATAA
Found at i:4335563 original size:22 final size:21
Alignment explanation
Indices: 4335538--4335583 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 21
4335528 TGGTATAGTC
4335538 TTAAATTAAGTACG-AAATATAA
1 TTAAATT-AGT-CGAAAATATAA
4335560 TTAAATTAGTCGATAAATATAA
1 TTAAATTAGTCGA-AAATATAA
4335582 TT
1 TT
4335584 TTTAAAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 2 0.09
21 3 0.14
22 17 0.77
ACGTcount: A:0.50, C:0.04, G:0.09, T:0.37
Consensus pattern (21 bp):
TTAAATTAGTCGAAAATATAA
Found at i:4342130 original size:31 final size:31
Alignment explanation
Indices: 4342089--4342147 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
4342079 AGGTTTTTTT
* *
4342089 TTTTTTTTTAA-ATTTAATATTAATATAATTG
1 TTTTTATTTAATATTAAAT-TTAATATAATTG
4342120 TTTTTATTTAATATTAAATTTAATATAA
1 TTTTTATTTAATATTAAATTTAATATAA
4342148 AATTGAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
31 19 0.76
32 6 0.24
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (31 bp):
TTTTTATTTAATATTAAATTTAATATAATTG
Found at i:4343279 original size:24 final size:24
Alignment explanation
Indices: 4343239--4343287 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
4343229 TTAATAATTT
4343239 TAAATTTTATAAATTTTAAAAATA
1 TAAATTTTATAAATTTTAAAAATA
* *
4343263 TAAATTTTGA-AATTTTTATAAATA
1 TAAATTTT-ATAAATTTTAAAAATA
4343287 T
1 T
4343288 TTTAAATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 21 0.95
25 1 0.05
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (24 bp):
TAAATTTTATAAATTTTAAAAATA
Found at i:4343296 original size:19 final size:19
Alignment explanation
Indices: 4343261--4343315 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
4343251 ATTTTAAAAA
*
4343261 TATAAAT-TTTGAAATTTT
1 TATAAATATTTTAAATTTT
4343279 TATAAATATTTTAAATTTT
1 TATAAATATTTTAAATTTT
* * *
4343298 AAAAAATATTTTGAATTT
1 TATAAATATTTTAAATTT
4343316 ATTTTGTAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
18 7 0.22
19 25 0.78
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.53
Consensus pattern (19 bp):
TATAAATATTTTAAATTTT
Found at i:4345015 original size:29 final size:28
Alignment explanation
Indices: 4344973--4345027 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 28
4344963 ATTTAAAATT
4344973 TAAAAAGTAAAAAACTAAATTCCTAAAAA
1 TAAAAAGTAAAAAACTAAATT-CTAAAAA
4345002 TAAAAA-TATAAAAACTAAATTCTAAA
1 TAAAAAGTA-AAAAACTAAATTCTAAA
4345028 TTTATGAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
28 7 0.28
29 18 0.72
ACGTcount: A:0.65, C:0.09, G:0.02, T:0.24
Consensus pattern (28 bp):
TAAAAAGTAAAAAACTAAATTCTAAAAA
Found at i:4355357 original size:80 final size:80
Alignment explanation
Indices: 4355201--4355462 Score: 352
Period size: 80 Copynumber: 3.3 Consensus size: 80
4355191 CGGATGATAA
* * * **
4355201 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCGGGCTAAG-CCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCACTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
4355264 TGCGAGTTACTATAT
66 TGCGAGTTACTATAT
* *
4355279 CCGGGCTAAGTGCCGAAGGCACTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGTATTTG
1 CCGGGCTAAGTCCCGAAGGCACTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
* *
4355344 TGTGAGTTACTATAA
66 TGCGAGTTACTATAT
*
4355359 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCACTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
* *
4355424 AGCAAG-TAGCTATAT
66 TGCGAGTTA-CTATAT
* * *
4355439 CC-GGCTAAATTCCGAAGGTACTTG
1 CCGGGCTAAGTCCCGAAGGCACTTG
4355463 GTTTGGGAAT
Statistics
Matches: 161, Mismatches: 20, Indels: 5
0.87 0.11 0.03
Matches are distributed among these distances:
78 33 0.20
79 30 0.19
80 98 0.61
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCACTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGTTACTATAT
Found at i:4355408 original size:120 final size:118
Alignment explanation
Indices: 4355197--4355458 Score: 359
Period size: 120 Copynumber: 2.2 Consensus size: 118
4355187 TATTCGGATG
* **
4355197 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCGGGCTAAGCCCGAAGGCATT
1 ATAACCGGGCTAAGTCCCGAAGGTATTTGTGCTAGTGACTAAACCGGGCTAAGCCCGAAGGCATT
* * * *
4355262 TGTGCGAGTTACTATATCCGGGCTAAGTGCCGAAGGCACTTGTGCGAGTTA-CT
66 TGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCACTTGAGCAAG-TAGCT
*
4355315 ATAACCGGGCTAAGTCCCGAAGGTATTTGTG-TGAGTTACTATAACCGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGTATTTGTGCT-AGTGACTA-AACCGGGCTAAG-CCCGAAGGC
*
4355379 ATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTAGCT
63 ATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCACTTGAGCAAGTAGCT
* * *
4355435 ATATCC-GGCTAAATTCCGAAGGTA
1 ATAACCGGGCTAAGTCCCGAAGGTA
4355459 CTTGGTTTGG
Statistics
Matches: 128, Mismatches: 12, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
117 1 0.01
118 37 0.29
119 28 0.22
120 62 0.48
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (118 bp):
ATAACCGGGCTAAGTCCCGAAGGTATTTGTGCTAGTGACTAAACCGGGCTAAGCCCGAAGGCATT
TGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCACTTGAGCAAGTAGCT
Found at i:4355437 original size:40 final size:40
Alignment explanation
Indices: 4355197--4355423 Score: 359
Period size: 40 Copynumber: 5.7 Consensus size: 40
4355187 TATTCGGATG
* *
4355197 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
**
4355237 A-ATTCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
4355275 ATATCCGGGCTAAGTGCCGAAGGCACTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
4355315 ATAACCGGGCTAAGTCCCGAAGGTATTTGTGTGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
4355355 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
4355395 ATAACCGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
4355424 AGCAAGTAGC
Statistics
Matches: 171, Mismatches: 14, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
38 24 0.14
39 21 0.12
40 126 0.74
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:4364019 original size:23 final size:23
Alignment explanation
Indices: 4363960--4364022 Score: 80
Period size: 21 Copynumber: 2.9 Consensus size: 23
4363950 CCTGATAGAG
4363960 TACGACACATAAAGTGCCT-AAA
1 TACGACACATAAAGTGCCTGAAA
**
4363982 -ACGACA-A-CGAGTGCCTGAAA
1 TACGACACATAAAGTGCCTGAAA
4364002 TACGACACATAAAGTGCCTGA
1 TACGACACATAAAGTGCCTGA
4364023 TCAGTAAGCG
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
19 7 0.21
20 4 0.12
21 12 0.36
22 1 0.03
23 9 0.27
ACGTcount: A:0.41, C:0.24, G:0.19, T:0.16
Consensus pattern (23 bp):
TACGACACATAAAGTGCCTGAAA
Found at i:4364203 original size:18 final size:18
Alignment explanation
Indices: 4364180--4364257 Score: 54
Period size: 18 Copynumber: 4.1 Consensus size: 18
4364170 CCCATTTTCA
4364180 CAATTCATACAATTCATT
1 CAATTCATACAATTCATT
4364198 CAATTCA-ACAATAT-ATTT
1 CAATTCATACAAT-TCA-TT
* *
4364216 CAATT-ATTCACATTAATT
1 CAATTCATACA-ATTCATT
4364234 CATAATTCAATACAATTCAATT
1 C--AATTC-ATACAATTC-ATT
4364256 CA
1 CA
4364258 CTTTTCAATA
Statistics
Matches: 47, Mismatches: 3, Indels: 18
0.69 0.04 0.26
Matches are distributed among these distances:
17 7 0.15
18 21 0.45
19 3 0.06
20 5 0.11
21 3 0.06
22 8 0.17
ACGTcount: A:0.42, C:0.19, G:0.00, T:0.38
Consensus pattern (18 bp):
CAATTCATACAATTCATT
Found at i:4364420 original size:16 final size:15
Alignment explanation
Indices: 4364384--4364442 Score: 82
Period size: 15 Copynumber: 3.8 Consensus size: 15
4364374 TCATATATAT
4364384 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
4364400 TATAAATTCAATCAAA
1 TATAAATTCAATC-AA
* *
4364416 AATAATTTCAATCAA
1 TATAAATTCAATCAA
4364431 TATAAATTCAAT
1 TATAAATTCAAT
4364443 AAATTCATCG
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
15 21 0.55
16 17 0.45
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:4373782 original size:33 final size:28
Alignment explanation
Indices: 4373734--4373795 Score: 70
Period size: 32 Copynumber: 2.0 Consensus size: 28
4373724 TTCTAATTAA
*
4373734 TAATAAAAAATATTAAACTATATTTAATAT
1 TAATAAAAAATATTAAAATA-ATTT-ATAT
4373764 TAATAAATTAAATCATTAAAATAATTTATAT
1 TAATAAA--AAAT-ATTAAAATAATTTATAT
4373795 T
1 T
4373796 TATATTTATC
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
30 7 0.25
31 5 0.18
32 8 0.29
33 8 0.29
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (28 bp):
TAATAAAAAATATTAAAATAATTTATAT
Found at i:4376257 original size:40 final size:40
Alignment explanation
Indices: 4376152--4376396 Score: 288
Period size: 40 Copynumber: 6.5 Consensus size: 40
4376142 CGGATGATAA
* *
4376152 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
4376192 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
4376231 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
4376271 CCGGGCTAAGTCCCGAAGGCA-TT-T---AG----T-TA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
4376300 CCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
4376339 CCGGGCTAAGTCCCGAAGGCATTTGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
4376379 CC-GGCTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
4376397 TACTTGGTTT
Statistics
Matches: 182, Mismatches: 8, Indels: 31
0.82 0.04 0.14
Matches are distributed among these distances:
28 9 0.05
29 13 0.07
30 3 0.02
31 1 0.01
33 2 0.01
35 2 0.01
37 1 0.01
38 3 0.02
39 64 0.35
40 84 0.46
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:4376341 original size:68 final size:69
Alignment explanation
Indices: 4376231--4376362 Score: 257
Period size: 68 Copynumber: 1.9 Consensus size: 69
4376221 GTTACTATAT
4376231 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTA
4376296 GTTA
66 GTTA
4376300 CCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTT
4376363 GAGCAAGTAG
Statistics
Matches: 63, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
68 52 0.83
69 11 0.17
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.24
Consensus pattern (69 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTA
GTTA
Found at i:4385003 original size:23 final size:23
Alignment explanation
Indices: 4384943--4385007 Score: 89
Period size: 23 Copynumber: 2.9 Consensus size: 23
4384933 CTGATTAGAG
4384943 TACGACACATAAAGTGCCT-AAA
1 TACGACACATAAAGTGCCTGAAA
** *
4384965 -ACGACACACGAGGTGCCTGAAA
1 TACGACACATAAAGTGCCTGAAA
4384987 TACGACACATAAAGTGCCTGA
1 TACGACACATAAAGTGCCTGA
4385008 TCAGTAAAGC
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
21 15 0.43
22 3 0.09
23 17 0.49
ACGTcount: A:0.40, C:0.25, G:0.20, T:0.15
Consensus pattern (23 bp):
TACGACACATAAAGTGCCTGAAA
Found at i:4385403 original size:15 final size:15
Alignment explanation
Indices: 4385378--4385435 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
4385368 TCATATATAT
4385378 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
4385394 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
4385409 AATAATTTCAATCAA
1 TATAAATTCAATCAA
4385424 TATAAATTCAAT
1 TATAAATTCAAT
4385436 AAATTCATCG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:4387557 original size:40 final size:40
Alignment explanation
Indices: 4387452--4387698 Score: 358
Period size: 40 Copynumber: 6.2 Consensus size: 40
4387442 CGGATGATAA
* *
4387452 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
4387492 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
4387531 CCGGGCTAAGTGCCGAAGGCACTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
4387571 CCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
4387611 CCGGGCTAAGTTCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
4387651 CCGGGCTAAGTCCCGAAGGCATTTGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
4387691 CC-GGCTAA
1 CCGGGCTAA
4387699 ATTCTGAAGG
Statistics
Matches: 190, Mismatches: 14, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
39 43 0.23
40 147 0.77
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:4389764 original size:13 final size:13
Alignment explanation
Indices: 4389748--4389780 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
4389738 CAGACACACA
4389748 CCCGTGTCAATTG
1 CCCGTGTCAATTG
4389761 CCCGTGTCAATTG
1 CCCGTGTCAATTG
4389774 CCCGTGT
1 CCCGTGT
4389781 GAACCCTCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.12, C:0.33, G:0.24, T:0.30
Consensus pattern (13 bp):
CCCGTGTCAATTG
Found at i:4389921 original size:30 final size:30
Alignment explanation
Indices: 4389876--4389951 Score: 116
Period size: 30 Copynumber: 2.5 Consensus size: 30
4389866 TACACAGCTT
*
4389876 GTCACACGCCCGTGTGGCTCACACGGCCTA
1 GTCAAACGCCCGTGTGGCTCACACGGCCTA
* * *
4389906 GTCAAATGCCTGTGTGGCTCACACGGTCTA
1 GTCAAACGCCCGTGTGGCTCACACGGCCTA
4389936 GTCAAACGCCCGTGTG
1 GTCAAACGCCCGTGTG
4389952 CCTGGCTGTG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.18, C:0.33, G:0.28, T:0.21
Consensus pattern (30 bp):
GTCAAACGCCCGTGTGGCTCACACGGCCTA
Found at i:4392041 original size:33 final size:33
Alignment explanation
Indices: 4391999--4392066 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
4391989 AATTGGACTT
4391999 GCTTAAAAAAATGTAAACCTATCCAAAGGTTGG
1 GCTTAAAAAAATGTAAACCTATCCAAAGGTTGG
4392032 GCTTAAAAAAATGTAAACCTATCCAAAGGTTGG
1 GCTTAAAAAAATGTAAACCTATCCAAAGGTTGG
4392065 GC
1 GC
4392067 CTTGGATAAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.41, C:0.16, G:0.19, T:0.24
Consensus pattern (33 bp):
GCTTAAAAAAATGTAAACCTATCCAAAGGTTGG
Found at i:4398052 original size:53 final size:53
Alignment explanation
Indices: 4397978--4398227 Score: 279
Period size: 53 Copynumber: 4.7 Consensus size: 53
4397968 AACTTACCAT
* * * *
4397978 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATGAACTCACCAA
1 TGCCATGCCTTGGCATGGTCTTACATGGTATCCTTGCCTTATGAACTCATCAA
* * *
4398031 TGCCATGCCTTGGCATAGTCTTACATGAG-A-CATTTTCCTTATAGTAACTCATCAA
1 TGCCATGCCTTGGCATGGTCTTACATG-GTATC-CTTGCCTTAT-G-AACTCATCAA
* * * * *
4398086 TGCCATGTCTTGACATTGTCTTACATGGTATCCTAGCCTTATGAACTCATCGA
1 TGCCATGCCTTGGCATGGTCTTACATGGTATCCTTGCCTTATGAACTCATCAA
* * * * *
4398139 TGCTATGCCTTGGCATGGTCTTACATGATTTCCTTACCTTATAGAACTTATCAA
1 TGCCATGCCTTGGCATGGTCTTACATGGTATCCTTGCCTTAT-GAACTCATCAA
*
4398193 TGCCATGCCTTGGCATGGTCTTACATGATATCCTT
1 TGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
4398228 ATCTTACCAA
Statistics
Matches: 164, Mismatches: 26, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
52 1 0.01
53 75 0.46
54 46 0.28
55 41 0.25
56 1 0.01
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.36
Consensus pattern (53 bp):
TGCCATGCCTTGGCATGGTCTTACATGGTATCCTTGCCTTATGAACTCATCAA
Found at i:4398119 original size:108 final size:107
Alignment explanation
Indices: 4397978--4398227 Score: 340
Period size: 108 Copynumber: 2.3 Consensus size: 107
4397968 AACTTACCAT
*
4397978 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTG
1 TGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTG
* *
4398043 GCATAGTCTTACATGA-GACATTTTCCTTATAGTAACTCATCAA
66 GCATAGTCTTACATGATGAC-CTTACCTTATAG-AACTCATCAA
* * * * *
4398086 TGCCATGTCTTGACATTGTCTTACATGGTATCCTAGCCTTATGAACTCATCGATGCTATGCCTTG
1 TGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTG
* ** *
4398151 GCATGGTCTTACATGATTTCCTTACCTTATAGAACTTATCAA
66 GCATAGTCTTACATGATGACCTTACCTTATAGAACTCATCAA
* * *
4398193 TGCCATGCCTTGGCATGGTCTTACATGATATCCTT
1 TGCCATGTCTTGACATGGTCTTACATGGTATCCTT
4398228 ATCTTACCAA
Statistics
Matches: 124, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
107 39 0.31
108 84 0.68
109 1 0.01
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.36
Consensus pattern (107 bp):
TGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTG
GCATAGTCTTACATGATGACCTTACCTTATAGAACTCATCAA
Found at i:4402244 original size:48 final size:46
Alignment explanation
Indices: 4402187--4402293 Score: 142
Period size: 48 Copynumber: 2.3 Consensus size: 46
4402177 TGTCTTCGAC
* *
4402187 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATAAT
1 ATGGACTTACATGAATCATTCCTGTCTCCAAAGCC--ATATATATAAT
** * *
4402235 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATCTGAT
1 ATGGACTTACATGAATCATTCCTGTCTCCAAAGCCATATATATAAT
4402281 ATGGACTTACATG
1 ATGGACTTACATG
4402294 GCTCATTTCT
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
46 22 0.42
48 31 0.58
ACGTcount: A:0.30, C:0.21, G:0.14, T:0.35
Consensus pattern (46 bp):
ATGGACTTACATGAATCATTCCTGTCTCCAAAGCCATATATATAAT
Found at i:4402291 original size:46 final size:47
Alignment explanation
Indices: 4402187--4402306 Score: 161
Period size: 46 Copynumber: 2.6 Consensus size: 47
4402177 TGTCTTCGAC
** * *
4402187 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCA-ATATATATAAT
* *
4402235 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCC-ATATATCTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATATAAT
*
4402281 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
4402307 CTGTCCTGTC
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
46 34 0.52
48 31 0.48
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.36
Consensus pattern (47 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATATAAT
Found at i:4402678 original size:30 final size:30
Alignment explanation
Indices: 4402642--4402702 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
4402632 TCTTTTACTC
*
4402642 AAACTTTT-CAAAAATTACATTTTTGCCCCT
1 AAACTTTTGC-AAAATTACACTTTTGCCCCT
* *
4402672 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTGCAAAATTACACTTTTGCCCCT
4402702 A
1 A
4402703 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.30, C:0.25, G:0.05, T:0.41
Consensus pattern (30 bp):
AAACTTTTGCAAAATTACACTTTTGCCCCT
Found at i:4409650 original size:46 final size:47
Alignment explanation
Indices: 4409545--4409658 Score: 133
Period size: 48 Copynumber: 2.4 Consensus size: 47
4409535 TGTCTTCGAC
** * * *
4409545 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATAAT
1 ATGGACTTACATGGCTCATTCATGTCTCCAAAGCCA-ATATATATAAT
* *
4409593 ATTGG-CTTACATGGCTCATTCATGTCTCCAAAGCC-ATATATCTGAT
1 A-TGGACTTACATGGCTCATTCATGTCTCCAAAGCCAATATATATAAT
4409639 ATGGACTTACATGGCTCATT
1 ATGGACTTACATGGCTCATT
4409659 TCTGTCCTGT
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
45 3 0.05
46 25 0.44
48 26 0.46
49 3 0.05
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.36
Consensus pattern (47 bp):
ATGGACTTACATGGCTCATTCATGTCTCCAAAGCCAATATATATAAT
Found at i:4410034 original size:30 final size:30
Alignment explanation
Indices: 4410000--4410060 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
4409990 TCCTTTACTC
*
4410000 AAACTTTT-CAAAAATTACATTTTTGCCCCT
1 AAACTTTTGC-AAAATTACACTTTTGCCCCT
* *
4410030 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTGCAAAATTACACTTTTGCCCCT
4410060 A
1 A
4410061 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.30, C:0.25, G:0.05, T:0.41
Consensus pattern (30 bp):
AAACTTTTGCAAAATTACACTTTTGCCCCT
Found at i:4411914 original size:3 final size:3
Alignment explanation
Indices: 4411906--4411930 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
4411896 ACCGTTTAAC
4411906 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
4411931 TTAACATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:4413122 original size:19 final size:18
Alignment explanation
Indices: 4413080--4413127 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
4413070 AAACAAAACC
* *
4413080 ACATATAAATATATATAT
1 ACATAAAAATATACATAT
4413098 ACATAAAAATATACACTAT
1 ACATAAAAATATACA-TAT
* *
4413117 ATATAATAATA
1 ACATAAAAATA
4413128 ATAGTAATAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
18 13 0.52
19 12 0.48
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.33
Consensus pattern (18 bp):
ACATAAAAATATACATAT
Found at i:4413962 original size:18 final size:18
Alignment explanation
Indices: 4413911--4413963 Score: 55
Period size: 18 Copynumber: 3.3 Consensus size: 18
4413901 TTGATGGTGT
4413911 AGGTGCAAGTGGGAGGCA
1 AGGTGCAAGTGGGAGGCA
*
4413929 AGGTG---GT-GGA-G-T
1 AGGTGCAAGTGGGAGGCA
4413941 AGGTGCAAGTGGGAGGCA
1 AGGTGCAAGTGGGAGGCA
4413959 AGGTG
1 AGGTG
4413964 GCTAGGGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 12
0.66 0.05 0.29
Matches are distributed among these distances:
12 5 0.19
13 1 0.04
14 3 0.11
15 4 0.15
16 3 0.11
17 1 0.04
18 10 0.37
ACGTcount: A:0.25, C:0.08, G:0.53, T:0.15
Consensus pattern (18 bp):
AGGTGCAAGTGGGAGGCA
Found at i:4414594 original size:43 final size:42
Alignment explanation
Indices: 4414532--4415247 Score: 264
Period size: 43 Copynumber: 16.6 Consensus size: 42
4414522 CGTCTTCGAT
* *
4414532 CTGTTTCCCTATTGCTTAGGGTGTTAAGATCTGTAAATTTAGC
1 CTGTTACCCTACTGCTTAGGG-GTTAAGATCTGTAAATTTAGC
* * * ** * *
4414575 CTGTTACCCTACTGTTTAGGGGTTAAG-GCTTGTCACCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGTTAAGATC-TGTAAATTTAG-C
* * *
4414618 CTATTTCCCTAGTGCTTACGGGGTTTAAGATCTGTAAATCTTTAGC
1 CTGTTACCCTACTGCTTA-GGGG-TTAAGATCTGTAAA--TTTAGC
* * * ** * *
4414664 CTGTTACCCTACTACTTAGGGGTTTAAG-CCTTGTCACCTTCGAT
1 CTGTTACCCTACTGCTTAGGGG-TTAAGATC-TGTAAATTTAG-C
* * * *
4414708 CTGTTTCTCTACTGTTTA--GG----G-TCTGTAAATTTAAC
1 CTGTTACCCTACTGCTTAGGGGTTAAGATCTGTAAATTTAGC
* ** * *
4414743 CTGTTACCCTACTGCTTAGGGGTTTAAG-GCT-TATCGTCTTTGAT
1 CTGTTACCCTACTGCTTAGGGG-TTAAGATCTGTA-AAT-TTAG-C
* *
4414787 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGC
1 CTGTTACCCTACTGCTTA-GGGGTTAAGATCTGTAAATTTAGC
* ** ** **** * *
4414830 CTATTACCCTACTGCTTAGGGGTTTAAGGCCCATCGCCTTCGAT
1 CTGTTACCCTACTGCTTAGGGG-TTAAGATCTGTAAATTTAG-C
* *
4414874 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGC
1 CTGTTACCCTACTGCTTA-GGGGTTAAGATCTGTAAATTTAGC
* ** **** * *
4414917 CTGTTACCCTACTGCTTAGGGGGTTAAGGTCCATTGCCTTCGAT
1 CTGTTACCCTACTGCTTA-GGGGTTAAGATCTGTAAATTTAG-C
* * *
4414961 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAAC
1 CTGTTACCCTACTGCTTA-GGGGTTAAGATCTGTAAATTTAGC
** * *
4415004 CTGTTACCCTACTGCTTAGGGGTTTAAGGCCCTTCGT--CTTT-GAT
1 CTGTTACCCTACTGCTTAGGGG-TTAA-GATC-T-GTAAATTTAG-C
** * * * *
4415048 CTACT-CCACTACTGCTTAGGGAGATAAGATCTG-CAATTTGGT
1 CTGTTACC-CTACTGCTTAGGG-GTTAAGATCTGTAAATTTAGC
* ** * *
4415090 CTGTTACCCTACTGCTTAGGGGTTTAAGACCCT-T-CGTCTTCGAT
1 CTGTTACCCTACTGCTTAGGGG-TTAAGA-TCTGTAAAT-TTAG-C
* **** * * *
4415134 CTATTTTTTTACTG-TATAGGGGGTTAATATCTGGAAATTCAGC
1 CTGTTACCCTACTGCT-TA-GGGGTTAAGATCTGTAAATTTAGC
*
4415177 CTGTTACCCTGCTGCTTAGGGGTTTAAGATCTGTAAATTTAGC
1 CTGTTACCCTACTGCTTAGGGG-TTAAGATCTGTAAATTTAGC
4415220 CTGTTACCCTACTGCTTAGGGGGTTAAG
1 CTGTTACCCTACTGCTTA-GGGGTTAAG
4415248 GCTTGTGGAT
Statistics
Matches: 476, Mismatches: 148, Indels: 98
0.66 0.20 0.14
Matches are distributed among these distances:
35 15 0.03
36 6 0.01
37 4 0.01
41 5 0.01
42 58 0.12
43 179 0.38
44 146 0.31
45 41 0.09
46 19 0.04
47 3 0.01
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.37
Consensus pattern (42 bp):
CTGTTACCCTACTGCTTAGGGGTTAAGATCTGTAAATTTAGC
Found at i:4414727 original size:44 final size:43
Alignment explanation
Indices: 4414497--4415031 Score: 213
Period size: 44 Copynumber: 12.4 Consensus size: 43
4414487 CTTGGTACCT
*** **
4414497 TACTGCTTAGGGGTTTAAGGCCCATCGTCTTCGATCTGTTTCCC
1 TACTGCTTAGGGGTTTAA-GCTTGTCACCTTCGATCTGTTTCCC
* * * ** * * *
4414541 TATTGCTTA-GGGTGTTAAGATCTGTAAATTTAG-CCTGTTACCC
1 TACTGCTTAGGGGT-TTAAGCT-TGTCACCTTCGATCTGTTTCCC
* *
4414584 TACTGTTTAGGGG-TTAAGGCTTGTCACCTTCGATCTATTTCCC
1 TACTGCTTAGGGGTTTAA-GCTTGTCACCTTCGATCTGTTTCCC
* * * * * * *
4414627 TAGTGCTTACGGGGTTTAAGATCTGTAAATCTT-TAGCCTGTTACCC
1 TACTGCTTA-GGGGTTTAAGCT-TGT-CACCTTCGA-TCTGTTTCCC
* *
4414673 TACTACTTAGGGGTTTAAGCCTTGTCACCTTCGATCTGTTTCTC
1 TACTGCTTAGGGGTTTAAG-CTTGTCACCTTCGATCTGTTTCCC
* ** ** * *
4414717 TACTGTTTA-GGG--T---C-TGT-AAATTTAACCTGTTACCC
1 TACTGCTTAGGGGTTTAAGCTTGTCACCTTCGATCTGTTTCCC
* ** *
4414752 TACTGCTTAGGGGTTTAAGGCTTATCGTCTTTGATCTGTTTCCC
1 TACTGCTTAGGGGTTTAA-GCTTGTCACCTTCGATCTGTTTCCC
* * ** * * *
4414796 TACTGCTTAGGGGGTTAAGATCTGT-AAATTC-AGCCTATTACCC
1 TACTGCTTAGGGGTTTAAGCT-TGTCACCTTCGA-TCTGTTTCCC
*** *
4414839 TACTGCTTAGGGGTTTAAGGCCCATCGCCTTCGATCTGTTTCCC
1 TACTGCTTAGGGGTTTAA-GCTTGTCACCTTCGATCTGTTTCCC
* * ** * *
4414883 TACTGCTTAGGGGGTTAAGATCTGT-AAATTC-AGCCTGTTACCC
1 TACTGCTTAGGGGTTTAAGCT-TGTCACCTTCGA-TCTGTTTCCC
* * ** **
4414926 TACTGCTTAGGGGGTTAAGGTCCATTGCCTTCGATCTGTTTCCC
1 TACTGCTTAGGGGTTTAAGCT-TGTCACCTTCGATCTGTTTCCC
* * ** * * *
4414970 TACTGCTTAGGGGGTTAAGATCTGT-AAATTCAACCTGTTACCC
1 TACTGCTTAGGGGTTTAAGCT-TGTCACCTTCGATCTGTTTCCC
4415013 TACTGCTTAGGGGTTTAAG
1 TACTGCTTAGGGGTTTAAG
4415032 GCCCTTCGTC
Statistics
Matches: 355, Mismatches: 106, Indels: 61
0.68 0.20 0.12
Matches are distributed among these distances:
35 19 0.05
36 6 0.02
37 1 0.00
38 1 0.00
41 1 0.00
42 14 0.04
43 134 0.38
44 136 0.38
45 24 0.07
46 19 0.05
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (43 bp):
TACTGCTTAGGGGTTTAAGCTTGTCACCTTCGATCTGTTTCCC
Found at i:4414875 original size:87 final size:87
Alignment explanation
Indices: 4414729--4415204 Score: 634
Period size: 87 Copynumber: 5.5 Consensus size: 87
4414719 CTGTTTAGGG
* * ** *
4414729 TCTGTAAATTTAACCTGTTACCCTACTGCTTAGGGGTTTAAGGCTTATCGTCTTTGATCTGTTTC
1 TCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCGTCTTCGATCTGTTTC
4414794 CCTACTGCTTAGGGGGTTAAGA
66 CCTACTGCTTAGGGGGTTAAGA
* *
4414816 TCTGTAAATTCAGCCTATTACCCTACTGCTTAGGGGTTTAAGGCCCATCGCCTTCGATCTGTTTC
1 TCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCGTCTTCGATCTGTTTC
4414881 CCTACTGCTTAGGGGGTTAAGA
66 CCTACTGCTTAGGGGGTTAAGA
* * * *
4414903 TCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGTCCATTGCCTTCGATCTGTTTC
1 TCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCGTCTTCGATCTGTTTC
4414968 CCTACTGCTTAGGGGGTTAAGA
66 CCTACTGCTTAGGGGGTTAAGA
* * * **
4414990 TCTGTAAATTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCTTCGTCTTTGATCT-ACTC
1 TCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCGTCTTCGATCTGTTTC
* *
4415054 CACTACTGCTTAGGGAGATAAGA
66 C-CTACTGCTTAGGGGGTTAAGA
* ** * * * * *
4415077 TCTG-CAATTTGGTCTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGATCTATTTT
1 TCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCGTCTTCGATCTGTTTC
** *
4415141 TTTACTG-TATAGGGGGTTAATA
66 CCTACTGCT-TAGGGGGTTAAGA
* *
4415163 TCTGGAAATTCAGCCTGTTACCCTGCTGCTTAGGGGTTTAAG
1 TCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAG
4415205 ATCTGTAAAT
Statistics
Matches: 343, Mismatches: 42, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
85 1 0.00
86 70 0.20
87 272 0.79
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (87 bp):
TCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCGTCTTCGATCTGTTTC
CCTACTGCTTAGGGGGTTAAGA
Found at i:4414964 original size:174 final size:173
Alignment explanation
Indices: 4414482--4415204 Score: 810
Period size: 174 Copynumber: 4.2 Consensus size: 173
4414472 AGTTATAATT
* * * * *
4414482 TTCAGCTTGGTACCTTACTGCTTAGGGGTTTAAGGCCCATCGTCTTCGATCTGTTTCCCTATTGC
1 TTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCGCCTTCGATCTGTTTCCCTACTGC
* *
4414547 TTAGGGTGTTAAGATCTGTAAATTTAGCCTGTTACCCTACTGTTTA-GGGGTTAAGG-C-TTGTC
66 TTAGGGGGTTAAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCATTG--
* *
4414609 ACCTTCGATCTATTTCCCTAGTGCTTACGGGGTTTAAGATCTGTAAA
129 -CCTTCGATCTATTTCCCTACTGCTTA-GGGGGTTAAGATCTGTAAA
* * ** * *
4414656 TCTTTAGCCTGTTACCCTACTACTTAGGGGTTTAA-GCCTTGTCACCTTCGATCTGTTTCTCTAC
1 --TTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCC-CATCGCCTTCGATCTGTTTCCCTAC
* * * *
4414720 TGTTTA---GG----G-TCTGTAAATTTAACCTGTTACCCTACTGCTTAGGGGTTTAAGGCTTAT
63 TGCTTAGGGGGTTAAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGC-CAT
* * * *
4414777 CGTCTTTGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAA
127 TGCCTTCGATCTATTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAA
*
4414824 TTCAGCCTATTACCCTACTGCTTAGGGGTTTAAGGCCCATCGCCTTCGATCTGTTTCCCTACTGC
1 TTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCGCCTTCGATCTGTTTCCCTACTGC
*
4414889 TTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGTCCATTGC
66 TTAGGGGGTTAAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGG-CCATTGC
*
4414954 CTTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAA
130 CTTCGATCTATTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAA
* * * * **
4414998 TTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCTTCGTCTTTGATCT-ACTCCACTACTG
1 TTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCGCCTTCGATCTGTTTCC-CTACTG
* * * * * * * *
4415062 CTTAGGGAGATAAGATCTG-CAATTTGGTCTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCG
65 CTTAGGGGGTTAAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCATT-G
* *** * *
4415126 TCTTCGATCTATTTTTTTACTG-TATAGGGGGTTAATATCTGGAAA
129 CCTTCGATCTATTTCCCTACTGCT-TAGGGGGTTAAGATCTGTAAA
*
4415171 TTCAGCCTGTTACCCTGCTGCTTAGGGGTTTAAG
1 TTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAG
4415205 ATCTGTAAAT
Statistics
Matches: 466, Mismatches: 63, Indels: 39
0.82 0.11 0.07
Matches are distributed among these distances:
166 56 0.12
167 3 0.01
168 48 0.10
169 34 0.07
172 7 0.02
173 106 0.23
174 156 0.33
175 4 0.01
176 52 0.11
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (173 bp):
TTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCGCCTTCGATCTGTTTCCCTACTGC
TTAGGGGGTTAAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCATTGCC
TTCGATCTATTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAA
Found at i:4416215 original size:52 final size:53
Alignment explanation
Indices: 4416113--4416226 Score: 178
Period size: 52 Copynumber: 2.2 Consensus size: 53
4416103 GCATAGCTCG
*
4416113 AAATGAATAAATTAATCAAAGATTACAAATGCCATAAGAAAGAAATTAACTCA
1 AAATGAATAAATTAATCAAAGATTACAAATGCAATAAGAAAGAAATTAACTCA
* *
4416166 AAATGAATAAGTTAATCAAAGA-TAGC-AATGCAATAAGAAGGAAATTAACTCA
1 AAATGAATAAATTAATCAAAGATTA-CAAATGCAATAAGAAAGAAATTAACTCA
4416218 AAATGAATA
1 AAATGAATA
4416227 TAGCAAATTC
Statistics
Matches: 57, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
52 35 0.61
53 22 0.39
ACGTcount: A:0.56, C:0.10, G:0.12, T:0.22
Consensus pattern (53 bp):
AAATGAATAAATTAATCAAAGATTACAAATGCAATAAGAAAGAAATTAACTCA
Found at i:4416536 original size:4 final size:4
Alignment explanation
Indices: 4416520--4416571 Score: 95
Period size: 4 Copynumber: 12.8 Consensus size: 4
4416510 GCCTCTCCTT
4416520 TTTC TTCTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC
1 TTTC TT-TC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC
4416569 TTT
1 TTT
4416572 TTAGGATTTG
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
4 43 0.91
5 4 0.09
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTC
Found at i:4419489 original size:26 final size:26
Alignment explanation
Indices: 4419459--4419540 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
4419449 TGAAATTCCC
4419459 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
4419485 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
4419511 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
4419537 ATCA
1 ATCA
4419541 ATTTGTATCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.37, C:0.27, G:0.06, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:4424128 original size:12 final size:12
Alignment explanation
Indices: 4424091--4424134 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
4424081 AAATAAAACC
4424091 ACATATAAATAT
1 ACATATAAATAT
* *
4424103 ATATATATATAT
1 ACATATAAATAT
*
4424115 ACATAAAAATAT
1 ACATATAAATAT
4424127 ACACTATA
1 ACA-TATA
4424135 TATAATAGTA
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
12 22 0.88
13 3 0.12
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (12 bp):
ACATATAAATAT
Found at i:4424243 original size:12 final size:13
Alignment explanation
Indices: 4424228--4424286 Score: 63
Period size: 12 Copynumber: 4.7 Consensus size: 13
4424218 AATAGGGGTG
4424228 ATAATAATA-ATA
1 ATAATAATACATA
4424240 ATAATAATACA-A
1 ATAATAATACATA
*
4424252 ACAATAATACAT-
1 ATAATAATACATA
4424264 AT-ATATATACATA
1 ATAATA-ATACATA
4424277 TATAATAATA
1 -ATAATAATA
4424287 GTAGTCAGAA
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
11 3 0.08
12 27 0.69
13 1 0.03
14 5 0.13
15 3 0.08
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.32
Consensus pattern (13 bp):
ATAATAATACATA
Found at i:4426237 original size:84 final size:84
Alignment explanation
Indices: 4426096--4426252 Score: 235
Period size: 84 Copynumber: 1.9 Consensus size: 84
4426086 ATTCATTCCT
* * *
4426096 TTTGCATTGACTTCTCAAGGTAAAAATCTGTATGTTCCTTTATTTTCTGGCATTGGGTTCCTTAG
1 TTTGCATTGAATTCTCAAGGGAAAAATCTGTATGTTCCTTTATTTTCTGGAATTGGGTTCCTTAG
4426161 AATCTTGAATTTTATTCTC
66 AATCTTGAATTTTATTCTC
* * *
4426180 TTTGCATTGAATTTTCAAGGGAAAAA-GTGTATTTTTCCTTTATTTTCTGGAATTGGGTTCCTTA
1 TTTGCATTGAATTCTCAAGGGAAAAATCTGTA-TGTTCCTTTATTTTCTGGAATTGGGTTCCTTA
*
4426244 GAATTTTGA
65 GAATCTTGA
4426253 GAGAGAAACA
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
83 4 0.06
84 61 0.94
ACGTcount: A:0.23, C:0.13, G:0.17, T:0.46
Consensus pattern (84 bp):
TTTGCATTGAATTCTCAAGGGAAAAATCTGTATGTTCCTTTATTTTCTGGAATTGGGTTCCTTAG
AATCTTGAATTTTATTCTC
Found at i:4428829 original size:16 final size:16
Alignment explanation
Indices: 4428808--4428839 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
4428798 GTTGACTGAT
4428808 TGGAAATCAGTGGATG
1 TGGAAATCAGTGGATG
4428824 TGGAAATCAGTGGATG
1 TGGAAATCAGTGGATG
4428840 CTATTTATCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.06, G:0.38, T:0.25
Consensus pattern (16 bp):
TGGAAATCAGTGGATG
Found at i:4441406 original size:21 final size:22
Alignment explanation
Indices: 4441363--4441421 Score: 66
Period size: 21 Copynumber: 2.6 Consensus size: 22
4441353 ACTTGAAATG
4441363 TATATTTAAAATGTTTTATAATATA
1 TATATTTAAAA---TTTATAATATA
* *
4441388 TTTTTTTAAAATTTA-AATATA
1 TATATTTAAAATTTATAATATA
4441409 TATATTTAAAATT
1 TATATTTAAAATT
4441422 ATTTTTTAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
21 17 0.57
22 4 0.13
25 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (22 bp):
TATATTTAAAATTTATAATATA
Found at i:4441427 original size:35 final size:34
Alignment explanation
Indices: 4441377--4441457 Score: 110
Period size: 34 Copynumber: 2.3 Consensus size: 34
4441367 TTTAAAATGT
*
4441377 TTTATAATATATTTTTTTAAAATTTAAATATATATA
1 TTTAAAATATA-TTTTTTAAAATTTAAA-ATATATA
*
4441413 TTTAAAAT-TATTTTTTAAAATTTTAAATATATA
1 TTTAAAATATATTTTTTAAAATTTAAAATATATA
4441446 TTTAATAATATA
1 TTTAA-AATATA
4441458 AAACATTTAA
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
33 12 0.29
34 18 0.44
35 4 0.10
36 7 0.17
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (34 bp):
TTTAAAATATATTTTTTAAAATTTAAAATATATA
Found at i:4441535 original size:9 final size:9
Alignment explanation
Indices: 4441505--4441580 Score: 66
Period size: 9 Copynumber: 8.1 Consensus size: 9
4441495 TTATTATTAG
4441505 TTTTATAATA
1 TTTTA-AATA
4441515 TTTT-AA-A
1 TTTTAAATA
4441522 TTTTAAATA
1 TTTTAAATA
*
4441531 TTTTAAATTTG
1 TTTTAAA--TA
4441542 TTTTATAATA
1 TTTTA-AATA
4441552 TTTTAAATA
1 TTTTAAATA
* *
4441561 TTCTTAATTT
1 TT-TTAAATA
4441571 TTTTAAATA
1 TTTTAAATA
4441580 T
1 T
4441581 ATTATTTTTA
Statistics
Matches: 54, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
7 5 0.09
8 4 0.07
9 20 0.37
10 17 0.31
11 6 0.11
12 2 0.04
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.61
Consensus pattern (9 bp):
TTTTAAATA
Found at i:4441552 original size:21 final size:19
Alignment explanation
Indices: 4441504--4441559 Score: 73
Period size: 16 Copynumber: 3.0 Consensus size: 19
4441494 TTTATTATTA
4441504 GTTTTATAATATTTTAAA-
1 GTTTTATAATATTTTAAAT
4441522 -TTTTA-AATATTTTAAATTT
1 GTTTTATAATATTTTAAA--T
4441541 GTTTTATAATATTTTAAAT
1 GTTTTATAATATTTTAAAT
4441560 ATTCTTAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
16 11 0.33
17 5 0.15
19 1 0.03
20 5 0.15
21 11 0.33
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.59
Consensus pattern (19 bp):
GTTTTATAATATTTTAAAT
Found at i:4441555 original size:30 final size:28
Alignment explanation
Indices: 4441521--4441580 Score: 86
Period size: 30 Copynumber: 2.1 Consensus size: 28
4441511 AATATTTTAA
4441521 ATTTTAAATATT-TTAAATTTGTTTTATAAT
1 ATTTTAAATATTCTT-AATTT-TTTTA-AAT
4441551 ATTTTAAATATTCTTAATTTTTTTAAAT
1 ATTTTAAATATTCTTAATTTTTTTAAAT
4441579 AT
1 AT
4441581 ATTATTTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
28 5 0.17
29 5 0.17
30 17 0.59
31 2 0.07
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.60
Consensus pattern (28 bp):
ATTTTAAATATTCTTAATTTTTTTAAAT
Found at i:4441589 original size:18 final size:19
Alignment explanation
Indices: 4441552--4441589 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
4441542 TTTTATAATA
*
4441552 TTTTAAATATTCTTAATTT
1 TTTTAAATATTATTAATTT
4441571 TTTTAAATA-TATT-ATTT
1 TTTTAAATATTATTAATTT
4441588 TT
1 TT
4441590 AAAGATATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 3 0.17
19 9 0.50
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (19 bp):
TTTTAAATATTATTAATTT
Found at i:4441602 original size:115 final size:105
Alignment explanation
Indices: 4441471--4441697 Score: 312
Period size: 115 Copynumber: 2.1 Consensus size: 105
4441461 CATTTAAATA
*
4441471 TTTTAAAGATATGACCTTTCAAATTTATTATTAGTTTTATAATATTTTAAATTTTAAATATTTTA
1 TTTTAAAGATATGACCTTTCAAATTTATTATTAGTTTTATAATATTTTAAA-TGT--ATATTTTA
* *
4441536 AATTTGTTTTATAATATTTTAAATATTCTTAATTTTTTTAAATATATT-AT
63 AATAT-TTTTA-AA-ATTTTAAATA----TAATTTTTATAAAT-TATTAAT
*
4441586 TTTTAAAGATATGACCTTTCAAATTTATTATTTGTTTTATAATATTTTAAATGTATATTTTAAAT
1 TTTTAAAGATATGACCTTTCAAATTTATTATTAGTTTTATAATATTTTAAATGTATATTTTAAAT
4441651 ATTTTTAAAATTTTAAATATAATTTTTATAAATTATTAAT
66 ATTTTTAAAATTTTAAATATAATTTTTATAAATTATTAAT
4441691 TTTTAAA
1 TTTTAAA
4441698 CTAAATTTAA
Statistics
Matches: 107, Mismatches: 4, Indels: 12
0.87 0.03 0.10
Matches are distributed among these distances:
104 4 0.04
105 22 0.21
109 10 0.09
110 2 0.02
111 5 0.05
112 12 0.11
114 2 0.02
115 50 0.47
ACGTcount: A:0.38, C:0.03, G:0.04, T:0.56
Consensus pattern (105 bp):
TTTTAAAGATATGACCTTTCAAATTTATTATTAGTTTTATAATATTTTAAATGTATATTTTAAAT
ATTTTTAAAATTTTAAATATAATTTTTATAAATTATTAAT
Found at i:4445100 original size:30 final size:30
Alignment explanation
Indices: 4445059--4445131 Score: 110
Period size: 30 Copynumber: 2.4 Consensus size: 30
4445049 GTTGCTCTGG
* * *
4445059 GTGAAATGAACTTGAACTGCCTATATCCGA
1 GTGATATGAACTTGAACCGCCCATATCCGA
*
4445089 GTGATATGAACTTGAACCGCCCATGTCCGA
1 GTGATATGAACTTGAACCGCCCATATCCGA
4445119 GTGATATGAACTT
1 GTGATATGAACTT
4445132 TAATTGCTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (30 bp):
GTGATATGAACTTGAACCGCCCATATCCGA
Found at i:4448330 original size:21 final size:21
Alignment explanation
Indices: 4448275--4448332 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
4448265 TGATAAGTTA
4448275 TAATATATAT-TTTTAATTTT
1 TAATATATATATTTTAATTTT
* * *
4448295 TAA-ATTTAAATTTTTACTTTT
1 TAATATATATA-TTTTAATTTT
4448316 TAATATATATATTTTAA
1 TAATATATATATTTTAA
4448333 ATAAAGTCAT
Statistics
Matches: 29, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
19 4 0.14
20 3 0.10
21 17 0.59
22 5 0.17
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (21 bp):
TAATATATATATTTTAATTTT
Found at i:4448468 original size:23 final size:21
Alignment explanation
Indices: 4448438--4448508 Score: 61
Period size: 22 Copynumber: 3.1 Consensus size: 21
4448428 ATTATTTTTT
4448438 AAAATTTTAAATAGAATTTAAA
1 AAAATTTTAAATA-AATTTAAA
* *
4448460 AAAAGTTTTGAATATATTTAAA
1 AAAA-TTTTAAATAAATTTAAA
*
4448482 AATAATTTAAAAATCATAATTTAAA
1 AA-AATTT-TAAAT-A-AATTTAAA
4448507 AA
1 AA
4448509 TTTATATGTT
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
22 16 0.41
23 13 0.33
24 1 0.03
25 9 0.23
ACGTcount: A:0.58, C:0.01, G:0.04, T:0.37
Consensus pattern (21 bp):
AAAATTTTAAATAAATTTAAA
Found at i:4448502 original size:14 final size:14
Alignment explanation
Indices: 4448483--4448509 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
4448473 ATATTTAAAA
4448483 ATAATTTAAAAATC
1 ATAATTTAAAAATC
4448497 ATAATTTAAAAAT
1 ATAATTTAAAAAT
4448510 TTATATGTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (14 bp):
ATAATTTAAAAATC
Found at i:4448673 original size:22 final size:23
Alignment explanation
Indices: 4448642--4448704 Score: 58
Period size: 22 Copynumber: 2.7 Consensus size: 23
4448632 AAAATTTAAA
4448642 AAAATAATTTCAAATATATA-TATT
1 AAAA-AATTTCAAATATATATTA-T
* * * *
4448666 TAAAATTTTTAAA-AAATATTAT
1 AAAAAATTTCAAATATATATTAT
4448688 AAAAAATTTCAAATATA
1 AAAAAATTTCAAATATA
4448705 CCTTTCAAGT
Statistics
Matches: 29, Mismatches: 8, Indels: 5
0.69 0.19 0.12
Matches are distributed among these distances:
22 15 0.52
23 11 0.38
24 3 0.10
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (23 bp):
AAAAAATTTCAAATATATATTAT
Found at i:4450263 original size:20 final size:20
Alignment explanation
Indices: 4450238--4450287 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
4450228 TGGCTTAAAA
4450238 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
4450258 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
4450275 GTGGTAGTGGATT
1 TTGGTAGTGGATT
4450288 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:4454900 original size:20 final size:20
Alignment explanation
Indices: 4454875--4454924 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
4454865 TGGCTTAAAA
4454875 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
4454895 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
4454912 GTGGTAGTGGATT
1 TTGGTAGTGGATT
4454925 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:4455437 original size:29 final size:30
Alignment explanation
Indices: 4455378--4455458 Score: 83
Period size: 31 Copynumber: 2.6 Consensus size: 30
4455368 AAATTGAATC
*
4455378 AAATTAAAATTTCTATGTATAAAATTACACA-
1 AAATCAAAA-TTC-ATGTATAAAATTACACAT
* *
4455409 AAATCAAAATTCATGTATACAATTGCACATT
1 AAATCAAAATTCATGTATAAAATTACACA-T
* *
4455440 AAATCATAGTTCATGTATA
1 AAATCAAAATTCATGTATA
4455459 GTTTTGGGAT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
29 15 0.35
30 3 0.07
31 25 0.58
ACGTcount: A:0.47, C:0.12, G:0.06, T:0.35
Consensus pattern (30 bp):
AAATCAAAATTCATGTATAAAATTACACAT
Found at i:4458385 original size:25 final size:26
Alignment explanation
Indices: 4458356--4458407 Score: 97
Period size: 25 Copynumber: 2.0 Consensus size: 26
4458346 TAATATTTAT
4458356 TTAGTAATAATGAAGAATTAT-ATAA
1 TTAGTAATAATGAAGAATTATAATAA
4458381 TTAGTAATAATGAAGAATTATAATAA
1 TTAGTAATAATGAAGAATTATAATAA
4458407 T
1 T
4458408 GCAAATAAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 21 0.81
26 5 0.19
ACGTcount: A:0.52, C:0.00, G:0.12, T:0.37
Consensus pattern (26 bp):
TTAGTAATAATGAAGAATTATAATAA
Found at i:4458419 original size:21 final size:19
Alignment explanation
Indices: 4458404--4458438 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
4458394 AGAATTATAA
4458404 TAAT-GCAAATAAGAATAT
1 TAATAGCAAATAAGAATAT
4458422 TAATAGCAAATAA-AATA
1 TAATAGCAAATAAGAATA
4458439 AAAATAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.60, C:0.06, G:0.09, T:0.26
Consensus pattern (19 bp):
TAATAGCAAATAAGAATAT
Found at i:4468579 original size:5 final size:6
Alignment explanation
Indices: 4468562--4468586 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
4468552 GAGTATTAGG
4468562 ATAAAA ATAAAA ATAAAA ATAAAA A
1 ATAAAA ATAAAA ATAAAA ATAAAA A
4468587 CAATATTTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
ATAAAA
Found at i:4469548 original size:19 final size:19
Alignment explanation
Indices: 4469524--4469560 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
4469514 CATAAGTAAA
4469524 TAAAATATAA-TAATAATAC
1 TAAAATA-AAGTAATAATAC
4469543 TAAAATAAAGTAATAATA
1 TAAAATAAAGTAATAATA
4469561 AAAAATACTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 2 0.12
19 15 0.88
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.30
Consensus pattern (19 bp):
TAAAATAAAGTAATAATAC
Found at i:4469772 original size:15 final size:15
Alignment explanation
Indices: 4469719--4469774 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
4469709 AAACAACTAT
*
4469719 TAATAATACTTCATAA
1 TAATAATA-TACATAA
* *
4469735 T-ATATATATATATAC
1 TAATA-ATATACATAA
*
4469750 TAAAAATATACATAA
1 TAATAATATACATAA
4469765 TAATAATATA
1 TAATAATATA
4469775 TATATATAAC
Statistics
Matches: 31, Mismatches: 7, Indels: 5
0.72 0.16 0.12
Matches are distributed among these distances:
15 25 0.81
16 6 0.19
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (15 bp):
TAATAATATACATAA
Found at i:4472118 original size:130 final size:129
Alignment explanation
Indices: 4471939--4472446 Score: 583
Period size: 130 Copynumber: 3.9 Consensus size: 129
4471929 ACCTAAAGGA
* * * ** * * *
4471939 ATATTCGATTGTTTTGACCAAACGAGAAATCACAACCCAGCGCGATAGGGCATGATTCC-CGAAT
1 ATATTCGATTATTTTGAGCAAACGCGAAATTGCAACCCAGCACGTTAGGGCACGATTCCGCGAAT
* * * * * * * * *
4472003 CGTCAAACACCGAGTATT-GCCTTCGTTTTAAGGGATTTTTAGAAGATACGAGTGAAATTTGAAG
66 TGCCAAACATCAAAT-TTCGTCTTCGTTTTAAAGAATTTTTAGAAGA-ATGA-TGAAATTTGAAG
4472067 TG
128 TG
* *
4472069 ATATTCGATTATTTTGAGCGAACGCGAAATTGTAACCCAGCACGTTAGGGCACGATTCCGCGAAT
1 ATATTCGATTATTTTGAGCAAACGCGAAATTGCAACCCAGCACGTTAGGGCACGATTCCGCGAAT
* ** *
4472134 TTCCAATTATCAAATTTCGTCTTCGTTTTAAAGAATTTTT-GAATGAATGATGAAATCTTGAAGG
66 TGCCAAACATCAAATTTCGTCTTCGTTTTAAAGAATTTTTAGAA-GAATGATGAAAT-TTGAAGT
4472198 G
129 G
* * * * *
4472199 ATATTTGATTATTTTGAGCAAACTCGGAATTGCAACCCAGCACGTTAGGGTACGATTCCGTGAAT
1 ATATTCGATTATTTTGAGCAAACGCGAAATTGCAACCCAGCACGTTAGGGCACGATTCCGCGAAT
* * *
4472264 TGCCAAATATCAAATTTCGTCTTCATTTTAAAGAATTTTTAAAAGACATGAATGAAATTTTGAAG
66 TGCCAAACATCAAATTTCGTCTTCGTTTTAAAGAATTTTTAGAAGA-ATG-ATGAAA-TTTGAAG
4472329 TG
128 TG
* *
4472331 ATATTCGGTTATTTTGAGCAAACGCGAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAAT
1 ATATTCGATTATTTTGAGCAAACGCGAAATTGCAACCCAGCACGTTAGGGCACGATTCCGCGAAT
* * *
4472396 TGCCAAACATCGAATGTCGTCTTCGTTTTGAAGAATTTTT-GAATGAATGAT
66 TGCCAAACATCAAATTTCGTCTTCGTTTTAAAGAATTTTTAGAA-GAATGAT
4472447 TATAAAGCTA
Statistics
Matches: 321, Mismatches: 48, Indels: 18
0.83 0.12 0.05
Matches are distributed among these distances:
129 6 0.02
130 163 0.51
131 43 0.13
132 108 0.34
133 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (129 bp):
ATATTCGATTATTTTGAGCAAACGCGAAATTGCAACCCAGCACGTTAGGGCACGATTCCGCGAAT
TGCCAAACATCAAATTTCGTCTTCGTTTTAAAGAATTTTTAGAAGAATGATGAAATTTGAAGTG
Found at i:4473537 original size:18 final size:18
Alignment explanation
Indices: 4473514--4473552 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
4473504 GATACAAATG
* *
4473514 ATACAATTAATATTAACA
1 ATACAACTAATATAAACA
4473532 ATACAACTAATATAAACA
1 ATACAACTAATATAAACA
4473550 ATA
1 ATA
4473553 AAAAAACAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.59, C:0.13, G:0.00, T:0.28
Consensus pattern (18 bp):
ATACAACTAATATAAACA
Found at i:4477568 original size:46 final size:46
Alignment explanation
Indices: 4477499--4477621 Score: 210
Period size: 46 Copynumber: 2.7 Consensus size: 46
4477489 ATAATCTCAC
** *
4477499 CCATAATGAACTCGGAATGCAACTCAACGAGCTCGGGTGTCCGCAT
1 CCATAATGAACTCGGAACACAACTCAACGAGCTCAGGTGTCCGCAT
*
4477545 CCATAATGAACTCGGAACACAACTCAACGAGCTCAGGTGTTCGCAT
1 CCATAATGAACTCGGAACACAACTCAACGAGCTCAGGTGTCCGCAT
4477591 CCATAATGAACTCGGAACACAACTCAACGAG
1 CCATAATGAACTCGGAACACAACTCAACGAG
4477622 TTCTGTAACG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 73 1.00
ACGTcount: A:0.33, C:0.28, G:0.20, T:0.18
Consensus pattern (46 bp):
CCATAATGAACTCGGAACACAACTCAACGAGCTCAGGTGTCCGCAT
Found at i:4477960 original size:32 final size:32
Alignment explanation
Indices: 4477924--4477988 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
4477914 TGTATGCATT
*
4477924 TTAGCATTTTAATAGTTAATGGATGGTGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
4477956 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
4477988 T
1 T
4477989 GGTAAGCATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.29, C:0.06, G:0.26, T:0.38
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAATGGATGATGGGCA
Found at i:4479497 original size:26 final size:26
Alignment explanation
Indices: 4479468--4479520 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
4479458 TTTACAGTTT
4479468 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
4479494 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
4479520 T
1 T
4479521 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:4486016 original size:32 final size:32
Alignment explanation
Indices: 4485980--4486044 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
4485970 TGTATGCATT
4485980 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
4486012 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
4486044 T
1 T
4486045 GGTAAGCATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.38
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAATGGATGATGGGCA
Found at i:4487555 original size:26 final size:26
Alignment explanation
Indices: 4487526--4487578 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
4487516 TTTACAGTTT
4487526 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
4487552 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
4487578 T
1 T
4487579 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:4492475 original size:17 final size:16
Alignment explanation
Indices: 4492431--4492476 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
4492421 GATTGCAACA
4492431 AATCAAAGTTCATA-T
1 AATCAAAGTTCATATT
4492446 -ATCAAA-TTGCATATT
1 AATCAAAGTT-CATATT
4492461 GAATCAAAGTTCATAT
1 -AATCAAAGTTCATAT
4492477 CTAGTTTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
13 2 0.08
14 10 0.38
15 1 0.04
17 11 0.42
18 2 0.08
ACGTcount: A:0.43, C:0.13, G:0.09, T:0.35
Consensus pattern (16 bp):
AATCAAAGTTCATATT
Found at i:4496275 original size:15 final size:15
Alignment explanation
Indices: 4496255--4496284 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
4496245 TTTCAATAAT
4496255 CTTTCCTTGGTCCCC
1 CTTTCCTTGGTCCCC
4496270 CTTTCCTTGGTCCCC
1 CTTTCCTTGGTCCCC
4496285 TCCTTTAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.00, C:0.47, G:0.13, T:0.40
Consensus pattern (15 bp):
CTTTCCTTGGTCCCC
Found at i:4498864 original size:14 final size:13
Alignment explanation
Indices: 4498843--4498885 Score: 68
Period size: 14 Copynumber: 3.2 Consensus size: 13
4498833 GTTTGTTTCA
4498843 TTGAAAATAATTT
1 TTGAAAATAATTT
4498856 TTAGAAAATAATTT
1 TT-GAAAATAATTT
4498870 TTGAAAAATAATTT
1 TTG-AAAATAATTT
4498884 TT
1 TT
4498886 TCTGAAAAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
13 3 0.11
14 25 0.89
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (13 bp):
TTGAAAATAATTT
Found at i:4498893 original size:17 final size:18
Alignment explanation
Indices: 4498862--4498906 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
4498852 ATTTTTAGAA
*
4498862 AATAATTTTTGAAAAA-T
1 AATATTTTTTGAAAAACT
4498879 AAT-TTTTTCTGAAAAACT
1 AATATTTTT-TGAAAAACT
4498897 AATATTTTTT
1 AATATTTTTT
4498907 AGTATTTAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
16 4 0.17
17 10 0.42
18 5 0.21
19 5 0.21
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.49
Consensus pattern (18 bp):
AATATTTTTTGAAAAACT
Found at i:4499444 original size:16 final size:17
Alignment explanation
Indices: 4499425--4499461 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
4499415 TACGTAATAA
4499425 TATTATTTAAAA-TTAT
1 TATTATTTAAAATTTAT
4499441 TATT-TTTAAAATTTAT
1 TATTATTTAAAATTTAT
4499457 TATTA
1 TATTA
4499462 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TATTATTTAAAATTTAT
Found at i:4499528 original size:22 final size:22
Alignment explanation
Indices: 4499469--4499514 Score: 69
Period size: 20 Copynumber: 2.2 Consensus size: 22
4499459 TTAAAATAAA
*
4499469 ATTAAAATATTAAA-TA-ATTT
1 ATTAAAATAATAAATTATATTT
4499489 ATTAAAATAATAAATTATATTT
1 ATTAAAATAATAAATTATATTT
4499511 ATTA
1 ATTA
4499515 TATTAGTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 13 0.57
21 2 0.09
22 8 0.35
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
ATTAAAATAATAAATTATATTT
Found at i:4500520 original size:17 final size:16
Alignment explanation
Indices: 4500498--4500532 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
4500488 AATACAAAAA
4500498 ATTATTATATTCATTTT
1 ATTATTAT-TTCATTTT
*
4500515 ATTATTATTTTATTTT
1 ATTATTATTTCATTTT
4500531 AT
1 AT
4500533 AAATCCATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.69
Consensus pattern (16 bp):
ATTATTATTTCATTTT
Found at i:4503338 original size:24 final size:26
Alignment explanation
Indices: 4503311--4503359 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 26
4503301 TAATTTAATT
*
4503311 TTTATAATA-TAAAAAT-ATTTTTTA
1 TTTAAAATAGTAAAAATAATTTTTTA
*
4503335 TTTAAAATAGTGAAAATAATTTTTT
1 TTTAAAATAGTAAAAATAATTTTTT
4503360 TTGTTTTTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 8 0.38
25 6 0.29
26 7 0.33
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (26 bp):
TTTAAAATAGTAAAAATAATTTTTTA
Found at i:4505710 original size:22 final size:22
Alignment explanation
Indices: 4505676--4505722 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
4505666 TATAAAAACG
4505676 AAATGACAACAAAACAACAACA
1 AAATGACAACAAAACAACAACA
* * *
4505698 AAATGATAGCAAAACAACAATA
1 AAATGACAACAAAACAACAACA
4505720 AAA
1 AAA
4505723 AGGAAAATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.68, C:0.17, G:0.06, T:0.09
Consensus pattern (22 bp):
AAATGACAACAAAACAACAACA
Found at i:4513968 original size:31 final size:30
Alignment explanation
Indices: 4513906--4513971 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
4513896 TTAATAATCA
* * *
4513906 AATAACTTAAATAAAATTTTTTAGTAGTTT
1 AATAACTTAAATAAAAATTTTCAGTAATTT
* *
4513936 AATAATTTAAATAAAAATTTTCGGATAATTT
1 AATAACTTAAATAAAAATTTTCAG-TAATTT
4513967 AATAA
1 AATAA
4513972 ATATTTTGTA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 20 0.67
31 10 0.33
ACGTcount: A:0.48, C:0.03, G:0.06, T:0.42
Consensus pattern (30 bp):
AATAACTTAAATAAAAATTTTCAGTAATTT
Found at i:4516933 original size:50 final size:49
Alignment explanation
Indices: 4516851--4516949 Score: 153
Period size: 50 Copynumber: 2.0 Consensus size: 49
4516841 TGATCATCTT
*
4516851 ATATCGACTTGATAATATTACTGACAGTTTTGTAAGATTTAAAAGGTGA
1 ATATCGACTTGATAATATTACTGACAGCTTTGTAAGATTTAAAAGGTGA
* * *
4516900 ATATTGACTTGATAATGTTTACTGGCAGCTTTGTAAGATTTAAAAGGTGA
1 ATATCGACTTGATAAT-ATTACTGACAGCTTTGTAAGATTTAAAAGGTGA
4516950 GTGATCGAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
49 15 0.33
50 30 0.67
ACGTcount: A:0.34, C:0.08, G:0.20, T:0.37
Consensus pattern (49 bp):
ATATCGACTTGATAATATTACTGACAGCTTTGTAAGATTTAAAAGGTGA
Found at i:4519799 original size:29 final size:29
Alignment explanation
Indices: 4519757--4519818 Score: 124
Period size: 29 Copynumber: 2.1 Consensus size: 29
4519747 AGTCGGGTTC
4519757 TTATATGTATTTTTTAGTTGTATAATAAT
1 TTATATGTATTTTTTAGTTGTATAATAAT
4519786 TTATATGTATTTTTTAGTTGTATAATAAT
1 TTATATGTATTTTTTAGTTGTATAATAAT
4519815 TTAT
1 TTAT
4519819 CTTCCCTCTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.31, C:0.00, G:0.10, T:0.60
Consensus pattern (29 bp):
TTATATGTATTTTTTAGTTGTATAATAAT
Found at i:4523568 original size:21 final size:19
Alignment explanation
Indices: 4523533--4523577 Score: 63
Period size: 21 Copynumber: 2.3 Consensus size: 19
4523523 AAAATAACTA
4523533 TAAAATATTAAAATTATAT
1 TAAAATATTAAAATTATAT
*
4523552 TAAAAGTATTAAAAATTATGT
1 TAAAA-TATT-AAAATTATAT
4523573 TAAAA
1 TAAAA
4523578 AATTCAACAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 5 0.22
20 4 0.17
21 14 0.61
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (19 bp):
TAAAATATTAAAATTATAT
Found at i:4525366 original size:263 final size:261
Alignment explanation
Indices: 4524902--4525427 Score: 1018
Period size: 263 Copynumber: 2.0 Consensus size: 261
4524892 GTTACTTAAT
4524902 TATGTTTTGTTTCTTTTTTTGTCACTTAACTATAAAAAGTTACAAATTGGTTATTCAACTTTAAA
1 TATGTTTTGTTTCTTTTTTTGTCACTTAACTATAAAAAGTTACAAATTGGTTATTCAACTTTAAA
4524967 GTTTGTCTTTCTTGATCACCCAACTATCTTAAATTTACAGTGTTTCTATTTTTATATTACCTGTA
66 GTTTGTCTTTCTTGATCACCCAACTATCTTAAATTTACAGTGTTTCTATTTTTATATTACCTGTA
4525032 AATGACTAAAAATAAATAAATTTAAATAATAATTAAGTGACCAATTTATAACTTTTTATAATTAT
131 AATGACTAAAAATAAATAAATTTAAATAATAATTAAGTGACCAATTTATAACTTTTTATAATTAT
4525097 GTGATAAGAAGTAAGTAGTTAGTTTCATTTTTATGATGGTTATTATTAA-TTTTTCAAGAAAAAA
196 GTGATAAGAAGTAAGTAGTTAGTTTCATTTTTATGATGGTTATTATTAATTTTTTCAAGAAAAAA
4525161 C
261 C
4525162 TATGTTTTGTTTCTTTTTTTGTCACTTAACTATAAAAAGTTACAAATTGGTTATTCAACTATTAA
1 TATGTTTTGTTTCTTTTTTTGTCACTTAACTATAAAAAGTTACAAATTGGTTATTCAACT-TTAA
4525227 AGTTTGTCTTTCTTGATCACCCAACTATCTTAAATTTTACAGTGTTTCTATTTTTATATTACCTG
65 AGTTTGTCTTTCTTGATCACCCAACTATCTTAAA-TTTACAGTGTTTCTATTTTTATATTACCT-
4525292 GTAAATGACTAAAAATAAATAAATTTAAATAATAATTAAGTGACCAATTTATAACTTTTTATAAT
128 GTAAATGACTAAAAATAAATAAATTTAAATAATAATTAAGTGACCAATTTATAACTTTTTATAAT
4525357 TATGTGATAAGAAGTAAGTAGTTAGTTTCATTTTTATGATGGTTATTATTAATTTTTTCAAGAAA
193 TATGTGATAAGAAGTAAGTAGTTAGTTTCATTTTTATGATGGTTATTATTAATTTTTTCAAGAAA
4525422 AAAC
258 AAAC
4525426 TA
1 TA
4525428 GTGGCCTAAT
Statistics
Matches: 262, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
260 60 0.23
261 38 0.15
262 29 0.11
263 117 0.45
264 18 0.07
ACGTcount: A:0.35, C:0.10, G:0.10, T:0.45
Consensus pattern (261 bp):
TATGTTTTGTTTCTTTTTTTGTCACTTAACTATAAAAAGTTACAAATTGGTTATTCAACTTTAAA
GTTTGTCTTTCTTGATCACCCAACTATCTTAAATTTACAGTGTTTCTATTTTTATATTACCTGTA
AATGACTAAAAATAAATAAATTTAAATAATAATTAAGTGACCAATTTATAACTTTTTATAATTAT
GTGATAAGAAGTAAGTAGTTAGTTTCATTTTTATGATGGTTATTATTAATTTTTTCAAGAAAAAA
C
Found at i:4526966 original size:54 final size:52
Alignment explanation
Indices: 4526792--4526963 Score: 193
Period size: 53 Copynumber: 3.2 Consensus size: 52
4526782 TACACGGAAG
* * * *
4526792 CACTTATCACTTTTCTCCGATGCTATAGCCCAGCTATGGTCTTATAC-AGAT
1 CACTTATCACTTTTATCCGATGCCATAGCCCAACTATGGTCTTATACAATAT
* * *
4526843 CACTTGTATCACTTTAATCCGAAGCCATAGCCCAGCTATGGTCTTATACAGATAT
1 CAC-T-TATCACTTTTATCCGATGCCATAGCCCAACTATGGTCTTATACA-ATAT
** * *
4526898 GGCTTATCACTTGTTTTTCGATGCCATAGCCCAACTATGGTCTTATACGAATAT
1 CACTTATCACTT-TTATCCGATGCCATAGCCCAACTATGGTCTTATAC-AATAT
4526952 CACTTATCACTT
1 CACTTATCACTT
4526964 GTTGCCATGG
Statistics
Matches: 101, Mismatches: 14, Indels: 9
0.81 0.11 0.07
Matches are distributed among these distances:
51 3 0.03
52 1 0.01
53 47 0.47
54 45 0.45
55 5 0.05
ACGTcount: A:0.26, C:0.26, G:0.14, T:0.35
Consensus pattern (52 bp):
CACTTATCACTTTTATCCGATGCCATAGCCCAACTATGGTCTTATACAATAT
Done.