Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13
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: 46006518
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2011935 characters in sequence are not A, C, G, or T
File 86 of 141
Found at i:28120673 original size:18 final size:19
Alignment explanation
Indices: 28120633--28120675 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
28120623 AGTGCTTTAA
*
28120633 TTTTTATTTATTTATTTGC
1 TTTTTATTTATTGATTTGC
*
28120652 -TTTTATTTGTTGATTT-C
1 TTTTTATTTATTGATTTGC
28120669 TTTTTAT
1 TTTTTAT
28120676 CCTATATTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 1 0.05
18 20 0.95
ACGTcount: A:0.14, C:0.05, G:0.07, T:0.74
Consensus pattern (19 bp):
TTTTTATTTATTGATTTGC
Found at i:28132692 original size:20 final size:20
Alignment explanation
Indices: 28132667--28132706 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
28132657 CATAGTAAAA
28132667 ATAAAAGAAAAAAGAAAAGC
1 ATAAAAGAAAAAAGAAAAGC
28132687 ATAAAAGAAAAAAGAAAAGC
1 ATAAAAGAAAAAAGAAAAGC
28132707 CTTACCTGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.75, C:0.05, G:0.15, T:0.05
Consensus pattern (20 bp):
ATAAAAGAAAAAAGAAAAGC
Found at i:28133614 original size:18 final size:19
Alignment explanation
Indices: 28133574--28133616 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
28133564 AGTGCTTTAA
*
28133574 TTTTTATTTATTTATTTGC
1 TTTTTATTTATTGATTTGC
*
28133593 -TTTTATTTGTTGATTT-C
1 TTTTTATTTATTGATTTGC
28133610 TTTTTAT
1 TTTTTAT
28133617 CCTATATTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 1 0.05
18 20 0.95
ACGTcount: A:0.14, C:0.05, G:0.07, T:0.74
Consensus pattern (19 bp):
TTTTTATTTATTGATTTGC
Found at i:28136436 original size:13 final size:14
Alignment explanation
Indices: 28136412--28136442 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
28136402 CATAAAGGGG
28136412 AAGAAGAAAAGGAA
1 AAGAAGAAAAGGAA
28136426 AAGAA-AAAAGGAA
1 AAGAAGAAAAGGAA
28136439 AAGA
1 AAGA
28136443 TTAAATTGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (14 bp):
AAGAAGAAAAGGAA
Found at i:28137092 original size:13 final size:14
Alignment explanation
Indices: 28137068--28137098 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
28137058 CATAAAGGGG
28137068 AAGAAGAAAAGGAA
1 AAGAAGAAAAGGAA
28137082 AAGAA-AAAAGGAA
1 AAGAAGAAAAGGAA
28137095 AAGA
1 AAGA
28137099 TTAAATTGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (14 bp):
AAGAAGAAAAGGAA
Found at i:28137450 original size:656 final size:656
Alignment explanation
Indices: 28136197--28137511 Score: 2614
Period size: 656 Copynumber: 2.0 Consensus size: 656
28136187 TAGATTTGAT
28136197 TAAGGATATTGTTTTTATATTGATTAGTTAGATCCAAATTTAGTTTCAAAATTAGGTTATATTCA
1 TAAGGATATTGTTTTTATATTGATTAGTTAGATCCAAATTTAGTTTCAAAATTAGGTTATATTCA
28136262 AATCGAGATTTGACTAAGAATGATTAATATTTGGTTTTGAGTGAAATTTAATTTAGGAATCATGT
66 AATCGAGATTTGACTAAGAATGATTAATATTTGGTTTTGAGTGAAATTTAATTTAGGAATCATGT
28136327 GAGAAAAACAATGATTTGGTCTATTTGGTGGGCAAAGATTATGTTTCTGTAGTGAAGAATATGAG
131 GAGAAAAACAATGATTTGGTCTATTTGGTGGGCAAAGATTATGTTTCTGTAGTGAAGAATATGAG
28136392 ATGAGAGATACATAAAGGGGAAGAAGAAAAGGAAAAGAAAAAAGGAAAAGATTAAATTGTTCAAA
196 ATGAGAGATACATAAAGGGGAAGAAGAAAAGGAAAAGAAAAAAGGAAAAGATTAAATTGTTCAAA
28136457 AAAATAAAAGTATGAGGACTTGTTTTAACAAATGGAAAATATAGAAAAACTATGTTAAAAGAAAT
261 AAAATAAAAGTATGAGGACTTGTTTTAACAAATGGAAAATATAGAAAAACTATGTTAAAAGAAAT
28136522 GGAGAATGGAGGAAAACAAAGGGGGAAGGAGAGAGAATGGAAAATAAAGAATAAAAAAGGAAAGT
326 GGAGAATGGAGGAAAACAAAGGGGGAAGGAGAGAGAATGGAAAATAAAGAATAAAAAAGGAAAGT
28136587 TCAAAGAACATAAAAGAAAAAAAAATTAAATTGTTCAAAATGAAAAAAAAGGGACCAATTGTATA
391 TCAAAGAACATAAAAGAAAAAAAAATTAAATTGTTCAAAATGAAAAAAAAGGGACCAATTGTATA
28136652 ATTTAACCTAAATTTTTTGTTTGAAAATGATGATTAATGTGCCACGTTAGCTTACCGTTACACCG
456 ATTTAACCTAAATTTTTTGTTTGAAAATGATGATTAATGTGCCACGTTAGCTTACCGTTACACCG
28136717 TTAAATACAATTAACACTTAGTGACTAAAATGTTATAATACGATAACATAAGTGACTAAAAAGTA
521 TTAAATACAATTAACACTTAGTGACTAAAATGTTATAATACGATAACATAAGTGACTAAAAAGTA
28136782 ACATGAGACAAACAAAAATGACTATTTTAGTAGTTTACCCAAAGCTTAATTGTCTATATTTAAAA
586 ACATGAGACAAACAAAAATGACTATTTTAGTAGTTTACCCAAAGCTTAATTGTCTATATTTAAAA
28136847 TTTTAA
651 TTTTAA
28136853 TAAGGATATTGTTTTTATATTGATTAGTTAGATCCAAATTTAGTTTCAAAATTAGGTTATATTCA
1 TAAGGATATTGTTTTTATATTGATTAGTTAGATCCAAATTTAGTTTCAAAATTAGGTTATATTCA
28136918 AATCGAGATTTGACTAAGAATGATTAATATTTGGTTTTGAGTGAAATTTAATTTAGGAATCATGT
66 AATCGAGATTTGACTAAGAATGATTAATATTTGGTTTTGAGTGAAATTTAATTTAGGAATCATGT
28136983 GAGAAAAACAATGATTTGGTCTATTTGGTGGGCAAAGATTATGTTTCTGTAGTGAAGAATATGAG
131 GAGAAAAACAATGATTTGGTCTATTTGGTGGGCAAAGATTATGTTTCTGTAGTGAAGAATATGAG
28137048 ATGAGAGATACATAAAGGGGAAGAAGAAAAGGAAAAGAAAAAAGGAAAAGATTAAATTGTTCAAA
196 ATGAGAGATACATAAAGGGGAAGAAGAAAAGGAAAAGAAAAAAGGAAAAGATTAAATTGTTCAAA
28137113 AAAATAAAAGTATGAGGACTTGTTTTAACAAATGGAAAATATAGAAAAACTATGTTAAAAGAAAT
261 AAAATAAAAGTATGAGGACTTGTTTTAACAAATGGAAAATATAGAAAAACTATGTTAAAAGAAAT
28137178 GGAGAATGGAGGAAAACAAAGGGGGAAGGAGAGAGAATGGAAAATAAAGAATAAAAAAGGAAAGT
326 GGAGAATGGAGGAAAACAAAGGGGGAAGGAGAGAGAATGGAAAATAAAGAATAAAAAAGGAAAGT
28137243 TCAAAGAACATAAAAGAAAAAAAAATTAAATTGTTCAAAATGAAAAAAAAGGGACCAATTGTATA
391 TCAAAGAACATAAAAGAAAAAAAAATTAAATTGTTCAAAATGAAAAAAAAGGGACCAATTGTATA
28137308 ATTTAACCTAAATTTTTTGTTTG-AAATGATGATTTAATGTGCCACGTTAGCTTACCGTTACACC
456 ATTTAACCTAAATTTTTTGTTTGAAAATGATGA-TTAATGTGCCACGTTAGCTTACCGTTACACC
28137372 GTTAAATACAATTAACACTTAGTGACTAAAATGTTATAATACGATAACATAAGTGACTAAAAAGT
520 GTTAAATACAATTAACACTTAGTGACTAAAATGTTATAATACGATAACATAAGTGACTAAAAAGT
28137437 AACATGAGACAAACAAAAATGACTATTTTAGTAGTTTACCCAAAGCTTAATTGTCTATATTTAAA
585 AACATGAGACAAACAAAAATGACTATTTTAGTAGTTTACCCAAAGCTTAATTGTCTATATTTAAA
28137502 ATTTTAA
650 ATTTTAA
28137509 TAA
1 TAA
28137512 ATATATATAA
Statistics
Matches: 658, Mismatches: 0, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
655 9 0.01
656 649 0.99
ACGTcount: A:0.45, C:0.07, G:0.18, T:0.29
Consensus pattern (656 bp):
TAAGGATATTGTTTTTATATTGATTAGTTAGATCCAAATTTAGTTTCAAAATTAGGTTATATTCA
AATCGAGATTTGACTAAGAATGATTAATATTTGGTTTTGAGTGAAATTTAATTTAGGAATCATGT
GAGAAAAACAATGATTTGGTCTATTTGGTGGGCAAAGATTATGTTTCTGTAGTGAAGAATATGAG
ATGAGAGATACATAAAGGGGAAGAAGAAAAGGAAAAGAAAAAAGGAAAAGATTAAATTGTTCAAA
AAAATAAAAGTATGAGGACTTGTTTTAACAAATGGAAAATATAGAAAAACTATGTTAAAAGAAAT
GGAGAATGGAGGAAAACAAAGGGGGAAGGAGAGAGAATGGAAAATAAAGAATAAAAAAGGAAAGT
TCAAAGAACATAAAAGAAAAAAAAATTAAATTGTTCAAAATGAAAAAAAAGGGACCAATTGTATA
ATTTAACCTAAATTTTTTGTTTGAAAATGATGATTAATGTGCCACGTTAGCTTACCGTTACACCG
TTAAATACAATTAACACTTAGTGACTAAAATGTTATAATACGATAACATAAGTGACTAAAAAGTA
ACATGAGACAAACAAAAATGACTATTTTAGTAGTTTACCCAAAGCTTAATTGTCTATATTTAAAA
TTTTAA
Found at i:28139718 original size:21 final size:19
Alignment explanation
Indices: 28139694--28139747 Score: 56
Period size: 21 Copynumber: 2.7 Consensus size: 19
28139684 AGCCTTCAAA
28139694 ATTAATCTTATTCATATTCAT
1 ATTAATCTTATTCATATT--T
*
28139715 ATT-ATGTATATTCATATTT
1 ATTAATCT-TATTCATATTT
*
28139734 ATTAAACTTATTCA
1 ATTAATCTTATTCA
28139748 AAACTGAACT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
19 10 0.36
20 5 0.18
21 13 0.46
ACGTcount: A:0.35, C:0.11, G:0.02, T:0.52
Consensus pattern (19 bp):
ATTAATCTTATTCATATTT
Found at i:28140888 original size:124 final size:124
Alignment explanation
Indices: 28140435--28140999 Score: 652
Period size: 126 Copynumber: 4.5 Consensus size: 124
28140425 GATAAAATCA
* * * * * * * * *
28140435 AAGCAGGATGATTTATCAGAAGGATTTTTGAAGTCGCGCCCACATGTACTCACTTTTGCTACAGT
1 AAGCAGGATGCTTTATTAGAAGAATTTGTGAAATC-CGCCCACGTGGACGCGCTTTTGCTACAGT
* * * *
28140500 AGGTCCTGGAAAAATAATTTCGACTTGACGTTTCTAAGAAAATGGTTTAAAAAACGCTTC
65 AGGTCCTGGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTC
* * * * *
28140560 AAGCAGGATGCTTTGTGAGGAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTACTACAGT
1 AAGCAGGATGCTTTATTAGAAGAATTTGTGAAATC-CGCCCACGTGGACGCGCTTTTGCTACAGT
* * * * *
28140625 TGGTCCTGCAAGAAATAATTTCGAGC-TGACGTTTTTGAACAAATAGTTTAAAAAACGCTTC
65 AGGTCCTGGAA-AAATAATTTCGA-CTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTC
* * *
28140686 AAGCAAGATGCTTTATAAGAAGAATTTGTGAATTCACGCCCACGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATTAGAAGAATTTGTGAAATC-CGCCCACGTGGACGCGCTTTTGCTACAGT
* * * * * *
28140751 AGGTCTTGAAAAAATAATTTTGAGTTGACATTTCTGAGCAAATAGTATAAAACAACGCTGC
65 AGGTCCTGGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAA-AACGCTTC
* * *
28140812 AAGCAGCATGCTATT-TTAGAAGAATTTGTGAAAT-CGCCCTCGTGGACGCACTTTTGCTACAGT
1 AAGCAGGATGCT-TTATTAGAAGAATTTGTGAAATCCGCCCACGTGGACGCGCTTTTGCTACAGT
* * *
28140875 TGGTCCTGGAAAAATAATTTTGACTTGACGTTTCTGAGCAAATAGTAT-AAAATCGCTTC
65 AGGTCCTGGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTC
* * * *
28140934 TAGCAGGATGTTTTATGAGAAGAATTTGTGAAATCGCGCCAACGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATTAGAAGAATTTGTGAAATC-CGCCCACGTGGACGCGCTTTTGCTACAGT
28140999 A
65 A
28141000 ACATGTTTGG
Statistics
Matches: 373, Mismatches: 59, Indels: 17
0.83 0.13 0.04
Matches are distributed among these distances:
121 2 0.01
122 33 0.09
123 3 0.01
124 96 0.26
125 95 0.25
126 141 0.38
127 3 0.01
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.30
Consensus pattern (124 bp):
AAGCAGGATGCTTTATTAGAAGAATTTGTGAAATCCGCCCACGTGGACGCGCTTTTGCTACAGTA
GGTCCTGGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTC
Found at i:28144198 original size:21 final size:21
Alignment explanation
Indices: 28144172--28145330 Score: 917
Period size: 22 Copynumber: 54.0 Consensus size: 21
28144162 TCAAATTATA
28144172 TTTAAGTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
28144193 TTTAAGTTAAGGGTTTAGGGTTT
1 TTTAAGTTAAGGG-TTAGGG-TT
* *
28144216 TTTAGGTTAAGGGTCAAGGGTT
1 TTTAAGTTAAGGGT-TAGGGTT
* *
28144238 TTTAAGTTAATGTTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
* *
28144259 TTTAGGTTAAGGGTTAGAGTT
1 TTTAAGTTAAGGGTTAGGGTT
* * *
28144280 TTAAAGTTAAAGGTTTAGAGTT
1 TTTAAGTT-AAGGGTTAGGGTT
*
28144302 TTTAGGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGG-TTAGGGTT
* * **
28144324 TTAAAGATAAGTTTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
*
28144345 TTTAAGTTAGGGGTTAGGG-T
1 TTTAAGTTAAGGGTTAGGGTT
* * *
28144365 TTTAGGTTAAGGTTTTAAGGTT
1 TTTAAGTTAAGG-GTTAGGGTT
* * *
28144387 TTTAATTTAACGGTTAAGGTT
1 TTTAAGTTAAGGGTTAGGGTT
*
28144408 TTTAAGCTAAGGGTTTAGGG-T
1 TTTAAGTTAAGGG-TTAGGGTT
* *
28144429 TTTAAATTAAGGGTCTAAGGTT
1 TTTAAGTTAAGGGT-TAGGGTT
* * *
28144451 TTAAAGTTAAAGTTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
* * * *
28144472 TTCAGGCTAAGGGTTAGGATT
1 TTTAAGTTAAGGGTTAGGGTT
* * **
28144493 TTTAGGTTAATGGTTTAATGTT
1 TTTAAGTTAA-GGGTTAGGGTT
*
28144515 TTTAATTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
* *
28144536 TTAAAGTTAAGGGTTTAAGGTT
1 TTTAAGTTAAGGG-TTAGGGTT
*
28144558 TTAAAGTTAAGGGTCTAGGGTT
1 TTTAAGTTAAGGGT-TAGGGTT
* *
28144580 TTAAAGTTAAGGTTTA-GGTT
1 TTTAAGTTAAGGGTTAGGGTT
*
28144600 TTTCAAGTTAAGGGTTAAGGTT
1 TTT-AAGTTAAGGGTTAGGGTT
* *
28144622 TTTAGAGTTTAGGGTTTAGAGTT
1 TTTA-AGTTAAGGG-TTAGGGTT
*
28144645 TTTAATTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGG-TTAGGGTT
* *
28144667 TTTAATTTAAGAGTTTAGGGTT
1 TTTAAGTTAAG-GGTTAGGGTT
* * *
28144689 TTTAGGTTAAAGGTTTTGGGTT
1 TTTAAGTT-AAGGGTTAGGGTT
*
28144711 TTTAAGTTAAGAGTTTAGGG--
1 TTTAAGTTAAG-GGTTAGGGTT
* *
28144731 TTTAAGGGTTAGGGGTTAGTGTT
1 TTTAA--GTTAAGGGTTAGGGTT
* *
28144754 TTTAATTTAAGGGTTTAAGGTT
1 TTTAAGTTAAGGG-TTAGGGTT
* *
28144776 TTTAATTTAAGGGTTAGGATT
1 TTTAAGTTAAGGGTTAGGGTT
* *
28144797 TTTAATTTAAGAGATTAGGGGTT
1 TTTAAGTTAAG-GGTTA-GGGTT
*
28144820 TTTAGGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGG-TTAGGGTT
* *
28144842 TTAAAGTTAAGAGTTTAGGG--
1 TTTAAGTTAAG-GGTTAGGGTT
*
28144862 TTT-AG----GGGTTAAGGTT
1 TTTAAGTTAAGGGTTAGGGTT
* * *
28144878 TTTAATTTAAGAGTTTAAGGTT
1 TTTAAGTTAAG-GGTTAGGGTT
* *
28144900 TTTAGGTTAATGGTTTAGGGTT
1 TTTAAGTTAA-GGGTTAGGGTT
*
28144922 TTAAAGTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
*
28144943 TTTAATTTAAGAGGTTAGGGTT
1 TTTAAGTTAAG-GGTTAGGGTT
*
28144965 TTTAGGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGG-TTAGGGTT
* * * *
28144987 TTAAAGTGAAGGTTTAGGGTA
1 TTTAAGTTAAGGGTTAGGGTT
* *
28145008 TTTAGGTTAGGGGTTAGGG-T
1 TTTAAGTTAAGGGTTAGGGTT
* * *
28145028 TTTAATTTAAAGATTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
* *
28145049 TTTAATTTAAGAGATTAGGGTTT
1 TTTAAGTTAAG-GGTTAGGG-TT
* * *
28145072 TTTAGGTTAAAGGTTTTGGGTT
1 TTTAAGTT-AAGGGTTAGGGTT
*
28145094 TTTAAGTTAAGAGTTTAGGG--
1 TTTAAGTTAAG-GGTTAGGGTT
* *
28145114 TTTAAGGGTTAGGGGTTAGTGTT
1 TTTAA--GTTAAGGGTTAGGGTT
* *
28145137 TTTAATTTAAGGGTTTAAGGTT
1 TTTAAGTTAAGGG-TTAGGGTT
* *
28145159 TTTAATTTAAGGGTTAGAGTT
1 TTTAAGTTAAGGGTTAGGGTT
* *
28145180 TTTAATTTAAGAGTTTAGGGTT
1 TTTAAGTTAAG-GGTTAGGGTT
* *
28145202 TTTAGGTTAAGAGTTTAGGGTT
1 TTTAAGTTAAG-GGTTAGGGTT
*
28145224 TTAAAGTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
* *
28145245 TTTAGGTTAAGGGGTTAGAGTT
1 TTTAAGTTAA-GGGTTAGGGTT
* *
28145267 TTAAAGTTAATGGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
* *
28145288 TTTAGGTTAAGGGGTTAGGGGT
1 TTTAAGTTAA-GGGTTAGGGTT
*
28145310 TTTAAGTTAAGGTTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
28145331 ATGGTTTTTA
Statistics
Matches: 917, Mismatches: 168, Indels: 106
0.77 0.14 0.09
Matches are distributed among these distances:
14 6 0.01
15 1 0.00
16 3 0.00
17 1 0.00
19 2 0.00
20 44 0.05
21 332 0.36
22 451 0.49
23 74 0.08
24 3 0.00
ACGTcount: A:0.25, C:0.01, G:0.30, T:0.44
Consensus pattern (21 bp):
TTTAAGTTAAGGGTTAGGGTT
Found at i:28144296 original size:43 final size:42
Alignment explanation
Indices: 28144172--28145330 Score: 1009
Period size: 43 Copynumber: 27.0 Consensus size: 42
28144162 TCAAATTATA
28144172 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAA-GGTTTAGGG-TT
* * *
28144216 TTTAGGTTAAGGGTCAAGGGTTTTTAAGTTAATGTTTAGGGTT
1 TTTAAGTTAAGGGT-TAGGGTTTTTAAGTTAAGGTTTAGGGTT
* * * *
28144259 TTTAGGTTAAGGGTTAGAGTTTTAAAGTTAAAGGTTTAGAGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTT-AAGGTTTAGGGTT
* * * *
28144302 TTTAGGTTAAGGGTTTAGGGTTTTAAAGATAAGTTTTAGGGTT
1 TTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGTTTAGGGTT
* * *
28144345 TTTAAGTTAGGGGTTAGGG-TTTTAGGTTAAGGTTTTAAGGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGG-TTTAGGGTT
* * * *
28144387 TTTAATTTAACGGTTAAGGTTTTTAAGCTAAGGGTTTAGGG-T
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAA-GGTTTAGGGTT
* * * *
28144429 TTTAAATTAAGGGTCTAAGGTTTTAAAGTTAAAGTTTAGGGTT
1 TTTAAGTTAAGGGT-TAGGGTTTTTAAGTTAAGGTTTAGGGTT
* * * * * **
28144472 TTCAGGCTAAGGGTTAGGATTTTTAGGTTAATGGTTTAATGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAA-GGTTTAGGGTT
* * *
28144515 TTTAATTTAAGGGTTAGGGTTTTAAAGTTAAGGGTTTAAGGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAA-GGTTTAGGGTT
* *
28144558 TTAAAGTTAAGGGTCTAGGGTTTTAAAGTTAAGGTTTA-GGTT
1 TTTAAGTTAAGGGT-TAGGGTTTTTAAGTTAAGGTTTAGGGTT
* * *
28144600 TTTCAAGTTAAGGGTTAAGGTTTTTAGAGTTTAGGGTTTAGAGTT
1 TTT-AAGTTAAGGGTTAGGGTTTTTA-AG-TTAAGGTTTAGGGTT
* *
28144645 TTTAATTTAAGGGTTTAGGGTTTTTAATTTAAGAGTTTAGGGTT
1 TTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAG-GTTTAGGGTT
* * *
28144689 TTTAGGTTAAAGGTTTTGGGTTTTTAAGTTAAGAGTTTAGGG--
1 TTTAAGTT-AAGGGTTAGGGTTTTTAAGTTAAG-GTTTAGGGTT
* * * *
28144731 TTTAAGGGTTAGGGGTTAGTGTTTTTAATTTAAGGGTTTAAGGTT
1 TTTAA--GTTAAGGGTTAGGGTTTTTAAGTTAA-GGTTTAGGGTT
* * * *
28144776 TTTAATTTAAGGGTTAGGATTTTTAATTTAAGAGATTAGGGGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAG-GTTTA-GGGTT
* *
28144820 TTTAGGTTAAGGGTTTAGGGTTTTAAAGTTAAGAGTTTAGGG--
1 TTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAG-GTTTAGGGTT
* * *
28144862 TTT-AG----GGGTTAAGGTTTTTAATTTAAGAGTTTAAGGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAG-GTTTAGGGTT
* * * *
28144900 TTTAGGTTAATGGTTTAGGGTTTTAAAGTTAAGGGTTAGGGTT
1 TTTAAGTTAA-GGGTTAGGGTTTTTAAGTTAAGGTTTAGGGTT
* *
28144943 TTTAATTTAAGAGGTTAGGGTTTTTAGGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAG-GGTTAGGGTTTTTAAGTTAA-GGTTTAGGGTT
* * * * * * *
28144987 TTAAAGTGAAGGTTTAGGGTATTTAGGTTAGGGGTTAGGG-T
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGTTTAGGGTT
* * * * *
28145028 TTTAATTTAAAGATTAGGGTTTTTAATTTAAGAGATTAGGGTTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAG-GTTTAGGG-TT
* * *
28145072 TTTAGGTTAAAGGTTTTGGGTTTTTAAGTTAAGAGTTTAGGG--
1 TTTAAGTT-AAGGGTTAGGGTTTTTAAGTTAAG-GTTTAGGGTT
* * * *
28145114 TTTAAGGGTTAGGGGTTAGTGTTTTTAATTTAAGGGTTTAAGGTT
1 TTTAA--GTTAAGGGTTAGGGTTTTTAAGTTAA-GGTTTAGGGTT
* * *
28145159 TTTAATTTAAGGGTTAGAGTTTTTAATTTAAGAGTTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAG-GTTTAGGGTT
* * * *
28145202 TTTAGGTTAAGAGTTTAGGGTTTTAAAGTTAAGGGTTAGGGTT
1 TTTAAGTTAAG-GGTTAGGGTTTTTAAGTTAAGGTTTAGGGTT
* * *
28145245 TTTAGGTTAAGGGGTTAGAGTTTTAAAGTTAATGG-TTAGGGTT
1 TTTAAGTTAA-GGGTTAGGGTTTTTAAGTTAA-GGTTTAGGGTT
* *
28145288 TTTAGGTTAAGGGGTTAGGGGTTTTAAGTTAAGGTTTAGGGTT
1 TTTAAGTTAA-GGGTTAGGGTTTTTAAGTTAAGGTTTAGGGTT
28145331 ATGGTTTTTA
Statistics
Matches: 914, Mismatches: 152, Indels: 99
0.78 0.13 0.08
Matches are distributed among these distances:
36 24 0.03
37 3 0.00
38 3 0.00
39 1 0.00
41 34 0.04
42 121 0.13
43 429 0.47
44 203 0.22
45 96 0.11
ACGTcount: A:0.25, C:0.01, G:0.30, T:0.44
Consensus pattern (42 bp):
TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGTTTAGGGTT
Found at i:28144879 original size:36 final size:35
Alignment explanation
Indices: 28144820--28144900 Score: 99
Period size: 36 Copynumber: 2.3 Consensus size: 35
28144810 ATTAGGGGTT
* * *
28144820 TTTAGGTTAAGGGTTTAGGGTTTTAAAGTTAAGAG
1 TTTAGGTTTAGGGGTTAAGGTTTTAAAGTTAAGAG
* *
28144855 TTTAGGGTTTAGGGGTTAAGGTTTTTAATTTAAGAG
1 TTTA-GGTTTAGGGGTTAAGGTTTTAAAGTTAAGAG
28144891 TTTAAGGTTT
1 TTT-AGGTTT
28144901 TTAGGTTAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
35 4 0.10
36 34 0.87
37 1 0.03
ACGTcount: A:0.26, C:0.00, G:0.30, T:0.44
Consensus pattern (35 bp):
TTTAGGTTTAGGGGTTAAGGTTTTAAAGTTAAGAG
Found at i:28144908 original size:36 final size:37
Alignment explanation
Indices: 28144838--28144915 Score: 95
Period size: 36 Copynumber: 2.1 Consensus size: 37
28144828 AAGGGTTTAG
* *
28144838 GGTTTTAAAGTTAAGAGTTTAGGGTTTAGGGGTTAA-
1 GGTTTTAAAGTTAAGAGTTTAAGGTTTAGAGGTTAAT
* * **
28144874 GGTTTTTAATTTAAGAGTTTAAGGTTTTTAGGTTAAT
1 GGTTTTAAAGTTAAGAGTTTAAGGTTTAGAGGTTAAT
28144911 GGTTT
1 GGTTT
28144916 AGGGTTTTAA
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
36 30 0.86
37 5 0.14
ACGTcount: A:0.26, C:0.00, G:0.28, T:0.46
Consensus pattern (37 bp):
GGTTTTAAAGTTAAGAGTTTAAGGTTTAGAGGTTAAT
Found at i:28144932 original size:36 final size:35
Alignment explanation
Indices: 28144816--28144933 Score: 85
Period size: 36 Copynumber: 3.1 Consensus size: 35
28144806 AGAGATTAGG
28144816 GGTTTTTAGGTTAAGGGTTTAGGGTTTTAAAGTTAA
1 GGTTTTTAGGTTAA-GGTTTAGGGTTTTAAAGTTAA
****
28144852 GAGTTTAGGGTTTAGGGGTTAAGGTTT-TTAATTTAAGAGTTTAA
1 G-G-TT----TTTA--GGTTAAGGTTTAGGGTTTTAA-AG-TTAA
28144896 GGTTTTTAGGTTAATGGTTTAGGGTTTTAAAGTTAA
1 GGTTTTTAGGTTAA-GGTTTAGGGTTTTAAAGTTAA
28144932 GG
1 GG
28144934 GTTAGGGTTT
Statistics
Matches: 62, Mismatches: 8, Indels: 24
0.66 0.09 0.26
Matches are distributed among these distances:
36 13 0.21
37 8 0.13
38 11 0.18
42 11 0.18
43 8 0.13
44 11 0.18
ACGTcount: A:0.25, C:0.00, G:0.31, T:0.44
Consensus pattern (35 bp):
GGTTTTTAGGTTAAGGTTTAGGGTTTTAAAGTTAA
Found at i:28145297 original size:27 final size:26
Alignment explanation
Indices: 28145267--28145346 Score: 69
Period size: 27 Copynumber: 3.2 Consensus size: 26
28145257 GGTTAGAGTT
*
28145267 TTAAAGTTAATGGTTAGGGTTTTTAGG
1 TTAAAGTT-AGGGTTAGGGTTTTTAGG
* *
28145294 TT-AAG---GGGTTAGGGGTTTTAAG
1 TTAAAGTTAGGGTTAGGGTTTTTAGG
* *
28145316 TTAAGGTTTAGGGTTATGGTTTTTAGG
1 TTAAAG-TTAGGGTTAGGGTTTTTAGG
28145343 TTAA
1 TTAA
28145347 GGGTTTCAGG
Statistics
Matches: 41, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
22 16 0.39
23 2 0.05
26 3 0.07
27 20 0.49
ACGTcount: A:0.24, C:0.00, G:0.33, T:0.44
Consensus pattern (26 bp):
TTAAAGTTAGGGTTAGGGTTTTTAGG
Found at i:28145357 original size:14 final size:14
Alignment explanation
Indices: 28145300--28145358 Score: 50
Period size: 14 Copynumber: 4.3 Consensus size: 14
28145290 TAGGTTAAGG
*
28145300 GGTTAGGGGTTTTA
1 GGTTAAGGGTTTTA
*
28145314 AGTTAA-GG-TTTA
1 GGTTAAGGGTTTTA
* *
28145326 GGGTTATGGTTTTTA
1 -GGTTAAGGGTTTTA
*
28145341 GGTTAAGGGTTTCA
1 GGTTAAGGGTTTTA
28145355 GGTT
1 GGTT
28145359 TGTCAATTAA
Statistics
Matches: 34, Mismatches: 8, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
12 4 0.12
13 6 0.18
14 20 0.59
15 4 0.12
ACGTcount: A:0.19, C:0.02, G:0.36, T:0.44
Consensus pattern (14 bp):
GGTTAAGGGTTTTA
Found at i:28145624 original size:21 final size:21
Alignment explanation
Indices: 28145600--28145646 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
28145590 CTTTGTCCAG
*
28145600 CTTCTGGCGGCGG-TTGTGGTT
1 CTTCCGGCGG-GGATTGTGGTT
*
28145621 CTTCCGGCGGGGATTTTGGTT
1 CTTCCGGCGGGGATTGTGGTT
28145642 CTTCC
1 CTTCC
28145647 AGTAAGGCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 2 0.09
21 21 0.91
ACGTcount: A:0.02, C:0.23, G:0.36, T:0.38
Consensus pattern (21 bp):
CTTCCGGCGGGGATTGTGGTT
Found at i:28147635 original size:50 final size:51
Alignment explanation
Indices: 28147592--28147688 Score: 135
Period size: 51 Copynumber: 1.9 Consensus size: 51
28147582 AATTATTTAA
28147592 AAATAGGGATTTAAGAG-AATTTA-AGAGGAACTTGAGAGCAAATTGAAAAT
1 AAATAGGGATTTAAGAGAAATTTAGA-AGGAACTTGAGAGCAAATTGAAAAT
* * * *
28147642 AAATATGGATTTGAGAGAAATTTTGAAGGAATTTGAGAGCAAATTGA
1 AAATAGGGATTTAAGAGAAATTTAGAAGGAACTTGAGAGCAAATTGA
28147689 GAGGAAATTT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
50 15 0.37
51 25 0.61
52 1 0.02
ACGTcount: A:0.45, C:0.03, G:0.25, T:0.27
Consensus pattern (51 bp):
AAATAGGGATTTAAGAGAAATTTAGAAGGAACTTGAGAGCAAATTGAAAAT
Found at i:28147664 original size:11 final size:11
Alignment explanation
Indices: 28147650--28147726 Score: 72
Period size: 11 Copynumber: 6.9 Consensus size: 11
28147640 ATAAATATGG
28147650 ATTTGAGAGAA
1 ATTTGAGAGAA
*
28147661 ATTTTGA-AGGA
1 A-TTTGAGAGAA
28147672 ATTTGAGAGCAA
1 ATTTGAGAG-AA
28147684 A-TTGAGAGGAA
1 ATTTGAGA-GAA
28147695 ATTT-AGAAGAA
1 ATTTGAG-AGAA
28147706 A-TTGAGAGAAA
1 ATTTGAGAG-AA
28147717 ATTTGAGAGA
1 ATTTGAGAGA
28147727 GGATTAGTTT
Statistics
Matches: 55, Mismatches: 2, Indels: 18
0.73 0.03 0.24
Matches are distributed among these distances:
10 9 0.16
11 28 0.51
12 18 0.33
ACGTcount: A:0.45, C:0.01, G:0.27, T:0.26
Consensus pattern (11 bp):
ATTTGAGAGAA
Found at i:28147689 original size:33 final size:33
Alignment explanation
Indices: 28147650--28147726 Score: 102
Period size: 33 Copynumber: 2.3 Consensus size: 33
28147640 ATAAATATGG
* * *
28147650 ATTTGAGAGAAATTTTGAAGGAATTTGAGAGCAA
1 ATTTGAGAGAAATTTAGAA-GAAATTGAGAGAAA
28147684 A-TTGAGAGGAAATTTAGAAGAAATTGAGAGAAA
1 ATTTGAGA-GAAATTTAGAAGAAATTGAGAGAAA
28147717 ATTTGAGAGA
1 ATTTGAGAGA
28147727 GGATTAGTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
33 21 0.55
34 17 0.45
ACGTcount: A:0.45, C:0.01, G:0.27, T:0.26
Consensus pattern (33 bp):
ATTTGAGAGAAATTTAGAAGAAATTGAGAGAAA
Found at i:28150429 original size:5 final size:5
Alignment explanation
Indices: 28150419--28150474 Score: 103
Period size: 5 Copynumber: 11.2 Consensus size: 5
28150409 TTTGCTTTAG
*
28150419 TATTA TATTA TATTA TATTA CATTA TATTA TATTA TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
28150469 TATTA T
1 TATTA T
28150475 GTAATTTGTA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 49 1.00
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (5 bp):
TATTA
Found at i:28151524 original size:13 final size:13
Alignment explanation
Indices: 28151508--28151533 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
28151498 ACATTACGCA
28151508 AACAAATGGTTTT
1 AACAAATGGTTTT
28151521 AACAAATGGTTTT
1 AACAAATGGTTTT
28151534 TGGAAACACG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.38
Consensus pattern (13 bp):
AACAAATGGTTTT
Found at i:28153128 original size:43 final size:44
Alignment explanation
Indices: 28153026--28153135 Score: 120
Period size: 43 Copynumber: 2.5 Consensus size: 44
28153016 GTTGTCGTGC
* * *
28153026 AAGACCACATCTGGAACGTTGGCATCGACTTGTGATTTACGTGT
1 AAGACCACGTCTGGGACGTTGGCATCGACTTGTGATTTACATGT
*
28153070 AAGACC-CTGTTTGGGACAG-TGGCATCGA-TATGTGA-TTACATGT
1 AAGACCAC-GTCTGGGAC-GTTGGCATCGACT-TGTGATTTACATGT
*
28153113 AAGACCACGTCTGGGACGATGGC
1 AAGACCACGTCTGGGACGTTGGC
28153136 GTTGTATGAA
Statistics
Matches: 56, Mismatches: 5, Indels: 11
0.78 0.07 0.15
Matches are distributed among these distances:
42 1 0.02
43 27 0.48
44 27 0.48
45 1 0.02
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.26
Consensus pattern (44 bp):
AAGACCACGTCTGGGACGTTGGCATCGACTTGTGATTTACATGT
Found at i:28153791 original size:19 final size:19
Alignment explanation
Indices: 28153767--28153818 Score: 95
Period size: 19 Copynumber: 2.7 Consensus size: 19
28153757 AATCTTCAAG
28153767 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
28153786 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
28153805 GATATGCAATCTTA
1 GATATGCAATCTTA
28153819 NNNNNNNNNN
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:28154256 original size:3 final size:3
Alignment explanation
Indices: 28154248--28154276 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
28154238 NNNNNNNNNN
28154248 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
28154277 ATTCATGCGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:28163952 original size:7 final size:7
Alignment explanation
Indices: 28163927--28163968 Score: 52
Period size: 7 Copynumber: 6.0 Consensus size: 7
28163917 GTGATGTGAA
28163927 AAAAATG
1 AAAAATG
28163934 AAAAGATG
1 AAAA-ATG
28163942 -AAAATG
1 AAAAATG
28163948 AAAAATG
1 AAAAATG
28163955 AAAAA-G
1 AAAAATG
28163961 TAAAAATG
1 -AAAAATG
28163969 GAGAGGCTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
6 4 0.13
7 23 0.74
8 4 0.13
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.14
Consensus pattern (7 bp):
AAAAATG
Found at i:28163966 original size:21 final size:21
Alignment explanation
Indices: 28163927--28163968 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
28163917 GTGATGTGAA
*
28163927 AAAAATGAAAAGATGAAAATG
1 AAAAATGAAAAGATAAAAATG
28163948 AAAAATGAAAA-AGTAAAAATG
1 AAAAATGAAAAGA-TAAAAATG
28163969 GAGAGGCTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 1 0.05
21 18 0.95
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.14
Consensus pattern (21 bp):
AAAAATGAAAAGATAAAAATG
Found at i:28165337 original size:45 final size:45
Alignment explanation
Indices: 28165266--28165672 Score: 348
Period size: 44 Copynumber: 9.2 Consensus size: 45
28165256 TGTACTGGCA
* *
28165266 TGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGGTGG
1 TGAAGTAGATCAAAGAAAACAGATCTTGTCTTCCCGTACTGGTGG
* * * *** *
28165311 CGAAGTAGATCGAAGAAAACAAATCTTGTCTTTATGTACTGG-CG
1 TGAAGTAGATCAAAGAAAACAGATCTTGTCTTCCCGTACTGGTGG
* * *
28165355 TGAAGTAGATCAAAG-AAACAAATCTTGTCTCCCCATACTGGTGG
1 TGAAGTAGATCAAAGAAAACAGATCTTGTCTTCCCGTACTGGTGG
* * * **
28165399 TGGAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTACT--TGCG
1 TGAAGTAGATCAAAGAAAACAGATCTTGTCTTCCCGTACTGGTG-G
* *
28165443 TGAAGTAGATCAAAG-AAACAAATCTTGTCTTCCCATACTGGTGG
1 TGAAGTAGATCAAAGAAAACAGATCTTGTCTTCCCGTACTGGTGG
* * * ** *
28165487 TGGAGTAGATCGAAGAAAATAGATCTTGTCTTCATGTACTGG-CG
1 TGAAGTAGATCAAAGAAAACAGATCTTGTCTTCCCGTACTGGTGG
* * *
28165531 TGAAGTAGATCAAAGATACCAGATCTTGTCTTCCCGTACTGATGG
1 TGAAGTAGATCAAAGAAAACAGATCTTGTCTTCCCGTACTGGTGG
* * * ** *
28165576 CT-AAGCAGATCGAAGAAAACAGATCTTATCTTCATGTA-TCGG-CG
1 -TGAAGTAGATCAAAGAAAACAGATCTTGTCTTCCCGTACT-GGTGG
* * * * * * *
28165620 TGAAGTAGATCAAATACAACATATTTTATCTTCCCATACTGGCGG
1 TGAAGTAGATCAAAGAAAACAGATCTTGTCTTCCCGTACTGGTGG
28165665 T-AAGTAGA
1 TGAAGTAGA
28165673 GTGAAGATTA
Statistics
Matches: 282, Mismatches: 68, Indels: 25
0.75 0.18 0.07
Matches are distributed among these distances:
43 42 0.15
44 131 0.46
45 108 0.38
46 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (45 bp):
TGAAGTAGATCAAAGAAAACAGATCTTGTCTTCCCGTACTGGTGG
Found at i:28165425 original size:88 final size:89
Alignment explanation
Indices: 28165245--28165672 Score: 578
Period size: 88 Copynumber: 4.8 Consensus size: 89
28165235 AAGTAGTAGT
* *
28165245 TCTTGTCTTCATGTACTGGCATGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGGTG
1 TCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAAATCTTGTCTTCCCATACTGGTG
* *
28165310 GCGAAGTAGATCGAAGAAAACAAA
66 GTGAAGTAGATCGAAGAAAACAGA
* *
28165334 TCTTGTCTTTATGTACTGGCGTGAAGTAGATCAAAGA-AACAAATCTTGTCTCCCCATACTGGTG
1 TCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAAATCTTGTCTTCCCATACTGGTG
* * * *
28165398 GTGGAGTAGATCAAAGATAGCAGA
66 GTGAAGTAGATCGAAGAAAACAGA
*
28165422 TCTTGTCTTCATGTACTTGCGTGAAGTAGATCAAAGA-AACAAATCTTGTCTTCCCATACTGGTG
1 TCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAAATCTTGTCTTCCCATACTGGTG
* *
28165486 GTGGAGTAGATCGAAGAAAATAGA
66 GTGAAGTAGATCGAAGAAAACAGA
* * * *
28165510 TCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGTCTTCCCGTACTGATG
1 TCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAAATCTTGTCTTCCCATACTGGTG
*
28165575 GCT-AAGCAGATCGAAGAAAACAGA
66 G-TGAAGTAGATCGAAGAAAACAGA
* * * * * * *
28165599 TCTTATCTTCATGTA-TCGGCGTGAAGTAGATCAAATACAACATATTTTATCTTCCCATACTGGC
1 TCTTGTCTTCATGTACT-GGCGTGAAGTAGATCAAAGATAACAAATCTTGTCTTCCCATACTGGT
28165663 GGT-AAGTAGA
65 GGTGAAGTAGA
28165673 GTGAAGATTA
Statistics
Matches: 300, Mismatches: 36, Indels: 7
0.87 0.10 0.02
Matches are distributed among these distances:
88 168 0.56
89 131 0.44
90 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (89 bp):
TCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAAATCTTGTCTTCCCATACTGGTG
GTGAAGTAGATCGAAGAAAACAGA
Found at i:28165720 original size:265 final size:265
Alignment explanation
Indices: 28165245--28165723 Score: 619
Period size: 265 Copynumber: 1.8 Consensus size: 265
28165235 AAGTAGTAGT
*
28165245 TCTTGTCTTCATGTACTGGCATGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGGTG
1 TCTTGTCTTCATGTACTGGCATGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGATG
* * *
28165310 GCGAAGTAGATCGAAGAAAACAAATCTTGTCTTTATGTACTGGCGTGAAGTAGATCAAAGAAACA
66 GCGAAGCAGATCGAAGAAAACAAATCTTATCTTCATGTACTGGCGTGAAGTAGATCAAAGAAACA
* * * * * * * * *
28165375 AATCTTGTCTCCCCATACTGGTGGTGGAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTACTT
131 AATCTTATCTCCCCATACTGGCGGTGAAGTAGATCAAAGATAGCAAATCTTATCTCCAAGCACGT
* *
28165440 GCGTGAAGTAGATCAAAGAAACAAATCTTGTCTTCCCATACTGGTGGTGGAGTAGATCGAAGAAA
196 GAGTGAAGCAGATCAAAGAAACAAATCTTGTCTTCCCATACTGGTGGTGGAGTAGATCGAAGAAA
28165505 ATAGA
261 ATAGA
* * *
28165510 TCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGTCTTCCCGTACTGATG
1 TCTTGTCTTCATGTACTGGCATGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGATG
* * *
28165575 GCTAAGCAGATCGAAGAAAACAGATCTTATCTTCATGTA-TCGGCGTGAAGTAGATCAAATACAA
66 GCGAAGCAGATCGAAGAAAACAAATCTTATCTTCATGTACT-GGCGTGAAGTAGATCAAAGA-AA
* * * * *
28165639 CATATTTTATCTTCCCATACTGGCGGT-AAGTAGAGT-GAAGATTA-TAAATCTTATCTCCCTAA
129 CAAATCTTATCTCCCCATACTGGCGGTGAAGTAGA-TCAAAGA-TAGCAAATCTTATCT-CC-AA
*
28165701 GCA-GT-AGTGGAGCAGATCAAAGA
190 GCACGTGAGTGAAGCAGATCAAAGA
28165724 TGGCAGATTT
Statistics
Matches: 181, Mismatches: 27, Indels: 12
0.82 0.12 0.05
Matches are distributed among these distances:
264 1 0.01
265 148 0.82
266 29 0.16
267 3 0.02
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.29
Consensus pattern (265 bp):
TCTTGTCTTCATGTACTGGCATGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGATG
GCGAAGCAGATCGAAGAAAACAAATCTTATCTTCATGTACTGGCGTGAAGTAGATCAAAGAAACA
AATCTTATCTCCCCATACTGGCGGTGAAGTAGATCAAAGATAGCAAATCTTATCTCCAAGCACGT
GAGTGAAGCAGATCAAAGAAACAAATCTTGTCTTCCCATACTGGTGGTGGAGTAGATCGAAGAAA
ATAGA
Found at i:28165867 original size:44 final size:45
Alignment explanation
Indices: 28165803--28165900 Score: 144
Period size: 44 Copynumber: 2.2 Consensus size: 45
28165793 CAGTGGAATC
* ** *
28165803 GATCAAAGAAAGCAGATCTTGTCTTCATGTATTGGT-GTGAAGTA
1 GATCGAAGAAAGCAGATCTTGTCTTCACATACTGGTGGTGAAGTA
*
28165847 GATCGAAGAAAGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTA
1 GATCGAAGAAAGCAGATCTTGTCTTCACATACTGGTGGTGAAGTA
28165892 GATCGAAGA
1 GATCGAAGA
28165901 TACAAGTCTT
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
44 31 0.65
45 17 0.35
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.28
Consensus pattern (45 bp):
GATCGAAGAAAGCAGATCTTGTCTTCACATACTGGTGGTGAAGTA
Found at i:28166104 original size:44 final size:43
Alignment explanation
Indices: 28165891--28166108 Score: 130
Period size: 44 Copynumber: 5.1 Consensus size: 43
28165881 GTGGTGAAGT
*
28165891 AGATCGAAGATACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGC
1 AGATTGAAG-TACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGC
* ** * * *
28165935 AGACTGAAGTAACCAA-TCCAATCTCCTTGAAGTTGCAATGGAGT
1 AGATTGAAGT-A-CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGC
* * * * *
28165979 GGATT-AAG-ACCACAGATCTCATCTCTCTGAAGTTGTAGTAGAGC
1 AGATTGAAGTA-CA-AG-TCTTATCTCCCTGAAGTTGCAGTGGAGC
* * * * * **
28166023 AGATCGCA-T-C-AGACTTATCT---TTAAGTTGTAGCAGAGC
1 AGATTGAAGTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGC
*
28166060 AAATTGAAGCTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGC
1 AGATTGAAG-TACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGC
28166104 AGATT
1 AGATT
28166109 AAAGATAGCA
Statistics
Matches: 127, Mismatches: 33, Indels: 28
0.68 0.18 0.15
Matches are distributed among these distances:
37 20 0.16
39 1 0.01
40 7 0.06
41 15 0.12
42 1 0.01
43 5 0.04
44 74 0.58
45 4 0.03
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (43 bp):
AGATTGAAGTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGC
Found at i:28166582 original size:18 final size:19
Alignment explanation
Indices: 28166547--28166583 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
28166537 AGCAATAGGG
*
28166547 AGCGCCGCAACAAGCCCTC
1 AGCGCCACAACAAGCCCTC
28166566 AGCGCCACAAC-AGCCCTC
1 AGCGCCACAACAAGCCCTC
28166584 GCCTCCAGCG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.27, C:0.49, G:0.19, T:0.05
Consensus pattern (19 bp):
AGCGCCACAACAAGCCCTC
Found at i:28170661 original size:23 final size:23
Alignment explanation
Indices: 28170631--28170927 Score: 333
Period size: 23 Copynumber: 12.7 Consensus size: 23
28170621 TTCGATTCAA
*
28170631 GTCCAATTTGGTGTATAAATGCT
1 GTCCAATTTGGTGTATATATGCT
28170654 GTCCAATTTGGTGTATATATGCT
1 GTCCAATTTGGTGTATATATGCT
* * * *
28170677 GTCCAGTTTTAGTGTAAAAATGCT
1 GTCCA-ATTTGGTGTATATATGCT
* *
28170701 ATCCAATTTGGTATATATATGCT
1 GTCCAATTTGGTGTATATATGCT
* ** *
28170724 GCCCAATTTGGTGTCCATATGTT
1 GTCCAATTTGGTGTATATATGCT
* **
28170747 GTCCAATTTGATAAATATATGCT
1 GTCCAATTTGGTGTATATATGCT
*
28170770 GCCCAATTTGGTGTATATATGCT
1 GTCCAATTTGGTGTATATATGCT
* *
28170793 GTCCAATTTTGGTGTACAAATGCT
1 GTCCAA-TTTGGTGTATATATGCT
* *
28170817 GTCGAATTTGGTGTCTATATGCT
1 GTCCAATTTGGTGTATATATGCT
*
28170840 GTCCAATTTTGGTGTATAAATGCT
1 GTCCAA-TTTGGTGTATATATGCT
*
28170864 GTCCAATTTGGTGTTTATATGCT
1 GTCCAATTTGGTGTATATATGCT
** *
28170887 GTCCAAATGGGGTGTATAAATGCT
1 GTCC-AATTTGGTGTATATATGCT
*
28170911 GTCCAATTTGATGTATA
1 GTCCAATTTGGTGTATA
28170928 AGAGCTGTTC
Statistics
Matches: 223, Mismatches: 47, Indels: 8
0.80 0.17 0.03
Matches are distributed among these distances:
23 145 0.65
24 78 0.35
ACGTcount: A:0.25, C:0.14, G:0.21, T:0.40
Consensus pattern (23 bp):
GTCCAATTTGGTGTATATATGCT
Found at i:28170692 original size:47 final size:46
Alignment explanation
Indices: 28170631--28170927 Score: 333
Period size: 47 Copynumber: 6.4 Consensus size: 46
28170621 TTCGATTCAA
* *
28170631 GTCCAATTTGGTGTATAAATGCTGTCCAATTTGGTGTATATATGCT
1 GTCCAATTTGGTGTATATATGCTGTCCAATTTGGTGTATAAATGCT
* * * * * * *
28170677 GTCCAGTTTTAGTGTAAAAATGCTATCCAATTTGGTATATATATGCT
1 GTCCA-ATTTGGTGTATATATGCTGTCCAATTTGGTGTATAAATGCT
* ** * * ** *
28170724 GCCCAATTTGGTGTCCATATGTTGTCCAATTTGATAAATATATGCT
1 GTCCAATTTGGTGTATATATGCTGTCCAATTTGGTGTATAAATGCT
* *
28170770 GCCCAATTTGGTGTATATATGCTGTCCAATTTTGGTGTACAAATGCT
1 GTCCAATTTGGTGTATATATGCTGTCCAA-TTTGGTGTATAAATGCT
* *
28170817 GTCGAATTTGGTGTCTATATGCTGTCCAATTTTGGTGTATAAATGCT
1 GTCCAATTTGGTGTATATATGCTGTCCAA-TTTGGTGTATAAATGCT
* **
28170864 GTCCAATTTGGTGTTTATATGCTGTCCAAATGGGGTGTATAAATGCT
1 GTCCAATTTGGTGTATATATGCTGTCC-AATTTGGTGTATAAATGCT
*
28170911 GTCCAATTTGATGTATA
1 GTCCAATTTGGTGTATA
28170928 AGAGCTGTTC
Statistics
Matches: 215, Mismatches: 33, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
46 63 0.29
47 150 0.70
48 2 0.01
ACGTcount: A:0.25, C:0.14, G:0.21, T:0.40
Consensus pattern (46 bp):
GTCCAATTTGGTGTATATATGCTGTCCAATTTGGTGTATAAATGCT
Found at i:28170935 original size:70 final size:70
Alignment explanation
Indices: 28170631--28170928 Score: 330
Period size: 70 Copynumber: 4.3 Consensus size: 70
28170621 TTCGATTCAA
* ** * *
28170631 GTCCAATTTGGTGTATAAATGCTGTCCAATTTGGTGTATATATGCTGTCCAGTTTTAGTGTAAAA
1 GTCCAATTTGGTGTATAAATGCTGTCCAATTTGGTGTACATATGCTGTCCAAATTTGGTGTATAA
28170696 ATGCT
66 ATGCT
* * * * * * * ** *
28170701 ATCCAATTTGGTATATATATGCTGCCCAATTTGGTGTCCATATGTTGTCC-AATTTGATAAATAT
1 GTCCAATTTGGTGTATAAATGCTGTCCAATTTGGTGTACATATGCTGTCCAAATTTGGTGTATAA
28170765 ATGCT
66 ATGCT
* * * * *
28170770 GCCCAATTTGGTGTATATATGCTGTCCAATTTTGGTGTACAAATGCTGT-CGAATTTGGTGTCTA
1 GTCCAATTTGGTGTATAAATGCTGTCCAA-TTTGGTGTACATATGCTGTCCAAATTTGGTGTATA
*
28170834 TATGCT
65 AATGCT
** **
28170840 GTCCAATTTTGGTGTATAAATGCTGTCCAATTTGGTGTTTATATGCTGTCCAAATGGGGTGTATA
1 GTCCAA-TTTGGTGTATAAATGCTGTCCAATTTGGTGTACATATGCTGTCCAAATTTGGTGTATA
28170905 AATGCT
65 AATGCT
*
28170911 GTCCAATTTGATGTATAA
1 GTCCAATTTGGTGTATAA
28170929 GAGCTGTTCA
Statistics
Matches: 187, Mismatches: 37, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
69 37 0.20
70 106 0.57
71 44 0.24
ACGTcount: A:0.25, C:0.14, G:0.21, T:0.40
Consensus pattern (70 bp):
GTCCAATTTGGTGTATAAATGCTGTCCAATTTGGTGTACATATGCTGTCCAAATTTGGTGTATAA
ATGCT
Found at i:28172562 original size:30 final size:31
Alignment explanation
Indices: 28172523--28172582 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
28172513 GGAGGTGGGA
*
28172523 TGGGAAGGGAATAAAAGTTTTAGGG-GAAAAG
1 TGGGAAGGGAATAAAAATTTT-GGGAGAAAAG
*
28172554 TGGG-AGGGAGTAAAAATTTTGGGAGAAAA
1 TGGGAAGGGAATAAAAATTTTGGGAGAAAA
28172583 TTAAAGGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 3 0.12
30 19 0.73
31 4 0.15
ACGTcount: A:0.42, C:0.00, G:0.38, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTGGGAGAAAAG
Found at i:28173744 original size:20 final size:20
Alignment explanation
Indices: 28173721--28173777 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 20
28173711 ATACTAGAAT
*
28173721 AAAAGTATCAATACTTTGAC
1 AAAAGTATCAATACTTTGAA
** *
28173741 AAAAGTATTGATTCTTTGAA
1 AAAAGTATCAATACTTTGAA
28173761 AAAAGTATCAATACTTT
1 AAAAGTATCAATACTTT
28173778 AAGCCAAGTA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.35
Consensus pattern (20 bp):
AAAAGTATCAATACTTTGAA
Found at i:28183154 original size:27 final size:27
Alignment explanation
Indices: 28183113--28183391 Score: 319
Period size: 27 Copynumber: 10.3 Consensus size: 27
28183103 TTAATGGGCC
* *
28183113 TAAAATGACCAAAATACCCACGAAAGG
1 TAAAATGACCAAAATACCCTCGAAGGG
* * *
28183140 TAAAATGATCGAAATACTCCT-GAAAGG
1 TAAAATGACCAAAATAC-CCTCGAAGGG
* * *
28183167 TAAAATGACCGAAATACCTTTGAAGGG
1 TAAAATGACCAAAATACCCTCGAAGGG
* **
28183194 TAAAATAACTGAAATACCC-CTGAAGGG
1 TAAAATGACCAAAATACCCTC-GAAGGG
***
28183221 TAAAATGACTGCAATACCCTCGAAGGG
1 TAAAATGACCAAAATACCCTCGAAGGG
28183248 TAAAATGACCAAAATACCCTCGAAGGG
1 TAAAATGACCAAAATACCCTCGAAGGG
* *
28183275 TAAAATGACTAAAATACCCTTGAAGGG
1 TAAAATGACCAAAATACCCTCGAAGGG
* * *
28183302 TAAAATAACCGAAATACCCTCAAAGGG
1 TAAAATGACCAAAATACCCTCGAAGGG
* *
28183329 TTAAATGACTAAAATACCCTCGAAGGG
1 TAAAATGACCAAAATACCCTCGAAGGG
* *
28183356 TAAAATAACCAAAATACCCCCGAAGGG
1 TAAAATGACCAAAATACCCTCGAAGGG
28183383 TAAAATGAC
1 TAAAATGAC
28183392 TGTTATACCC
Statistics
Matches: 216, Mismatches: 32, Indels: 8
0.84 0.12 0.03
Matches are distributed among these distances:
26 2 0.01
27 211 0.98
28 3 0.01
ACGTcount: A:0.45, C:0.19, G:0.18, T:0.18
Consensus pattern (27 bp):
TAAAATGACCAAAATACCCTCGAAGGG
Found at i:28183250 original size:81 final size:81
Alignment explanation
Indices: 28183113--28183393 Score: 352
Period size: 81 Copynumber: 3.5 Consensus size: 81
28183103 TTAATGGGCC
* * * *
28183113 TAAAATGACCAAAATACCCAC-GAAAGGTAAAATGA-TCGAAATACTCCT-GAAAGGTAAAATGA
1 TAAAATAACTAAAATACCC-CTGAAGGGTAAAATGACT-GAAATAC-CCTCGAAGGGTAAAATGA
* * *
28183175 CCGAAATACCTTTGAAGGG
63 CCAAAATACCCTCGAAGGG
* *
28183194 TAAAATAACTGAAATACCCCTGAAGGGTAAAATGACTGCAATACCCTCGAAGGGTAAAATGACCA
1 TAAAATAACTAAAATACCCCTGAAGGGTAAAATGACTGAAATACCCTCGAAGGGTAAAATGACCA
28183259 AAATACCCTCGAAGGG
66 AAATACCCTCGAAGGG
* * * * * * *
28183275 TAAAATGACTAAAATACCCTTGAAGGGTAAAATAACCGAAATACCCTCAAAGGGTTAAATGACTA
1 TAAAATAACTAAAATACCCCTGAAGGGTAAAATGACTGAAATACCCTCGAAGGGTAAAATGACCA
28183340 AAATACCCTCGAAGGG
66 AAATACCCTCGAAGGG
* *
28183356 TAAAATAACCAAAATACCCCCGAAGGGTAAAATGACTG
1 TAAAATAACTAAAATACCCCTGAAGGGTAAAATGACTG
28183394 TTATACCCCT
Statistics
Matches: 173, Mismatches: 24, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
80 4 0.02
81 168 0.97
82 1 0.01
ACGTcount: A:0.44, C:0.19, G:0.18, T:0.18
Consensus pattern (81 bp):
TAAAATAACTAAAATACCCCTGAAGGGTAAAATGACTGAAATACCCTCGAAGGGTAAAATGACCA
AAATACCCTCGAAGGG
Found at i:28183625 original size:26 final size:26
Alignment explanation
Indices: 28183572--28183643 Score: 90
Period size: 26 Copynumber: 2.8 Consensus size: 26
28183562 ACATATACTG
* * *
28183572 TTACTGGCAGCTTTGCTACGTTACTA
1 TTACTGGCAGCTTTGCTGCATCACTA
* *
28183598 TTATTGGCAGCTTTGCTGCATCATTA
1 TTACTGGCAGCTTTGCTGCATCACTA
*
28183624 TTACTGACAGCTTTGCTGCA
1 TTACTGGCAGCTTTGCTGCA
28183644 ATATTGGTGT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.19, C:0.22, G:0.19, T:0.39
Consensus pattern (26 bp):
TTACTGGCAGCTTTGCTGCATCACTA
Found at i:28183808 original size:33 final size:33
Alignment explanation
Indices: 28183743--28183808 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
28183733 TGCATTACTG
* *
28183743 CATTGTACTGTTACTGTACTAGGCTAATGCCCA
1 CATTGTACTGTTACTGTAATAGGCTAAGGCCCA
*
28183776 CATTGTACTGTTACTG-AATAGGGCTCAGGCCCA
1 CATTGTACTGTTACTGTAATA-GGCTAAGGCCCA
28183809 GACTGTTACT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 3 0.10
33 26 0.90
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.30
Consensus pattern (33 bp):
CATTGTACTGTTACTGTAATAGGCTAAGGCCCA
Found at i:28184191 original size:14 final size:15
Alignment explanation
Indices: 28184168--28184208 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
28184158 ATAAAATTTC
28184168 AAAAATATTTAATAA-
1 AAAAA-ATTTAATAAT
*
28184183 CAAAAATTTAATAAT
1 AAAAAATTTAATAAT
28184198 AAAAAATTTAA
1 AAAAAATTTAA
28184209 ACATCTAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
14 9 0.39
15 14 0.61
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (15 bp):
AAAAAATTTAATAAT
Found at i:28184202 original size:15 final size:14
Alignment explanation
Indices: 28184168--28184208 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
28184158 ATAAAATTTC
*
28184168 AAAAATATTTAATA
1 AAAAAAATTTAATA
*
28184182 ACAAAAATTTAATA
1 AAAAAAATTTAATA
28184196 ATAAAAAATTTAA
1 A-AAAAAATTTAA
28184209 ACATCTAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
14 13 0.57
15 10 0.43
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (14 bp):
AAAAAAATTTAATA
Found at i:28186721 original size:42 final size:42
Alignment explanation
Indices: 28186674--28186844 Score: 254
Period size: 42 Copynumber: 4.0 Consensus size: 42
28186664 CTAACTTTTT
*
28186674 GCGGCGCTTACAAAAAAACGCCGCTAAAGATCATGTTCTTTA
1 GCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTTCTTTA
* * * *
28186716 GCGGCGCTAAGAAAATAATCGACGCTAAATATCATGTTCTTTA
1 GCGGCGCTTAGAAAA-AAACGCCGCTAAAGATCATGTTCTTTA
* *
28186759 GCGGCGCTTATG-AAAAAATGCCGCTAAAGATCACGTTCTTTA
1 GCGGCGCTTA-GAAAAAAACGCCGCTAAAGATCATGTTCTTTA
28186801 GCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTTCTTTA
1 GCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTTCTTTA
28186843 GC
1 GC
28186845 NNNNNNNNNN
Statistics
Matches: 113, Mismatches: 13, Indels: 6
0.86 0.10 0.05
Matches are distributed among these distances:
41 1 0.01
42 75 0.66
43 36 0.32
44 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.25
Consensus pattern (42 bp):
GCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTTCTTTA
Found at i:28186785 original size:85 final size:84
Alignment explanation
Indices: 28186674--28186844 Score: 261
Period size: 85 Copynumber: 2.0 Consensus size: 84
28186664 CTAACTTTTT
* *
28186674 GCGGCGCTTACAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTAAGAAAATAATCGAC
1 GCGGCGCTTACAAAAAAACGCCGCTAAAGATCACGTTCTTTAGCGGCGCTAAGAAAA-AAACGAC
*
28186739 GCTAAATATCATGTTCTTTA
65 GCTAAAGATCATGTTCTTTA
** * * *
28186759 GCGGCGCTTATGAAAAAATGCCGCTAAAGATCACGTTCTTTAGCGGCGCTTAGAAAAAAACGCCG
1 GCGGCGCTTACAAAAAAACGCCGCTAAAGATCACGTTCTTTAGCGGCGCTAAGAAAAAAACGACG
28186824 CTAAAGATCATGTTCTTTA
66 CTAAAGATCATGTTCTTTA
28186843 GC
1 GC
28186845 NNNNNNNNNN
Statistics
Matches: 78, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
84 26 0.33
85 52 0.67
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.25
Consensus pattern (84 bp):
GCGGCGCTTACAAAAAAACGCCGCTAAAGATCACGTTCTTTAGCGGCGCTAAGAAAAAAACGACG
CTAAAGATCATGTTCTTTA
Found at i:28194367 original size:9 final size:9
Alignment explanation
Indices: 28194304--28194387 Score: 50
Period size: 9 Copynumber: 9.8 Consensus size: 9
28194294 NNNNNNAATA
28194304 TTATGTAAG
1 TTATGTAAG
*
28194313 CTATGT-A-
1 TTATGTAAG
* *
28194320 TTATGAAAT
1 TTATGTAAG
*
28194329 TTAAGTAAG
1 TTATGTAAG
*
28194338 TTGTGT-A-
1 TTATGTAAG
* *
28194345 TTGTATAAG
1 TTATGTAAG
*
28194354 TTATGTAGG
1 TTATGTAAG
* *
28194363 TTATGAAAA
1 TTATGTAAG
28194372 TTATGTAAG
1 TTATGTAAG
28194381 TTATGTA
1 TTATGTA
28194388 CTGTGAAAAT
Statistics
Matches: 54, Mismatches: 17, Indels: 8
0.68 0.22 0.10
Matches are distributed among these distances:
7 9 0.17
8 4 0.07
9 41 0.76
ACGTcount: A:0.35, C:0.01, G:0.20, T:0.44
Consensus pattern (9 bp):
TTATGTAAG
Found at i:28194400 original size:25 final size:25
Alignment explanation
Indices: 28194366--28194450 Score: 73
Period size: 25 Copynumber: 3.3 Consensus size: 25
28194356 ATGTAGGTTA
28194366 TGAAAATTATGTAAGTTATGTACTG
1 TGAAAATTATGTAAGTTATGTACTG
* * *
28194391 TGAAAATTATTATTAAAGTTAAGTA-AG
1 TGAAAATTA-T-GT-AAGTTATGTACTG
* * *
28194418 TTCAATATTATGTAAGTTATGTACTA
1 -TGAAAATTATGTAAGTTATGTACTG
28194444 TGAAAAT
1 TGAAAAT
28194451 CTAAAAAAGT
Statistics
Matches: 44, Mismatches: 11, Indels: 10
0.68 0.17 0.15
Matches are distributed among these distances:
25 23 0.52
26 2 0.05
27 3 0.07
28 16 0.36
ACGTcount: A:0.41, C:0.04, G:0.15, T:0.40
Consensus pattern (25 bp):
TGAAAATTATGTAAGTTATGTACTG
Found at i:28197100 original size:12 final size:12
Alignment explanation
Indices: 28197083--28197109 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
28197073 AAATTATGAC
28197083 ATTATTAATATT
1 ATTATTAATATT
28197095 ATTATTAATATT
1 ATTATTAATATT
28197107 ATT
1 ATT
28197110 TAAAAAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
ATTATTAATATT
Found at i:28197730 original size:7 final size:7
Alignment explanation
Indices: 28197641--28197710 Score: 61
Period size: 7 Copynumber: 10.0 Consensus size: 7
28197631 ACTAAAGCGA
28197641 CCTAAAC
1 CCTAAAC
28197648 CCTAAAC
1 CCTAAAC
28197655 CC-AAAC
1 CCTAAAC
*
28197661 CCCAAAC
1 CCTAAAC
*
28197668 CTTAAAC
1 CCTAAAC
*
28197675 CCCAAAC
1 CCTAAAC
* *
28197682 TCTCAACC
1 CCT-AAAC
28197690 CCTAAAC
1 CCTAAAC
*
28197697 CCAAAAC
1 CCTAAAC
*
28197704 ACTAAAC
1 CCTAAAC
28197711 ATACATCATA
Statistics
Matches: 49, Mismatches: 12, Indels: 4
0.75 0.18 0.06
Matches are distributed among these distances:
6 6 0.12
7 38 0.78
8 5 0.10
ACGTcount: A:0.44, C:0.44, G:0.00, T:0.11
Consensus pattern (7 bp):
CCTAAAC
Found at i:28198404 original size:114 final size:112
Alignment explanation
Indices: 28198050--28198746 Score: 620
Period size: 114 Copynumber: 6.2 Consensus size: 112
28198040 NNNNNNNNNN
* **
28198050 TGCGTTTTGGTTAAGATATTTTGCGGCGATTCTTACAAAGCATCTCTAATACTCTGCTTTAGCGG
1 TGCGTTTTGGTTAAGATATTTTGCGGCGTTTCTTACAAAGCGCCTCTAATACTCT-CTTTAGCGG
* * *
28198115 CCTTTTTCTGTAACCGCCACTAATTCTTATATACCTCAAGACAAAACGA
65 CGTTTTTCCGTAACCGCCACTAATTCTTATATACCTCAAGACCAAA-GA
* * * *
28198164 TGCGTTTTGGTTAAGATATTTTGCGGCGTTTTGCATA-AAA-CGCCGCTAATACTGTGTTATAGC
1 TGCGTTTTGGTTAAGATATTTTGCGGCG-TTT-CTTACAAAGCGCCTCTAATACTCTCTT-TAGC
* ** * * * * *
28198227 -GCGTTTTCCCACAATCGCCACTAATTCTAATATACATTAAGACCAAACA
63 GGCGTTTTTCCGTAACCGCCACTAATTCTTATATACCTCAAGACCAAAGA
* *
28198276 CTGCGTTTTGGTTAAGATAATTTGCGGCGTTTCTTACAAAGCGCCTCTAATACTCTCCCTTAGCG
1 -TGCGTTTTGGTTAAGATATTTTGCGGCGTTTCTTACAAAGCGCCTCTAATACTCT-CTTTAGCG
* * *
28198341 GTGTTTTTCTGTAACCGCCACTAATTCTTATATACCTCAAGACAAAATGA
64 GCGTTTTTCCGTAACCGCCACTAATTCTTATATACCTCAAGACCAAA-GA
* *
28198391 TGCGTTTTGGTTAAGATATTTTGCGGCG-TT-TT----A-------TAATACTGTGCTATAGCGG
1 TGCGTTTTGGTTAAGATATTTTGCGGCGTTTCTTACAAAGCGCCTCTAATACTCT-CTTTAGCGG
* ** ** * * * *
28198443 CGTTTTCCCACAATTGCCACTAATTCTAATATACATTAAGACCAAACA
65 CGTTTTTCCGTAACCGCCACTAATTCTTATATACCTCAAGACCAAAGA
* * *
28198491 CTGCATTTTGGTTAAGATAATTTGCGGCGTTTCTTACAAAGCGCCTCTAATACTCTCCTTTAGTG
1 -TGCGTTTTGGTTAAGATATTTTGCGGCGTTTCTTACAAAGCGCCTCTAATACTCT-CTTTAGCG
28198556 GCGTTTTTCCGTAACCGCCACTAATTCTTATATACCTCAAGACCAAACGA
64 GCGTTTTTCCGTAACCGCCACTAATTCTTATATACCTCAAGACCAAA-GA
* * ** * * * *
28198606 TGCGTTTTGGTTAAGATATTTTACGGCGTTTAC-TAAAAAAAGCCGCTAATAATATACTATAGCG
1 TGCGTTTTGGTTAAGATATTTTGCGGCGTTT-CTTACAAAGCGCCTCTAATACTCT-CTTTAGCG
* * * * * * * * *
28198670 GCGTTTAT-CATAAACGTCACCAAGTCTAATATACCTCGAGAACAAACGA
64 GCGTTTTTCCGTAACCGCCACTAATTCTTATATACCTCAAGACCAAA-GA
* * *
28198719 TGCGTTTTGGCTAACATTTTTTGCGGCG
1 TGCGTTTTGGTTAAGATATTTTGCGGCG
28198747 CTTACAAATA
Statistics
Matches: 466, Mismatches: 92, Indels: 51
0.77 0.15 0.08
Matches are distributed among these distances:
100 1 0.00
101 76 0.16
102 2 0.00
103 2 0.00
107 1 0.00
108 1 0.00
111 3 0.01
112 9 0.02
113 142 0.30
114 218 0.47
115 8 0.02
116 3 0.01
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.34
Consensus pattern (112 bp):
TGCGTTTTGGTTAAGATATTTTGCGGCGTTTCTTACAAAGCGCCTCTAATACTCTCTTTAGCGGC
GTTTTTCCGTAACCGCCACTAATTCTTATATACCTCAAGACCAAAGA
Found at i:28198598 original size:215 final size:217
Alignment explanation
Indices: 28198054--28198637 Score: 904
Period size: 215 Copynumber: 2.7 Consensus size: 217
28198044 NNNNNNTGCG
* * ** * *
28198054 TTTTGGTTAAGATATTTTGCGGCGATTCTTACAAAGCATCTCTAATACTCTGCTTTAGCGGCCTT
1 TTTTGGTTAAGATAATTTGCGGCGTTTCTTACAAAGCGCCTCTAATACTCTCCTTTAGCGGCGTT
28198119 TTTCTGTAACCGCCACTAATTCTTATATACCTCAAGACAAAACGATGCGTTTTGGTTAAGATATT
66 TTTCTGTAACCGCCACTAATTCTTATATACCTCAAGACAAAACGATGCGTTTTGGTTAAGATATT
*
28198184 TTGCGGCGTTTTGCATAAAACGCCGCTAATACTGTGTTATAGCGCGTTTTCCCACAATCGCCACT
131 TTGCGGCG-TTT--AT--AA-----CTAATACTGTGCTATAGCGCGTTTTCCCACAATCGCCACT
*
28198249 AATTCTAATATACATTAAGACCAAACACTGCG
186 AATTCTAATATACATTAAGACCAAACACTGCA
* *
28198281 TTTTGGTTAAGATAATTTGCGGCGTTTCTTACAAAGCGCCTCTAATACTCTCCCTTAGCGGTGTT
1 TTTTGGTTAAGATAATTTGCGGCGTTTCTTACAAAGCGCCTCTAATACTCTCCTTTAGCGGCGTT
*
28198346 TTTCTGTAACCGCCACTAATTCTTATATACCTCAAGACAAAATGATGCGTTTTGGTTAAGATATT
66 TTTCTGTAACCGCCACTAATTCTTATATACCTCAAGACAAAACGATGCGTTTTGGTTAAGATATT
*
28198411 TTGCGGCGTTT-T-A-TAATACTGTGCTATAGCGGCGTTTTCCCACAATTGCCACTAATTCTAAT
131 TTGCGGCGTTTATAACTAATACTGTGCTATAGC-GCGTTTTCCCACAATCGCCACTAATTCTAAT
28198473 ATACATTAAGACCAAACACTGCA
195 ATACATTAAGACCAAACACTGCA
*
28198496 TTTTGGTTAAGATAATTTGCGGCGTTTCTTACAAAGCGCCTCTAATACTCTCCTTTAGTGGCGTT
1 TTTTGGTTAAGATAATTTGCGGCGTTTCTTACAAAGCGCCTCTAATACTCTCCTTTAGCGGCGTT
* *
28198561 TTTCCGTAACCGCCACTAATTCTTATATACCTCAAGACCAAACGATGCGTTTTGGTTAAGATATT
66 TTTCTGTAACCGCCACTAATTCTTATATACCTCAAGACAAAACGATGCGTTTTGGTTAAGATATT
*
28198626 TTACGGCGTTTA
131 TTGCGGCGTTTA
28198638 CTAAAAAAAG
Statistics
Matches: 336, Mismatches: 19, Indels: 15
0.91 0.05 0.04
Matches are distributed among these distances:
214 16 0.05
215 186 0.55
220 1 0.00
223 1 0.00
226 3 0.01
227 129 0.38
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.35
Consensus pattern (217 bp):
TTTTGGTTAAGATAATTTGCGGCGTTTCTTACAAAGCGCCTCTAATACTCTCCTTTAGCGGCGTT
TTTCTGTAACCGCCACTAATTCTTATATACCTCAAGACAAAACGATGCGTTTTGGTTAAGATATT
TTGCGGCGTTTATAACTAATACTGTGCTATAGCGCGTTTTCCCACAATCGCCACTAATTCTAATA
TACATTAAGACCAAACACTGCA
Found at i:28201821 original size:113 final size:113
Alignment explanation
Indices: 28201615--28201821 Score: 247
Period size: 113 Copynumber: 1.8 Consensus size: 113
28201605 TTGTCTTGAT
** * * * * *
28201615 GTATACTAGAATTAGTGGCGATTATGAGAAAACGCCGCTAAAGCAAGTATTAGCGGCGCATTGTG
1 GTATACTAGAATTAGTGGCGATTACAAAAAAACGCCACTAAAACAAGTATTAGCGGCACATTGCG
** * *
28201680 GGAAGCGCCGCAAATATCTTAACGAAAACATACCGTTTTGGTATCGAA
66 AAAAGCGCCGCAAATATCATAACCAAAACATACCGTTTTGGTATCGAA
* *
28201728 GTATATTAGAATTAGTGGCGCTTACAAAAAAACGCCACTAAAACAAGTCA-TAGCGGCAC-TTGC
1 GTATACTAGAATTAGTGGCGATTACAAAAAAACGCCACTAAAACAAGT-ATTAGCGGCACATTGC
* *
28201791 GAAAAGCGCCGCCATATATGATAACCAAAAC
65 GAAAAGCGCCG-CAAATATCATAACCAAAAC
28201822 GCAGAGTTTT
Statistics
Matches: 77, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
112 12 0.16
113 64 0.83
114 1 0.01
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.22
Consensus pattern (113 bp):
GTATACTAGAATTAGTGGCGATTACAAAAAAACGCCACTAAAACAAGTATTAGCGGCACATTGCG
AAAAGCGCCGCAAATATCATAACCAAAACATACCGTTTTGGTATCGAA
Found at i:28202118 original size:74 final size:73
Alignment explanation
Indices: 28201981--28202120 Score: 174
Period size: 73 Copynumber: 1.9 Consensus size: 73
28201971 GTGCTTGTTT
* * *
28201981 AGAAGCGCTGCAAAATATCTTAACCAGAACGCAGAGTTTGGTCTTGTAGTATACTAGAATTAGTG
1 AGAAGCGCCGCAAAATATCTTAACCAAAACGCAGAGTTTGGTCCTGTAGTATACTAGAATTAGTG
28202046 GCGTTTGG
66 GCGTTTGG
* * * * * *
28202054 AGAAGCGCCGCTAAATTTCTTAACCAAAACTCAGCGTTTTGGTCCTG-ATGTATACTATAGTTAG
1 AGAAGCGCCGCAAAATATCTTAACCAAAACGCAGAG-TTTGGTCCTGTA-GTATACTAGAATTAG
28202118 TGG
64 TGG
28202121 GGCTTACTAG
Statistics
Matches: 56, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
73 31 0.55
74 25 0.45
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (73 bp):
AGAAGCGCCGCAAAATATCTTAACCAAAACGCAGAGTTTGGTCCTGTAGTATACTAGAATTAGTG
GCGTTTGG
Found at i:28202202 original size:188 final size:185
Alignment explanation
Indices: 28201681--28202258 Score: 449
Period size: 188 Copynumber: 3.1 Consensus size: 185
28201671 CGCATTGTGG
* * * ** * * * *
28201681 GAAGCGCCGC-AAATATCTTAACGAAAACATACCGTTTTGGTATCGAAGTATATTAGAATTAGTG
1 GAAGCGCCGCAAAAAATCTTAACCAAAACGTAGAGTTTTGGTCTCGATGTATAATACAATTAGTG
* * * * * * * * * *
28201745 GCGCTTACAAAAAAACGCCACTAAA-ACA-AGTCA-TAGCGGCACTTG-CGAAAAGCGCCGCCAT
66 GCG-TTAGAGAAAAACGCCGCTAAAGA-ATA-ACATTAGCGGCGCTTGTTGAGAAGCGCAGCAAA
* * * **
28201806 ATATGATAACCAAAACGCAGAGTTTTGATCTTGATGTATATTAGATTTAGTGGCGTTTATTA
128 ATAT-CTAACCAAAACGCAGAG-TTTGGTCTTGA-GTATATTAGAATTAGTGGCGTTT-GGA
*
28201868 GAAGTGCCGCAAAAAATCTTAACCAAAACGTAGAGTTTTGGTCTCGATGTATAATACAATTAGTG
1 GAAGCGCCGCAAAAAATCTTAACCAAAACGTAGAGTTTTGGTCTCGATGTATAATACAATTAGTG
** * * *
28201933 GCGTTAGAGAAAAACGCCGCTAAAGCGTAACATTAGCGGTGCTTGTTTAGAAGCGCTGCAAAATA
66 GCGTTAGAGAAAAACGCCGCTAAAGAATAACATTAGCGGCGCTTGTTGAGAAGCGCAGCAAAATA
* *
28201998 TCTTAACCAGAACGCAGAGTTTGGTCTTGTAGTATACTAGAATTAGTGGCGTTTGGA
131 TC-TAACCAAAACGCAGAGTTTGGTCTTG-AGTATATTAGAATTAGTGGCGTTTGGA
* ** * * * *
28202055 GAAGCGCCGCTAAATTTCTTAACCAAAAC-TCAGCGTTTTGGTC-CTGATGTATACTATAGTTAG
1 GAAGCGCCGCAAAAAATCTTAACCAAAACGT-AGAGTTTTGGTCTC-GATGTATAATACAATTAG
* * * ** *
28202118 TGGGGCTTACTAG-AAAACGCCGCTAAATAATAGTATTAGCGGCGC-T-TTGAGATAAGCGCAGT
64 TGGCG-TTA-GAGAAAAACGCCGCTAAAGAATAACATTAGCGGCGCTTGTTGAG--AAGCGCAGC
* * *
28202180 AAGATATGC-ACACCAAAACGCAGAGTTTGGTCTTGGGGTTTATTAGAATTAGTGGCGCTTATGG
125 AAAATAT-CTA-ACCAAAACGCAGAGTTTGGTCTT-GAGTATATTAGAATTAGTGGCG-TT-TGG
28202244 A
185 A
* *
28202245 TAAACGCCGCAAAA
1 GAAGCGCCGCAAAA
28202259 GCATACTATT
Statistics
Matches: 315, Mismatches: 58, Indels: 33
0.78 0.14 0.08
Matches are distributed among these distances:
186 6 0.02
187 87 0.28
188 171 0.54
189 36 0.11
190 15 0.05
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (185 bp):
GAAGCGCCGCAAAAAATCTTAACCAAAACGTAGAGTTTTGGTCTCGATGTATAATACAATTAGTG
GCGTTAGAGAAAAACGCCGCTAAAGAATAACATTAGCGGCGCTTGTTGAGAAGCGCAGCAAAATA
TCTAACCAAAACGCAGAGTTTGGTCTTGAGTATATTAGAATTAGTGGCGTTTGGA
Found at i:28202768 original size:7 final size:7
Alignment explanation
Indices: 28202753--28202809 Score: 60
Period size: 7 Copynumber: 8.0 Consensus size: 7
28202743 TCATTATGGT
*
28202753 GTTTTGG
1 GTTTAGG
28202760 GTTTAGG
1 GTTTAGG
28202767 GTTTAGG
1 GTTTAGG
*
28202774 ATTTTAGG
1 -GTTTAGG
*
28202782 GTTTAAG
1 GTTTAGG
*
28202789 ATTTAGG
1 GTTTAGG
*
28202796 GTTTGGG
1 GTTTAGG
28202803 GTTTAGG
1 GTTTAGG
28202810 CTACTGTAGT
Statistics
Matches: 40, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
7 34 0.85
8 6 0.15
ACGTcount: A:0.16, C:0.00, G:0.39, T:0.46
Consensus pattern (7 bp):
GTTTAGG
Found at i:28202795 original size:14 final size:15
Alignment explanation
Indices: 28202761--28202799 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
28202751 GTGTTTTGGG
*
28202761 TTTAGGGTTTAGGAT
1 TTTAGGGTTTAAGAT
28202776 TTTAGGGTTTAAGA-
1 TTTAGGGTTTAAGAT
28202790 TTTAGGGTTT
1 TTTAGGGTTT
28202800 GGGGTTTAGG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 10 0.43
15 13 0.57
ACGTcount: A:0.21, C:0.00, G:0.31, T:0.49
Consensus pattern (15 bp):
TTTAGGGTTTAAGAT
Found at i:28206695 original size:21 final size:21
Alignment explanation
Indices: 28206669--28206740 Score: 90
Period size: 21 Copynumber: 3.4 Consensus size: 21
28206659 CTACAACTTA
*
28206669 AAGCAGAGGCGGCAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
* *
28206690 AAGCAGCGACTGCAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
* * *
28206711 AAGTAGAGGCTGCAACGAGAG
1 AAGCAGAGGCTGCAGCGAGGG
28206732 AAGCAGAGG
1 AAGCAGAGG
28206741 AGAGCAAAAA
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.33, C:0.18, G:0.44, T:0.04
Consensus pattern (21 bp):
AAGCAGAGGCTGCAGCGAGGG
Found at i:28207105 original size:42 final size:42
Alignment explanation
Indices: 28207059--28207156 Score: 160
Period size: 42 Copynumber: 2.3 Consensus size: 42
28207049 TTGTATAAAA
*
28207059 GTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGACCAT
1 GTTCTTTAGCGGCGCTTAGAAAAAAACGCCACTAAAGACCAT
* *
28207101 GTTCTTTAGCAGCGCTTAGAAAGAAACGCCACTAAAGACCAT
1 GTTCTTTAGCGGCGCTTAGAAAAAAACGCCACTAAAGACCAT
*
28207143 GTTCTTTAGTGGCG
1 GTTCTTTAGCGGCG
28207157 TTTTTGTTTG
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 51 1.00
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.24
Consensus pattern (42 bp):
GTTCTTTAGCGGCGCTTAGAAAAAAACGCCACTAAAGACCAT
Found at i:28207640 original size:18 final size:18
Alignment explanation
Indices: 28207617--28207656 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
28207607 TATAATTTTA
*
28207617 AAAAATA-TATAATACATC
1 AAAAATACTA-AAAACATC
28207635 AAAAATACTAAAAACATC
1 AAAAATACTAAAAACATC
28207653 AAAA
1 AAAA
28207657 TAAACATTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 18 0.90
19 2 0.10
ACGTcount: A:0.68, C:0.12, G:0.00, T:0.20
Consensus pattern (18 bp):
AAAAATACTAAAAACATC
Found at i:28208443 original size:43 final size:42
Alignment explanation
Indices: 28208362--28208558 Score: 175
Period size: 43 Copynumber: 4.6 Consensus size: 42
28208352 TTTTAGAACC
* * * * *
28208362 TTTAGCGGCGCTTTT-ACACAAACGCCGCTAAAGGTCATGACT
1 TTTAGCGACGCTTTTCCCACAAACGCCTCTATAGATCATGA-T
*
28208404 TTTAGCGACACTTTTCCCACAAACGCCTCTATAGATCATGATT
1 TTTAGCGACGCTTTTCCCACAAACGCCTCTATAGATCATGA-T
* *
28208447 TTTAGCGGCGCTTTTCCCACAAACGCCTCTATAGAACA-GAT
1 TTTAGCGACGCTTTTCCCACAAACGCCTCTATAGATCATGAT
** * * * *
28208488 CTTTAGCGACGCTTTTTCGTACATACGCCGCTATAGAATAAT-TT
1 -TTTAGCGACGC-TTTTCCCACAAACGCCTCTATAG-ATCATGAT
* * *
28208532 TTTAACGGCGCTTTTCGCACAAACGCC
1 TTTAGCGACGCTTTTCCCACAAACGCC
28208559 ACTAAAAGCA
Statistics
Matches: 128, Mismatches: 22, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
41 1 0.01
42 39 0.30
43 85 0.66
44 3 0.02
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.30
Consensus pattern (42 bp):
TTTAGCGACGCTTTTCCCACAAACGCCTCTATAGATCATGAT
Found at i:28208534 original size:85 final size:85
Alignment explanation
Indices: 28208362--28208564 Score: 216
Period size: 85 Copynumber: 2.4 Consensus size: 85
28208352 TTTTAGAACC
**
28208362 TTTAGCGGCGCTTTT-ACACAAACGCCGCTAAAGGTCATGACTTTTAGCGACACTTTTCCCACAA
1 TTTAGCGGCGCTTTTCACACAAACGCCGCTAAAGAACATGACTTTTAGCGACACTTTTCCCACAA
* *
28208426 ACGCCTCTATAGATCATGATT
66 ACGCCGCTATAGATAAT-ATT
* * * * **
28208447 TTTAGCGGCGCTTTTCCCACAAACGCCTCTATAGAACA-GA-TCTTTAGCGACGCTTTTTCGTAC
1 TTTAGCGGCGCTTTTCACACAAACGCCGCTAAAGAACATGACT-TTTAGCGACAC-TTTTCCCAC
*
28208510 ATACGCCGCTATAGAATAAT-TT
64 AAACGCCGCTATAG-ATAATATT
* * *
28208532 TTTAACGGCGCTTTTCGCACAAACGCCACTAAA
1 TTTAGCGGCGCTTTTCACACAAACGCCGCTAAA
28208565 AGCATATCTT
Statistics
Matches: 99, Mismatches: 15, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
84 1 0.01
85 58 0.59
86 36 0.36
87 4 0.04
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.30
Consensus pattern (85 bp):
TTTAGCGGCGCTTTTCACACAAACGCCGCTAAAGAACATGACTTTTAGCGACACTTTTCCCACAA
ACGCCGCTATAGATAATATT
Found at i:28212764 original size:14 final size:14
Alignment explanation
Indices: 28212740--28212787 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
28212730 TAAAAGCGCA
*
28212740 CTTAAACCATAATC
1 CTTAATCCATAATC
*
28212754 CTTAATTCATAATCC
1 CTTAATCCATAAT-C
* *
28212769 CTAAATCCATACTC
1 CTTAATCCATAATC
28212783 CTTAA
1 CTTAA
28212788 ACCTTAAAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
14 16 0.59
15 11 0.41
ACGTcount: A:0.38, C:0.29, G:0.00, T:0.33
Consensus pattern (14 bp):
CTTAATCCATAATC
Found at i:28213043 original size:21 final size:22
Alignment explanation
Indices: 28212988--28213056 Score: 97
Period size: 21 Copynumber: 3.2 Consensus size: 22
28212978 CCTCACTCAT
28212988 CTAACCCCTAAACCCATAAATCC
1 CTAACCCCTAAA-CCATAAATCC
*
28213011 CTAACCCCTAAACCTTAAATCC
1 CTAACCCCTAAACCATAAATCC
*
28213033 C-AACCCTTAAACCAT-AATCC
1 CTAACCCCTAAACCATAAATCC
28213053 CTAA
1 CTAA
28213057 TCCATACTCC
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
20 6 0.14
21 14 0.33
22 10 0.24
23 12 0.29
ACGTcount: A:0.39, C:0.41, G:0.00, T:0.20
Consensus pattern (22 bp):
CTAACCCCTAAACCATAAATCC
Found at i:28213520 original size:41 final size:41
Alignment explanation
Indices: 28213420--28213784 Score: 356
Period size: 41 Copynumber: 8.9 Consensus size: 41
28213410 AAAATGTTTC
* *
28213420 TAGCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCCAGCAT
1 TAGCGGCGCTTTTTCAAAAACGCCGCTAAAACCCCGAGCAT
* * *
28213461 TAGTGGCGCTTTTT-AAAAAAGCCACTAAAACCCCGAGCAT
1 TAGCGGCGCTTTTTCAAAAACGCCGCTAAAACCCCGAGCAT
* * *
28213501 TAGTGGCGCTTTTTAAAAAACGCCGCTAAAACACCGAGCAT
1 TAGCGGCGCTTTTTCAAAAACGCCGCTAAAACCCCGAGCAT
** * * *
28213542 TAGCAACGCTTTTTCAAAAACACTGCTAAAGTCCCC-AGCAT
1 TAGCGGCGCTTTTTCAAAAACGCCGCTAAA-ACCCCGAGCAT
* * **
28213583 TAGCGGCGCCTTTTCAAACACGCCGCTAAAACCTAGAGCAT
1 TAGCGGCGCTTTTTCAAAAACGCCGCTAAAACCCCGAGCAT
** * ** * *
28213624 TAGCGGCATTTTTTTAAAAATCGCCGCTAAAACATCAAACAT
1 TAGCGGCGCTTTTTCAAAAA-CGCCGCTAAAACCCCGAGCAT
* * * * *
28213666 TAGTGGCGCTTTTCCAAAAACGCTGCTAGAACACCGAGCAT
1 TAGCGGCGCTTTTTCAAAAACGCCGCTAAAACCCCGAGCAT
* * * *
28213707 TAGCGGTGCATTTTCAAAAATGCCGCTAAAGCCCCGAGCAT
1 TAGCGGCGCTTTTTCAAAAACGCCGCTAAAACCCCGAGCAT
*** * *
28213748 TAGCGGCGCTTTTTTGGAAACACCGCTAAAGCCCCGA
1 TAGCGGCGCTTTTTCAAAAACGCCGCTAAAACCCCGA
28213785 AAGGTAAGAA
Statistics
Matches: 260, Mismatches: 60, Indels: 8
0.79 0.18 0.02
Matches are distributed among these distances:
40 38 0.15
41 187 0.72
42 35 0.13
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (41 bp):
TAGCGGCGCTTTTTCAAAAACGCCGCTAAAACCCCGAGCAT
Found at i:28213762 original size:124 final size:122
Alignment explanation
Indices: 28213420--28213762 Score: 402
Period size: 124 Copynumber: 2.8 Consensus size: 122
28213410 AAAATGTTTC
* * * *
28213420 TAGCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCCAGCATTAGTGGCGCTTTTTAAAAAAGCCA
1 TAGCGGCGCTTTTTCAAAAACGCTGCTAAAG-CCCCAGCATTAGCGGCGCTTTTCAAAAAAGCCG
* * *
28213485 CTAAAACCCCGAGCATTAGTGGCGC-TTTTTAAAAAACGCCGCTAAAACACCGAGCAT
65 CTAAAACCCCGAGCATTAGCGGCGCTTTTTTAAAAAACGCCGCTAAAACACCAAACAT
** * * *
28213542 TAGCAACGCTTTTTCAAAAACACTGCTAAAGTCCCCAGCATTAGCGGCGCCTTTTCAAACACGCC
1 TAGCGGCGCTTTTTCAAAAACGCTGCTAAAG-CCCCAGCATTAGCGGCG-CTTTTCAAAAAAGCC
** ** * *
28213607 GCTAAAACCTAGAGCATTAGCGGCATTTTTTTAAAAATCGCCGCTAAAACATCAAACAT
64 GCTAAAACCCCGAGCATTAGCGGCGCTTTTTTAAAAAACGCCGCTAAAACACCAAACAT
* * * * *
28213666 TAGTGGCGCTTTTCCAAAAACGCTGCTAGAA-CACCGAGCATTAGCGGTGCATTTTCAAAAATGC
1 TAGCGGCGCTTTTTCAAAAACGCTGCTA-AAGC-CCCAGCATTAGCGGCGC-TTTTCAAAAAAGC
*
28213730 CGCTAAAGCCCCGAGCATTAGCGGCGCTTTTTT
63 CGCTAAAACCCCGAGCATTAGCGGCGCTTTTTT
28213763 GGAAACACCG
Statistics
Matches: 183, Mismatches: 33, Indels: 8
0.82 0.15 0.04
Matches are distributed among these distances:
122 43 0.23
123 34 0.19
124 104 0.57
125 2 0.01
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (122 bp):
TAGCGGCGCTTTTTCAAAAACGCTGCTAAAGCCCCAGCATTAGCGGCGCTTTTCAAAAAAGCCGC
TAAAACCCCGAGCATTAGCGGCGCTTTTTTAAAAAACGCCGCTAAAACACCAAACAT
Found at i:28216654 original size:3 final size:3
Alignment explanation
Indices: 28216646--28216680 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
28216636 AATCCAGAAT
28216646 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
28216681 TTAATTGGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.31, T:0.34
Consensus pattern (3 bp):
ATG
Found at i:28218915 original size:10 final size:10
Alignment explanation
Indices: 28218900--28218946 Score: 58
Period size: 10 Copynumber: 4.4 Consensus size: 10
28218890 ACCTAAATCC
28218900 TTTCTCTCAA
1 TTTCTCTCAA
28218910 TTTCTCTCCAA
1 TTTCTCT-CAA
28218921 TATTCTCTCAAA
1 T-TTCTCTC-AA
*
28218933 TTCCTCTCAA
1 TTTCTCTCAA
28218943 TTTC
1 TTTC
28218947 CTCCGAAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
10 12 0.38
11 11 0.34
12 9 0.28
ACGTcount: A:0.21, C:0.32, G:0.00, T:0.47
Consensus pattern (10 bp):
TTTCTCTCAA
Found at i:28218939 original size:11 final size:11
Alignment explanation
Indices: 28218903--28218961 Score: 52
Period size: 11 Copynumber: 5.4 Consensus size: 11
28218893 TAAATCCTTT
*
28218903 CTCTC-AATTT
1 CTCTCAAATTC
28218913 CTCTCCAATATT-
1 CTCT-CAA-ATTC
28218925 CTCTCAAATTC
1 CTCTCAAATTC
*
28218936 CTCTCAATTTC
1 CTCTCAAATTC
28218947 CTC-CGAAATTC
1 CTCTC-AAATTC
28218958 CTCT
1 CTCT
28218962 TAAAAAAAGC
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
10 8 0.20
11 25 0.61
12 5 0.12
13 3 0.07
ACGTcount: A:0.22, C:0.36, G:0.02, T:0.41
Consensus pattern (11 bp):
CTCTCAAATTC
Found at i:28218943 original size:22 final size:22
Alignment explanation
Indices: 28218900--28218961 Score: 67
Period size: 22 Copynumber: 2.8 Consensus size: 22
28218890 ACCTAAATCC
*
28218900 TTTCTCTC-AATTTCTCTCCAA
1 TTTCTCTCAAATTCCTCTCCAA
28218921 TATTCTCTCAAATTCCTCT-CAA
1 T-TTCTCTCAAATTCCTCTCCAA
28218943 TTTC-CTCCGAAATTCCTCT
1 TTTCTCT-C-AAATTCCTCT
28218962 TAAAAAAAGC
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
20 2 0.06
21 5 0.14
22 21 0.58
23 8 0.22
ACGTcount: A:0.21, C:0.34, G:0.02, T:0.44
Consensus pattern (22 bp):
TTTCTCTCAAATTCCTCTCCAA
Found at i:28219011 original size:30 final size:30
Alignment explanation
Indices: 28218961--28219039 Score: 151
Period size: 30 Copynumber: 2.7 Consensus size: 30
28218951 GAAATTCCTC
28218961 TTAAAAAAAGCTTTAA-TTTTTTAATTATT
1 TTAAAAAAAGCTTTAATTTTTTTAATTATT
28218990 TTAAAAAAAGCTTTAATTTTTTTAATTATT
1 TTAAAAAAAGCTTTAATTTTTTTAATTATT
28219020 TTAAAAAAAGCTTTAATTTT
1 TTAAAAAAAGCTTTAATTTT
28219040 ATTTTTTTTG
Statistics
Matches: 49, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
29 16 0.33
30 33 0.67
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.51
Consensus pattern (30 bp):
TTAAAAAAAGCTTTAATTTTTTTAATTATT
Found at i:28223188 original size:126 final size:125
Alignment explanation
Indices: 28222907--28223197 Score: 483
Period size: 125 Copynumber: 2.3 Consensus size: 125
28222897 TCAGGCCAAA
* *
28222907 CAGGAGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTTAGTACTTTTGCTGACAAAGC
1 CAGGAGCTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGC
28222972 ATCCTGCTTAAAGCATTTTTACACTATTTGCTCAAAAAAGTCTACTCGAAATTATTTTTT
66 ATCCTGCTTAAAGCATTTTTACACTATTTGCTCAAAAAAGTCTACTCGAAATTATTTTTT
* * *
28223032 CAGGAGCTACTGTAGCAAAAGTGCGTCCACGTAGGAGCTTCTTTCAGTACTTTTGCTGATAAAGC
1 CAGGAGCTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGC
* * **
28223097 ATCCTGCTTAAAGCATTTTTGACACTATTTGCTCAGAAACGTCTTTTCGAAATTATTTTTT
66 ATCCTGCTTAAAGCATTTTT-ACACTATTTGCTCAAAAAAGTCTACTCGAAATTATTTTTT
*
28223158 CAGGAGCTATTGTAGCAAAAGAGCGTCCACGTGGGAGCTT
1 CAGGAGCTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTT
28223198 TTTTTAAATA
Statistics
Matches: 154, Mismatches: 11, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
125 81 0.53
126 73 0.47
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (125 bp):
CAGGAGCTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGC
ATCCTGCTTAAAGCATTTTTACACTATTTGCTCAAAAAAGTCTACTCGAAATTATTTTTT
Found at i:28223421 original size:9 final size:8
Alignment explanation
Indices: 28223395--28223462 Score: 53
Period size: 7 Copynumber: 9.4 Consensus size: 8
28223385 ATTTTTTCTT
28223395 TAAAACCC
1 TAAAACCC
28223403 T-AAA-CC
1 TAAAACCC
28223409 TAAATACCC
1 TAAA-ACCC
28223418 TAAAACCC
1 TAAAACCC
28223426 T--AA-CC
1 TAAAACCC
*
28223431 TTAAA-CC
1 TAAAACCC
*
28223438 TTAAACCC
1 TAAAACCC
28223446 T-AAA-CC
1 TAAAACCC
28223452 TAAAACCC
1 TAAAACCC
28223460 TAA
1 TAA
28223463 CCAACAGGAG
Statistics
Matches: 52, Mismatches: 0, Indels: 16
0.76 0.00 0.24
Matches are distributed among these distances:
5 3 0.06
6 8 0.15
7 20 0.38
8 15 0.29
9 6 0.12
ACGTcount: A:0.47, C:0.34, G:0.00, T:0.19
Consensus pattern (8 bp):
TAAAACCC
Found at i:28223444 original size:14 final size:14
Alignment explanation
Indices: 28223395--28223462 Score: 77
Period size: 14 Copynumber: 4.8 Consensus size: 14
28223385 ATTTTTTCTT
28223395 TAAAACCCTAAACC
1 TAAAACCCTAAACC
28223409 TAAATACCCTAAAACCC
1 TAAA-ACCCT-AAA-CC
*
28223426 T--AACCTTAAACC
1 TAAAACCCTAAACC
*
28223438 TTAAACCCTAAACC
1 TAAAACCCTAAACC
28223452 TAAAACCCTAA
1 TAAAACCCTAA
28223463 CCAACAGGAG
Statistics
Matches: 46, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
12 3 0.07
13 3 0.07
14 28 0.61
15 6 0.13
16 3 0.07
17 3 0.07
ACGTcount: A:0.47, C:0.34, G:0.00, T:0.19
Consensus pattern (14 bp):
TAAAACCCTAAACC
Found at i:28227027 original size:1 final size:1
Alignment explanation
Indices: 28227021--28227067 Score: 76
Period size: 1 Copynumber: 47.0 Consensus size: 1
28227011 CCTAGACCAC
**
28227021 AAAAAAAAAAAAAAAAAAAAAAACCAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
28227068 CAACCAAATC
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
1 44 1.00
ACGTcount: A:0.96, C:0.04, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:28227051 original size:24 final size:24
Alignment explanation
Indices: 28227022--28227068 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
28227012 CTAGACCACA
28227022 AAAAAAAAAAAAAAAAAAAAAACC
1 AAAAAAAAAAAAAAAAAAAAAACC
28227046 AAAAAAAAAAAAAAAAAAAAAAC
1 AAAAAAAAAAAAAAAAAAAAAAC
28227069 AACCAAATCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.94, C:0.06, G:0.00, T:0.00
Consensus pattern (24 bp):
AAAAAAAAAAAAAAAAAAAAAACC
Found at i:28227052 original size:22 final size:22
Alignment explanation
Indices: 28227024--28227065 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
28227014 AGACCACAAA
28227024 AAAAAAAAAAAAAAAAAAAACC
1 AAAAAAAAAAAAAAAAAAAACC
28227046 AAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAA
28227066 AACAACCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.95, C:0.05, G:0.00, T:0.00
Consensus pattern (22 bp):
AAAAAAAAAAAAAAAAAAAACC
Found at i:28227052 original size:23 final size:23
Alignment explanation
Indices: 28227023--28227066 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
28227013 TAGACCACAA
28227023 AAAAAAAAAAAAAAAAAAAAACC
1 AAAAAAAAAAAAAAAAAAAAACC
28227046 AAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAA
28227067 ACAACCAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.95, C:0.05, G:0.00, T:0.00
Consensus pattern (23 bp):
AAAAAAAAAAAAAAAAAAAAACC
Found at i:28227052 original size:25 final size:25
Alignment explanation
Indices: 28227020--28227067 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
28227010 GCCTAGACCA
28227020 CAAAAAAAAAAAAAAAAAAAAAAAC
1 CAAAAAAAAAAAAAAAAAAAAAAAC
28227045 CAAAAAAAAAAAAAAAAAAAAAA
1 CAAAAAAAAAAAAAAAAAAAAAA
28227068 CAACCAAATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.94, C:0.06, G:0.00, T:0.00
Consensus pattern (25 bp):
CAAAAAAAAAAAAAAAAAAAAAAAC
Found at i:28227054 original size:27 final size:27
Alignment explanation
Indices: 28227016--28227075 Score: 102
Period size: 27 Copynumber: 2.2 Consensus size: 27
28227006 GCTAGCCTAG
*
28227016 ACCACAAAAAAAAAAAAAAAAAAAAAA
1 ACCAAAAAAAAAAAAAAAAAAAAAAAA
*
28227043 ACCAAAAAAAAAAAAAAAAAAAAAACA
1 ACCAAAAAAAAAAAAAAAAAAAAAAAA
28227070 ACCAAA
1 ACCAAA
28227076 TCATATAAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (27 bp):
ACCAAAAAAAAAAAAAAAAAAAAAAAA
Found at i:28235386 original size:486 final size:486
Alignment explanation
Indices: 28234475--28235447 Score: 1910
Period size: 486 Copynumber: 2.0 Consensus size: 486
28234465 GATGAAGGCT
*
28234475 GGAAGCAGGCTATGGTTGATGAAATCAACATGATACAGAAGAACCAAACATGGGAGTTGGTTGAT
1 GGAAGCAGGCTATGGTTGATGAAATCAACATGATACAGAAGAACCAAACATGGGAGTTAGTTGAT
*
28234540 AAGCCTGCTGGAAAGAAGACCATTGGAGTGAAGTGGGTCTATCGAGCTAAACAAAATGCAGATGG
66 AAGCCTGCTGGAAAGAAGACCATTGGAGAGAAGTGGGTCTATCGAGCTAAACAAAATGCAGATGG
28234605 CAGTCTTAACAAGCTGAAAGCCAGGCTTGTTGTCAAAGGTTTTAGCCAGAGGTATGGTTTGGACT
131 CAGTCTTAACAAGCTGAAAGCCAGGCTTGTTGTCAAAGGTTTTAGCCAGAGGTATGGTTTGGACT
28234670 ACTTGGAGACCTTTGCACCAGTAGCCAGACTTGACACTGTCAGAATGATAGTTTCTTTGGCTGCT
196 ACTTGGAGACCTTTGCACCAGTAGCCAGACTTGACACTGTCAGAATGATAGTTTCTTTGGCTGCT
28234735 CAAAATCAGTGGACCATTCATCAGTTGGATGTGAAGTCTGCATTCCTAAATGGCTTCCTAGAAGA
261 CAAAATCAGTGGACCATTCATCAGTTGGATGTGAAGTCTGCATTCCTAAATGGCTTCCTAGAAGA
28234800 AGAGATCTACATTGAGCAGCCTCAAGGGTTTGTAGTCACTGGTAAAGAACACATGGTCTACAGGT
326 AGAGATCTACATTGAGCAGCCTCAAGGGTTTGTAGTCACTGGTAAAGAACACATGGTCTACAGGT
28234865 TAAAAAAGGCCTTGTATGGCCTGAAACAAGCTCCTCGAGCCTGGTATGCTCGAATCGATTCCTAC
391 TAAAAAAGGCCTTGTATGGCCTGAAACAAGCTCCTCGAGCCTGGTATGCTCGAATCGATTCCTAC
28234930 TTGCTCAGTTTGGAATTCGAGAGAAGTGCCA
456 TTGCTCAGTTTGGAATTCGAGAGAAGTGCCA
*
28234961 GGAAGCAGGCTATGGTTGATGAAATCAACATGATACAGAAGAATCAAACATGGGAGTTAGTTGAT
1 GGAAGCAGGCTATGGTTGATGAAATCAACATGATACAGAAGAACCAAACATGGGAGTTAGTTGAT
*
28235026 CAGCCTGCTGGAAAGAAGACCATTGGAGAGAAGTGGGTCTATCGAGCTAAACAAAATGCAGATGG
66 AAGCCTGCTGGAAAGAAGACCATTGGAGAGAAGTGGGTCTATCGAGCTAAACAAAATGCAGATGG
28235091 CAGTCTTAACAAGCTGAAAGCCAGGCTTGTTGTCAAAGGTTTTAGCCAGAGGTATGGTTTGGACT
131 CAGTCTTAACAAGCTGAAAGCCAGGCTTGTTGTCAAAGGTTTTAGCCAGAGGTATGGTTTGGACT
28235156 ACTTGGAGACCTTTGCACCAGTAGCCAGACTTGACACTGTCAGAATGATAGTTTCTTTGGCTGCT
196 ACTTGGAGACCTTTGCACCAGTAGCCAGACTTGACACTGTCAGAATGATAGTTTCTTTGGCTGCT
28235221 CAAAATCAGTGGACCATTCATCAGTTGGATGTGAAGTCTGCATTCCTAAATGGCTTCCTAGAAGA
261 CAAAATCAGTGGACCATTCATCAGTTGGATGTGAAGTCTGCATTCCTAAATGGCTTCCTAGAAGA
28235286 AGAGATCTACATTGAGCAGCCTCAAGGGTTTGTAGTCACTGGTAAAGAACACATGGTCTACAGGT
326 AGAGATCTACATTGAGCAGCCTCAAGGGTTTGTAGTCACTGGTAAAGAACACATGGTCTACAGGT
28235351 TAAAAAAGGCCTTGTATGGCCTGAAACAAGCTCCTCGAGCCTGGTATGCTCGAATCGATTCCTAC
391 TAAAAAAGGCCTTGTATGGCCTGAAACAAGCTCCTCGAGCCTGGTATGCTCGAATCGATTCCTAC
28235416 TTGCTCAGTTTGGAATTCGAGAGAAGTGCCA
456 TTGCTCAGTTTGGAATTCGAGAGAAGTGCCA
28235447 G
1 G
28235448 TGAACCAACT
Statistics
Matches: 483, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
486 483 1.00
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (486 bp):
GGAAGCAGGCTATGGTTGATGAAATCAACATGATACAGAAGAACCAAACATGGGAGTTAGTTGAT
AAGCCTGCTGGAAAGAAGACCATTGGAGAGAAGTGGGTCTATCGAGCTAAACAAAATGCAGATGG
CAGTCTTAACAAGCTGAAAGCCAGGCTTGTTGTCAAAGGTTTTAGCCAGAGGTATGGTTTGGACT
ACTTGGAGACCTTTGCACCAGTAGCCAGACTTGACACTGTCAGAATGATAGTTTCTTTGGCTGCT
CAAAATCAGTGGACCATTCATCAGTTGGATGTGAAGTCTGCATTCCTAAATGGCTTCCTAGAAGA
AGAGATCTACATTGAGCAGCCTCAAGGGTTTGTAGTCACTGGTAAAGAACACATGGTCTACAGGT
TAAAAAAGGCCTTGTATGGCCTGAAACAAGCTCCTCGAGCCTGGTATGCTCGAATCGATTCCTAC
TTGCTCAGTTTGGAATTCGAGAGAAGTGCCA
Found at i:28237489 original size:24 final size:24
Alignment explanation
Indices: 28237462--28237511 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
28237452 TTTGCCATAG
28237462 TATTCATCATCGTTAGAAAGTGGA
1 TATTCATCATCGTTAGAAAGTGGA
28237486 TATTCATCATCGTTAGAAAGTGGA
1 TATTCATCATCGTTAGAAAGTGGA
28237510 TA
1 TA
28237512 ATACTTACAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.34, C:0.12, G:0.20, T:0.34
Consensus pattern (24 bp):
TATTCATCATCGTTAGAAAGTGGA
Found at i:28238840 original size:20 final size:21
Alignment explanation
Indices: 28238805--28238843 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
28238795 ATGTTTTTGC
*
28238805 TGTTTATTATTATTATATATT
1 TGTTTATCATTATTATATATT
28238826 TGTTTATCA-TATTATATA
1 TGTTTATCATTATTATATA
28238844 AATGTCAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.31, C:0.03, G:0.05, T:0.62
Consensus pattern (21 bp):
TGTTTATCATTATTATATATT
Found at i:28239414 original size:28 final size:26
Alignment explanation
Indices: 28239365--28239422 Score: 64
Period size: 29 Copynumber: 2.1 Consensus size: 26
28239355 CAAATTCCTA
28239365 TTTAAAAAAGCTTTAATTTTTTAATTATT
1 TTTAAAAAAGCTTTAA-TTTTT-ATT-TT
*
28239394 TTTAAAAAAGTTTTCAA-TTTTATTTT
1 TTTAAAAAAGCTTT-AATTTTTATTTT
28239420 TTT
1 TTT
28239423 GAATTTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
26 5 0.19
27 3 0.11
28 4 0.15
29 13 0.48
30 2 0.07
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.59
Consensus pattern (26 bp):
TTTAAAAAAGCTTTAATTTTTATTTT
Found at i:28240887 original size:14 final size:15
Alignment explanation
Indices: 28240868--28240906 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
28240858 TAGTCGATTG
*
28240868 GTATTTAGTATTTA-
1 GTATTTTGTATTTAT
28240882 GTATTTTGTA-TTAT
1 GTATTTTGTATTTAT
28240896 GTATTTTGTAT
1 GTATTTTGTAT
28240907 ATAACTAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 3 0.14
14 19 0.86
ACGTcount: A:0.23, C:0.00, G:0.15, T:0.62
Consensus pattern (15 bp):
GTATTTTGTATTTAT
Found at i:28241619 original size:97 final size:96
Alignment explanation
Indices: 28241469--28241752 Score: 333
Period size: 97 Copynumber: 2.9 Consensus size: 96
28241459 AGTAACCCTA
* * *
28241469 AACCCCAAACCCTAATTTATTTAAGTTTTTTACTTAAAAACCCTAAACACTAAACCCTAATCTAA
1 AACCCTAAACCCTAATTTATTTGA-TTTTTT-CTTAAAAA-ACTAAACACTAAACCCTAATCTAA
28241534 TTTTTTTAAAAATTTATAATTAATTTACTCAAGT
63 TTTTTTTAAAAATTTATAATTAATTTACTCAAGT
* * * * * *
28241568 AACCTTGAACCCTAATTTATTTGATTTTTTCTTAAAAATTCTTAACTCTAAACCCTAATCTATTT
1 AACCCTAAACCCTAATTTATTTGATTTTTTCTTAAAAA-ACTAAACACTAAACCCTAATCTAATT
** *
28241633 TTTTTAAAAA-AAATTAATTAAATTACTCAAGT
65 TTTTTAAAAATTTA-TAATTAATTTACTCAAGT
* * *
28241665 AACCCTAAACCCTAATTTAATTGATTTTTTCTTAAAAAACAATAAACACGAAA-CCTAATCCAA-
1 AACCCTAAACCCTAATTTATTTGATTTTTTCTTAAAAAAC--TAAACACTAAACCCTAATCTAAT
*
28241728 -TTTTGAAAAATTTATAATTAATTTA
64 TTTTTTAAAAATTTATAATTAATTTA
28241753 ATTGACAAAC
Statistics
Matches: 156, Mismatches: 25, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
95 19 0.12
96 3 0.02
97 100 0.64
98 14 0.09
99 20 0.13
ACGTcount: A:0.41, C:0.17, G:0.03, T:0.39
Consensus pattern (96 bp):
AACCCTAAACCCTAATTTATTTGATTTTTTCTTAAAAAACTAAACACTAAACCCTAATCTAATTT
TTTTAAAAATTTATAATTAATTTACTCAAGT
Found at i:28241959 original size:69 final size:69
Alignment explanation
Indices: 28241872--28242010 Score: 242
Period size: 69 Copynumber: 2.0 Consensus size: 69
28241862 CCTAACCGTA
28241872 GGACACACGGGAAAAACGCATCCTTAAGGAAGCGTTTTGCCTACTTGGACATAAAGCGCCCCCTT
1 GGACACACGGGAAAAACGCATCCTTAAGGAAGCGTTTTGCCTACTTGGACATAAAGCGCCCCCTT
28241937 AAGG
66 AAGG
* * * *
28241941 GGACACACGGGCAAAACGCATCCTTGAGGAATCGTTTTGCCTACTTGGACATAAAGCGCGCCCTT
1 GGACACACGGGAAAAACGCATCCTTAAGGAAGCGTTTTGCCTACTTGGACATAAAGCGCCCCCTT
28242006 AAGG
66 AAGG
28242010 G
1 G
28242011 AGTGATTTTT
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
69 66 1.00
ACGTcount: A:0.29, C:0.26, G:0.26, T:0.19
Consensus pattern (69 bp):
GGACACACGGGAAAAACGCATCCTTAAGGAAGCGTTTTGCCTACTTGGACATAAAGCGCCCCCTT
AAGG
Found at i:28243030 original size:23 final size:23
Alignment explanation
Indices: 28243004--28243079 Score: 55
Period size: 23 Copynumber: 3.2 Consensus size: 23
28242994 GCACTACCTT
28243004 ATTAATATTAAAAATTTTAAAAC
1 ATTAATATTAAAAATTTTAAAAC
* * ** * *
28243027 ATTATTA-TAGACTTTTTCACTACC
1 ATTAATATTAAAAATTTT-A-AAAC
28243051 TTATTAATATTAAAAATTTTAAAAC
1 --ATTAATATTAAAAATTTTAAAAC
28243076 ATTA
1 ATTA
28243080 TTATAGACTT
Statistics
Matches: 36, Mismatches: 12, Indels: 10
0.62 0.21 0.17
Matches are distributed among these distances:
22 7 0.19
23 11 0.31
24 2 0.06
25 2 0.06
26 7 0.19
27 7 0.19
ACGTcount: A:0.46, C:0.09, G:0.01, T:0.43
Consensus pattern (23 bp):
ATTAATATTAAAAATTTTAAAAC
Found at i:28243050 original size:49 final size:49
Alignment explanation
Indices: 28242995--28243092 Score: 196
Period size: 49 Copynumber: 2.0 Consensus size: 49
28242985 ATTTATTCAG
28242995 CACTACCTTATTAATATTAAAAATTTTAAAACATTATTATAGACTTTTT
1 CACTACCTTATTAATATTAAAAATTTTAAAACATTATTATAGACTTTTT
28243044 CACTACCTTATTAATATTAAAAATTTTAAAACATTATTATAGACTTTTT
1 CACTACCTTATTAATATTAAAAATTTTAAAACATTATTATAGACTTTTT
28243093 TTTTAAGACC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.41, C:0.12, G:0.02, T:0.45
Consensus pattern (49 bp):
CACTACCTTATTAATATTAAAAATTTTAAAACATTATTATAGACTTTTT
Found at i:28243080 original size:26 final size:26
Alignment explanation
Indices: 28243002--28243082 Score: 71
Period size: 26 Copynumber: 3.2 Consensus size: 26
28242992 CAGCACTACC
28243002 TTATTAATATTAAAAATTTTAAAACA
1 TTATTAATATTAAAAATTTTAAAACA
* ** ** *
28243028 TTA-T--TA-TAGACTTTTTCACTACC
1 TTATTAATATTAAAAATTTT-AAAACA
28243051 TTATTAATATTAAAAATTTTAAAACA
1 TTATTAATATTAAAAATTTTAAAACA
28243077 TTATTA
1 TTATTA
28243083 TAGACTTTTT
Statistics
Matches: 38, Mismatches: 12, Indels: 10
0.63 0.20 0.17
Matches are distributed among these distances:
22 7 0.18
23 8 0.21
24 1 0.03
25 1 0.03
26 14 0.37
27 7 0.18
ACGTcount: A:0.44, C:0.09, G:0.01, T:0.46
Consensus pattern (26 bp):
TTATTAATATTAAAAATTTTAAAACA
Found at i:28247483 original size:17 final size:17
Alignment explanation
Indices: 28247463--28247495 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
28247453 AACTTTTTGC
28247463 TTTTT-GATTTAGTATT
1 TTTTTCGATTTAGTATT
*
28247479 TTTTTCGATTTCGTATT
1 TTTTTCGATTTAGTATT
28247496 AGTATCCGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.15, C:0.06, G:0.12, T:0.67
Consensus pattern (17 bp):
TTTTTCGATTTAGTATT
Found at i:28247751 original size:15 final size:15
Alignment explanation
Indices: 28247731--28247762 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
28247721 GGCCGTATGA
28247731 TAGTTGGGCTAGGTG
1 TAGTTGGGCTAGGTG
28247746 TAGTTGGGCTAGGTG
1 TAGTTGGGCTAGGTG
28247761 TA
1 TA
28247763 ATTTTGAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.16, C:0.06, G:0.44, T:0.34
Consensus pattern (15 bp):
TAGTTGGGCTAGGTG
Found at i:28248419 original size:41 final size:41
Alignment explanation
Indices: 28248343--28248534 Score: 276
Period size: 41 Copynumber: 4.7 Consensus size: 41
28248333 TAGGCTTGAG
* * * * *
28248343 GCCTAATACAATTACACCGGCACAAAGCCTGCTAGGCACAAA
1 GCCTAATATAAAT-CACCGGCACGAAGCCTACTAGGCACAGA
* * * *
28248385 GCCTGATATAAATCACCAGCATGAAGCCTACTAGGCATAGA
1 GCCTAATATAAATCACCGGCACGAAGCCTACTAGGCACAGA
28248426 GCCTAATATAAATCACCGGCACGAAGCCTACTAGGCACAGA
1 GCCTAATATAAATCACCGGCACGAAGCCTACTAGGCACAGA
*
28248467 GCCTAATATAAATCACCGGCACGAAGTCTACTAGGCACAGA
1 GCCTAATATAAATCACCGGCACGAAGCCTACTAGGCACAGA
*
28248508 GCCTAATATAAATCACCGGTACGAAGC
1 GCCTAATATAAATCACCGGCACGAAGC
28248535 TTGCTAAACT
Statistics
Matches: 134, Mismatches: 16, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
41 124 0.93
42 10 0.07
ACGTcount: A:0.37, C:0.28, G:0.19, T:0.17
Consensus pattern (41 bp):
GCCTAATATAAATCACCGGCACGAAGCCTACTAGGCACAGA
Found at i:28248558 original size:82 final size:82
Alignment explanation
Indices: 28248343--28248558 Score: 245
Period size: 82 Copynumber: 2.6 Consensus size: 82
28248333 TAGGCTTGAG
* * * * ** *
28248343 GCCTAATACAATTACACCGGCACAAAGCCTGCTAGGCACAAAGCCTGATATAAATCACCAGCATG
1 GCCTAATATAAAT-CACCGGCACGAAGCCTACTAAACACAAAGCCTGATATAAATCACCAGCACG
*
28248408 AAGCCTACTAGGCATAGA
65 AAGCCTACTAGGCACAGA
** * * *
28248426 GCCTAATATAAATCACCGGCACGAAGCCTACTAGGCACAGAGCCTAATATAAATCACCGGCACGA
1 GCCTAATATAAATCACCGGCACGAAGCCTACTAAACACAAAGCCTGATATAAATCACCAGCACGA
*
28248491 AGTCTACTAGGCACAGA
66 AGCCTACTAGGCACAGA
* * * *
28248508 GCCTAATATAAATCACCGGTACGAAGCTTGCTAAACTCAAAGTCC-GATATA
1 GCCTAATATAAATCACCGGCACGAAGCCTACTAAACACAAAG-CCTGATATA
28248559 TTATCTCTAA
Statistics
Matches: 114, Mismatches: 18, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
82 101 0.89
83 13 0.11
ACGTcount: A:0.37, C:0.27, G:0.18, T:0.18
Consensus pattern (82 bp):
GCCTAATATAAATCACCGGCACGAAGCCTACTAAACACAAAGCCTGATATAAATCACCAGCACGA
AGCCTACTAGGCACAGA
Found at i:28253771 original size:3 final size:3
Alignment explanation
Indices: 28253765--28253809 Score: 54
Period size: 3 Copynumber: 15.0 Consensus size: 3
28253755 AAAAAAAAAG
* * * *
28253765 TAA TAA TAA TAA TGA TAA TAA TAT TAA TAA TAA CAA TGA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
28253810 AAAAATCTGA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:28255838 original size:132 final size:132
Alignment explanation
Indices: 28255685--28256059 Score: 529
Period size: 132 Copynumber: 2.8 Consensus size: 132
28255675 TGCTGCTCAG
* * *
28255685 GGAGACATGATTTACAATCTTCAACCTACTCCACTACTGCTCAGGGAGATAGGACTGGTGGCTTA
1 GGAGACAAGATTTACAATCTTCAACCTACTCCACTGCTGCTTAGGGAGATAGGACTGGTGGCTTA
* * * * *
28255750 AATCTGCTTCCCTACTACCTTGAGAAGATAAGATTCACCGTCTTCGATCTGCTCCACT-ACTGTT
66 AATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCGCCGTCTTCGATCAGCTCCACTGACAGTA
28255814 TA
131 TA
* * * *
28255816 CGGAGACAGGATCTACAATCTTCAACCTACTCCACTGTTGCTTAGGGAGATAAGACTGGTGGCTT
1 -GGAGACAAGATTTACAATCTTCAACCTACTCCACTGCTGCTTAGGGAGATAGGACTGGTGGCTT
* * * *
28255881 AAATCTGCTTCCCTACTTCTTTGGGAAGATAAGATTCGCCG-CATTCGATCAGCTCCGCTGTCAG
65 AAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCGCCGTC-TTCGATCAGCTCCACTGACAG
28255945 TATA
129 TATA
* * *
28255949 GGAAGGCAAGATTTGCTATCTTCAACCTACTCCACTGCTGCTTAGGGAGATAGGACTGGTGGCTT
1 GG-AGACAAGATTTACAATCTTCAACCTACTCCACTGCTGCTTAGGGAGATAGGACTGGTGGCTT
*
28256014 AAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCGTCGTCTTC
65 AAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCGCCGTCTTC
28256060 TCCAATCCAC
Statistics
Matches: 214, Mismatches: 25, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
131 1 0.00
132 111 0.52
133 101 0.47
134 1 0.00
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (132 bp):
GGAGACAAGATTTACAATCTTCAACCTACTCCACTGCTGCTTAGGGAGATAGGACTGGTGGCTTA
AATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCGCCGTCTTCGATCAGCTCCACTGACAGTA
TA
Found at i:28256726 original size:54 final size:54
Alignment explanation
Indices: 28256663--28256770 Score: 216
Period size: 54 Copynumber: 2.0 Consensus size: 54
28256653 TCTGAAGGGA
28256663 TAGTCTCAATTTAGACTTTTCCTTCTTAGATATTTCAACCTTTAAACTTGGTGT
1 TAGTCTCAATTTAGACTTTTCCTTCTTAGATATTTCAACCTTTAAACTTGGTGT
28256717 TAGTCTCAATTTAGACTTTTCCTTCTTAGATATTTCAACCTTTAAACTTGGTGT
1 TAGTCTCAATTTAGACTTTTCCTTCTTAGATATTTCAACCTTTAAACTTGGTGT
28256771 ATTCTAAACA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.24, C:0.19, G:0.11, T:0.46
Consensus pattern (54 bp):
TAGTCTCAATTTAGACTTTTCCTTCTTAGATATTTCAACCTTTAAACTTGGTGT
Found at i:28263185 original size:145 final size:145
Alignment explanation
Indices: 28262922--28263216 Score: 536
Period size: 145 Copynumber: 2.0 Consensus size: 145
28262912 CTTGTTTTTT
28262922 CCATTAACAGCATGATTGGGTAGCGAATTCTCTGTACTGGACCCAAATTGATAAACCTTTCAACC
1 CCATTAACAGCATGATTGGGTAGCGAATTCTCTGTACTGGACCCAAATTGATAAACCTTTCAACC
* *
28262987 AGTTTCTTAAAAGCAATGCAATTTTCTATAGAATGCCCCGTAATTCCCACATGATAATCGCACTG
66 AGTTTCTTAAAAGCAATGCAATTTTCTATAGAATGCCCCATAATTCCCACATGATAATCACACTG
28263052 TGCGTTTGCATCATA
131 TGCGTTTGCATCATA
*
28263067 CCATTAACAGCATGATTGGGTAGCGGATTCTCTGTACTGGACCCAAATTGATAAACCTTTCAACC
1 CCATTAACAGCATGATTGGGTAGCGAATTCTCTGTACTGGACCCAAATTGATAAACCTTTCAACC
* * *
28263132 AGTTTCTTAAAAGTAGTGCAATTTTCTATAGAATGCCCCATAATTCCCGCATGATAATCACACTG
66 AGTTTCTTAAAAGCAATGCAATTTTCTATAGAATGCCCCATAATTCCCACATGATAATCACACTG
28263197 TGCGTTTGCATCATA
131 TGCGTTTGCATCATA
28263212 CCATT
1 CCATT
28263217 TAGGGTACGG
Statistics
Matches: 144, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
145 144 1.00
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (145 bp):
CCATTAACAGCATGATTGGGTAGCGAATTCTCTGTACTGGACCCAAATTGATAAACCTTTCAACC
AGTTTCTTAAAAGCAATGCAATTTTCTATAGAATGCCCCATAATTCCCACATGATAATCACACTG
TGCGTTTGCATCATA
Found at i:28265979 original size:17 final size:16
Alignment explanation
Indices: 28265959--28265998 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
28265949 TCTATTATTT
*
28265959 TATATACATATTGTACA
1 TATATACATATT-TAAA
*
28265976 TATATACGTATTTAAA
1 TATATACATATTTAAA
28265992 TATATAC
1 TATATAC
28265999 GAATGCGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 10 0.48
17 11 0.52
ACGTcount: A:0.42, C:0.10, G:0.05, T:0.42
Consensus pattern (16 bp):
TATATACATATTTAAA
Found at i:28272206 original size:3 final size:3
Alignment explanation
Indices: 28272200--28272244 Score: 54
Period size: 3 Copynumber: 15.0 Consensus size: 3
28272190 AAAAAAAAAG
* * * *
28272200 TAA TAA TAA TAA TGA TAA TAA TAT TAA TAA TAA CAA TGA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
28272245 AAAAATCTGA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:28278977 original size:15 final size:15
Alignment explanation
Indices: 28278957--28279003 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
28278947 ACAAAATCTC
*
28278957 ATAAAAACATAGTTT
1 ATAAAAACATACTTT
*
28278972 ATAAAACCATACTTT
1 ATAAAAACATACTTT
28278987 A-AAAATACATATCTTT
1 ATAAAA-ACATA-CTTT
28279003 A
1 A
28279004 AATTATAGGC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 4 0.15
15 18 0.67
16 5 0.19
ACGTcount: A:0.51, C:0.13, G:0.02, T:0.34
Consensus pattern (15 bp):
ATAAAAACATACTTT
Found at i:28279050 original size:13 final size:13
Alignment explanation
Indices: 28279032--28279063 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
28279022 GAGCACGTAT
28279032 AAAACATAACTTG
1 AAAACATAACTTG
*
28279045 AAAACATGACTTG
1 AAAACATAACTTG
28279058 AAAACA
1 AAAACA
28279064 GAGTTTATAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.16, G:0.09, T:0.19
Consensus pattern (13 bp):
AAAACATAACTTG
Found at i:28281453 original size:42 final size:42
Alignment explanation
Indices: 28281402--28281483 Score: 130
Period size: 42 Copynumber: 2.0 Consensus size: 42
28281392 CCCGGAATTG
* *
28281402 GCTCTAGAAA-CTTCGCCTTCTTTCCCACCATCCGTGTATCCA
1 GCTCCAGAAACCTT-GCCTTCTCTCCCACCATCCGTGTATCCA
28281444 GCTCCAGAAACCTTGCCTTCTCTCCCACCATCCGTGTATC
1 GCTCCAGAAACCTTGCCTTCTCTCCCACCATCCGTGTATC
28281484 TGGCCCCCGA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
42 34 0.92
43 3 0.08
ACGTcount: A:0.18, C:0.40, G:0.12, T:0.29
Consensus pattern (42 bp):
GCTCCAGAAACCTTGCCTTCTCTCCCACCATCCGTGTATCCA
Found at i:28286238 original size:61 final size:61
Alignment explanation
Indices: 28286143--28286260 Score: 236
Period size: 61 Copynumber: 1.9 Consensus size: 61
28286133 ACCTGTAGAA
28286143 TAAAAAGCTGCTTGAGCAAGAGGTTTCATCTGCAAAGCCGAATGATGTTGAGGTAACAGGT
1 TAAAAAGCTGCTTGAGCAAGAGGTTTCATCTGCAAAGCCGAATGATGTTGAGGTAACAGGT
28286204 TAAAAAGCTGCTTGAGCAAGAGGTTTCATCTGCAAAGCCGAATGATGTTGAGGTAAC
1 TAAAAAGCTGCTTGAGCAAGAGGTTTCATCTGCAAAGCCGAATGATGTTGAGGTAAC
28286261 TTAAAGAAAA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 57 1.00
ACGTcount: A:0.33, C:0.15, G:0.27, T:0.25
Consensus pattern (61 bp):
TAAAAAGCTGCTTGAGCAAGAGGTTTCATCTGCAAAGCCGAATGATGTTGAGGTAACAGGT
Found at i:28294119 original size:17 final size:17
Alignment explanation
Indices: 28294094--28294127 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
28294084 GGGTTTTTAA
28294094 TTAAATTAAGTTAGGTT
1 TTAAATTAAGTTAGGTT
*
28294111 TTAAGTTAAGTTAGGTT
1 TTAAATTAAGTTAGGTT
28294128 AGGGTTTTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.21, T:0.47
Consensus pattern (17 bp):
TTAAATTAAGTTAGGTT
Found at i:28294121 original size:91 final size:91
Alignment explanation
Indices: 28294011--28294298 Score: 297
Period size: 91 Copynumber: 3.1 Consensus size: 91
28294001 TTAGCTTAGG
28294011 GTTAGGGTTTTACATTAAGTTAGGTTAGGATTTTTAATTAAGTTAGGTTAGGGTTTTTAATTAAG
1 GTTAGGGTTTTACATTAAGTTAGGTTAGG-TTTTTAATTAAGTTAGGTTAGGGTTTTTAATTAAG
28294076 TTAGGTTAGGGTTTTTAATTAAATTAA
65 TTAGGTTAGGGTTTTTAATTAAATTAA
*
28294103 GTTA-GGTTTTA-AGTTAAGTTAGGTTAGGGTTTTACATTAAGTTAGGTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTACA-TTAAGTTAGGTTAGGTTTTTA-ATTAAGTTAGGTTAGGGTTTTTAATTAA
* *
28294166 ---A--TTA-GGTTTTTAATTCAATTAG
64 GTTAGGTTAGGGTTTTTAATTAAATTAA
* * * *
28294188 GTTAGGGTTTTTAATTCAATTAAATTAGGTTTGGGTTTTTAATTCAA-CTAGGTTAGAGTTTTTA
1 GTTAGGG-TTTT-A--C-ATTAAGTTAGG-TTAGGTTTTTAATT-AAGTTAGGTTAG-G-GTTT-
* *
28294252 ATTAAATTAAGTTAGGTTAGGGTTTTTAATTAAAATAT
56 -TT-AATTAAGTTAGGTTAGGGTTTTTAATTAAATTAA
28294290 GTTAGGGTT
1 GTTAGGGTT
28294299 AGGGTTTTCA
Statistics
Matches: 163, Mismatches: 11, Indels: 35
0.78 0.05 0.17
Matches are distributed among these distances:
85 20 0.12
86 5 0.03
87 4 0.02
88 2 0.01
90 6 0.04
91 70 0.43
92 17 0.10
93 3 0.02
95 2 0.01
96 6 0.04
99 1 0.01
101 5 0.03
102 22 0.13
ACGTcount: A:0.29, C:0.02, G:0.22, T:0.47
Consensus pattern (91 bp):
GTTAGGGTTTTACATTAAGTTAGGTTAGGTTTTTAATTAAGTTAGGTTAGGGTTTTTAATTAAGT
TAGGTTAGGGTTTTTAATTAAATTAA
Found at i:28294142 original size:68 final size:69
Alignment explanation
Indices: 28294010--28294298 Score: 285
Period size: 68 Copynumber: 4.1 Consensus size: 69
28294000 ATTAGCTTAG
* *
28294010 GGTTAGGG-TTTTACATTAAGTTAGGTTAGGATTTTTAATTAAGTTAGGTTAGGGTTTTTA-ATT
1 GGTTAGGGTTTTTA-ATTAAATTAAGTTAGG-TTTTTAATTAAGTTAGGTTAGGGTTTTTACATT
28294073 AAGTTA
64 AAGTTA
28294079 GGTTAGGGTTTTTAATTAAATTAAGTTAGG-TTTTAAGTTAAGTTAGGTTAGGG-TTTTACATTA
1 GGTTAGGGTTTTTAATTAAATTAAGTTAGGTTTTTAA-TTAAGTTAGGTTAGGGTTTTTACATTA
28294142 AGTTA
65 AGTTA
28294147 GGTTAGGGTTTTTAATT--A--AA-TTAGGTTTTTAATTCAA-TTAGGTTAGGGTTTTTAATTCA
1 GGTTAGGGTTTTTAATTAAATTAAGTTAGGTTTTTAATT-AAGTTAGGTTAGGGTTTTT-A--C-
*
28294206 ATTAAATTA
61 ATTAAGTTA
* * * *
28294215 GGTTTGGGTTTTTAATTCAACTAGGTTAGAGTTTTTAATTAAATTAAGTTAGGTTAGGGTTTTTA
1 GGTTAGGGTTTTTAATTAAATTAAGTTAG-G--TTT--TT-AATTAAGTTAGGTTAGGGTTTTTA
**
28294280 -ATTAAAATA
60 CATTAAGTTA
*
28294289 TGTTAGGGTT
1 GGTTAGGGTT
28294299 AGGGTTTTCA
Statistics
Matches: 190, Mismatches: 8, Indels: 39
0.80 0.03 0.16
Matches are distributed among these distances:
63 18 0.09
64 14 0.07
65 1 0.01
66 1 0.01
67 12 0.06
68 66 0.35
69 22 0.12
70 6 0.03
72 1 0.01
73 4 0.02
74 17 0.09
76 3 0.02
78 5 0.03
79 20 0.11
ACGTcount: A:0.29, C:0.02, G:0.22, T:0.47
Consensus pattern (69 bp):
GGTTAGGGTTTTTAATTAAATTAAGTTAGGTTTTTAATTAAGTTAGGTTAGGGTTTTTACATTAA
GTTA
Found at i:28294174 original size:40 final size:41
Alignment explanation
Indices: 28294035--28294209 Score: 167
Period size: 40 Copynumber: 4.1 Consensus size: 41
28294025 TTAAGTTAGG
*
28294035 TTAGGATTTTTAATTAAGTTAGGTTAGGGTTTTTAATTAAGTTA
1 TTAGGGTTTTTAATTAAGTTAGGTTAGGGTTTTTAATTAA---A
* * * **
28294079 GGTTAGGGTTTTTAATTAAATTAAGTTAGGTTTTAAGTTAAGTTAGG
1 --TTAGGGTTTTTAATTAAGTTAGGTTAGGGTTT---TTAA-TTAAA
28294126 TTAGGG-TTTTACATTAAGTTAGGTTAGGGTTTTTAATTAAA
1 TTAGGGTTTTTA-ATTAAGTTAGGTTAGGGTTTTTAATTAAA
*
28294167 TTA-GGTTTTTAATTCAA-TTAGGTTAGGGTTTTTAATTCAA
1 TTAGGGTTTTTAATT-AAGTTAGGTTAGGGTTTTTAATTAAA
28294207 TTA
1 TTA
28294210 AATTAGGTTT
Statistics
Matches: 110, Mismatches: 12, Indels: 20
0.77 0.08 0.14
Matches are distributed among these distances:
40 30 0.27
41 13 0.12
42 4 0.04
44 5 0.05
45 23 0.21
46 28 0.25
49 4 0.04
50 3 0.03
ACGTcount: A:0.29, C:0.02, G:0.21, T:0.48
Consensus pattern (41 bp):
TTAGGGTTTTTAATTAAGTTAGGTTAGGGTTTTTAATTAAA
Found at i:28294176 original size:18 final size:17
Alignment explanation
Indices: 28294153--28294190 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
28294143 GTTAGGTTAG
28294153 GGTTTTTAATTAAATTA
1 GGTTTTTAATTAAATTA
*
28294170 GGTTTTTAATTCAATTA
1 GGTTTTTAATTAAATTA
28294187 GGTT
1 GGTT
28294191 AGGGTTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.29, C:0.03, G:0.16, T:0.53
Consensus pattern (17 bp):
GGTTTTTAATTAAATTA
Found at i:28294217 original size:28 final size:28
Alignment explanation
Indices: 28294177--28294338 Score: 129
Period size: 28 Copynumber: 5.9 Consensus size: 28
28294167 TTAGGTTTTT
* *
28294177 AATTCAATTAGGTTAGGGTTTTTAATTC
1 AATTAAATTAGGTTAGGGTTTTTAATTA
*
28294205 AATTAAATTAGGTTTGGG--TTT--TT-
1 AATTAAATTAGGTTAGGGTTTTTAATTA
* * *
28294228 AATTCAACTAGGTTAGAGTTTTTAATTA
1 AATTAAATTAGGTTAGGGTTTTTAATTA
*
28294256 AATTAAGTTAGGTTAGGGTTTTTAATTA
1 AATTAAATTAGGTTAGGGTTTTTAATTA
* ** *
28294284 AAATATGTTAGGGTTAGGG-TTTTCATGTA
1 AATTAAATTA-GGTTAGGGTTTTTAAT-TA
* **
28294313 AAATAGGTTAGGGTTAGGGTTTTTAA
1 AATTAAATTA-GGTTAGGGTTTTTAA
28294339 NNNNNNNNNN
Statistics
Matches: 111, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
23 14 0.13
24 2 0.02
25 3 0.03
26 3 0.03
27 2 0.02
28 54 0.49
29 28 0.25
30 5 0.05
ACGTcount: A:0.30, C:0.03, G:0.22, T:0.44
Consensus pattern (28 bp):
AATTAAATTAGGTTAGGGTTTTTAATTA
Found at i:28294282 original size:23 final size:23
Alignment explanation
Indices: 28294010--28294298 Score: 269
Period size: 23 Copynumber: 12.4 Consensus size: 23
28294000 ATTAGCTTAG
28294010 GGTTAGGG-TTTTACATTAAGTTA
1 GGTTAGGGTTTTTA-ATTAAGTTA
*
28294033 GGTTAGGATTTTTAATTAAGTTA
1 GGTTAGGGTTTTTAATTAAGTTA
28294056 GGTTAGGGTTTTTAATTAAGTTA
1 GGTTAGGGTTTTTAATTAAGTTA
*
28294079 GGTTAGGGTTTTTAATTAAATTA
1 GGTTAGGGTTTTTAATTAAGTTA
*
28294102 AGTTA-GG-TTTTAAGTTAAGTTA
1 GGTTAGGGTTTTTAA-TTAAGTTA
28294124 GGTTAGGG-TTTTACATTAAGTTA
1 GGTTAGGGTTTTTA-ATTAAGTTA
28294147 GGTTAGGGTTTTTAATTAA---A
1 GGTTAGGGTTTTTAATTAAGTTA
28294167 --TTA-GGTTTTTAATTCAA-TTA
1 GGTTAGGGTTTTTAATT-AAGTTA
*
28294187 GGTTAGGGTTTTTAATTCAATTAAATTA
1 GGTTAGGG--TTT--TT-AATTAAGTTA
* *
28294215 GGTTTGGGTTTTTAATTCAA-CTA
1 GGTTAGGGTTTTTAATT-AAGTTA
*
28294238 GGTTAGAGTTTTTAATTAAATTAAGTTA
1 GGTTAG-G-GTTT--TT-AATTAAGTTA
**
28294266 GGTTAGGGTTTTTAATTAAAATA
1 GGTTAGGGTTTTTAATTAAGTTA
*
28294289 TGTTAGGGTT
1 GGTTAGGGTT
28294299 AGGGTTTTCA
Statistics
Matches: 227, Mismatches: 15, Indels: 48
0.78 0.05 0.17
Matches are distributed among these distances:
17 11 0.05
18 5 0.02
20 2 0.01
21 6 0.03
22 16 0.07
23 122 0.54
24 18 0.08
25 6 0.03
26 6 0.03
27 9 0.04
28 26 0.11
ACGTcount: A:0.29, C:0.02, G:0.22, T:0.47
Consensus pattern (23 bp):
GGTTAGGGTTTTTAATTAAGTTA
Found at i:28294298 original size:29 final size:29
Alignment explanation
Indices: 28294238--28294338 Score: 134
Period size: 28 Copynumber: 3.5 Consensus size: 29
28294228 AATTCAACTA
* *
28294238 GGTTAGAGTTTTTAATTAAATTAAGTTA-
1 GGTTAGGGTTTTTAATTAAAATAAGTTAG
*
28294266 GGTTAGGGTTTTTAATTAAAATATGTTAG
1 GGTTAGGGTTTTTAATTAAAATAAGTTAG
* *
28294295 GGTTAGGG-TTTTCATGTAAAATAGGTTAG
1 GGTTAGGGTTTTTAAT-TAAAATAAGTTAG
28294324 GGTTAGGGTTTTTAA
1 GGTTAGGGTTTTTAA
28294339 NNNNNNNNNN
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
28 31 0.48
29 28 0.44
30 5 0.08
ACGTcount: A:0.30, C:0.01, G:0.26, T:0.44
Consensus pattern (29 bp):
GGTTAGGGTTTTTAATTAAAATAAGTTAG
Found at i:28297654 original size:22 final size:22
Alignment explanation
Indices: 28297624--28297665 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
28297614 ATTTGGAGAT
*
28297624 TTTTTGAAGGAAATTGAGAGGA
1 TTTTGGAAGGAAATTGAGAGGA
*
28297646 TTTTGGAAGGAATTTGAGAG
1 TTTTGGAAGGAAATTGAGAG
28297666 TTTGAGAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (22 bp):
TTTTGGAAGGAAATTGAGAGGA
Found at i:28297673 original size:30 final size:30
Alignment explanation
Indices: 28297637--28297695 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
28297627 TTGAAGGAAA
* *
28297637 TTGAGAGGATTTTGGAAGGAATTTGAGAGT
1 TTGAGAGAATTTTGGAAGGAAATTGAGAGT
28297667 TTGAGAGAATTTTGGAAGGAAATTGAGAG
1 TTGAGAGAATTTTGGAAGGAAATTGAGAG
28297696 AATTTTTGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.34, C:0.00, G:0.36, T:0.31
Consensus pattern (30 bp):
TTGAGAGAATTTTGGAAGGAAATTGAGAGT
Found at i:28297685 original size:52 final size:51
Alignment explanation
Indices: 28297615--28297717 Score: 145
Period size: 52 Copynumber: 2.0 Consensus size: 51
28297605 TTAATATGGA
* * *
28297615 TTTGGAGATTTTTTGAAGGAAATTGAGAGGATTTTGGAAG-GAATTTGAGAG
1 TTTGGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGAGAA-TTGAGAG
*
28297666 TTTGAGAGAATTTTGGAAGGAAATTGAGAGAATTTTTGAAGAGAATTGAGAG
1 TTTG-GAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGAGAATTGAGAG
28297718 AATTTTTGAA
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
51 4 0.09
52 39 0.85
53 3 0.07
ACGTcount: A:0.35, C:0.00, G:0.32, T:0.33
Consensus pattern (51 bp):
TTTGGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGAGAATTGAGAG
Found at i:28297692 original size:22 final size:22
Alignment explanation
Indices: 28297667--28297744 Score: 122
Period size: 22 Copynumber: 3.5 Consensus size: 22
28297657 ATTTGAGAGT
*
28297667 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTTGAAGGAAA
28297689 TTGAGAGAATTTTTGAA-GAGAA
1 TTGAGAGAATTTTTGAAGGA-AA
28297711 TTGAGAGAATTTTTGAAGGAAA
1 TTGAGAGAATTTTTGAAGGAAA
*
28297733 TTGAAAGAATTT
1 TTGAGAGAATTT
28297745 GTTTGTGAAA
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
21 2 0.04
22 48 0.92
23 2 0.04
ACGTcount: A:0.41, C:0.00, G:0.27, T:0.32
Consensus pattern (22 bp):
TTGAGAGAATTTTTGAAGGAAA
Found at i:28299121 original size:41 final size:37
Alignment explanation
Indices: 28299074--28299170 Score: 104
Period size: 41 Copynumber: 2.5 Consensus size: 37
28299064 CGACCTCGAG
*
28299074 TCGATGAGACACTGGGTGTCACTATTTTACTTCGGATTGA
1 TCGATGAGACACTGGGTGTCAC---TTTACTTCGGATAGA
* * * *
28299114 TTCGATGAGATATTGGGTATCACTTTACTTCGGCTAGA
1 -TCGATGAGACACTGGGTGTCACTTTACTTCGGATAGA
*
28299152 CCGATGAGACACTGGGTGT
1 TCGATGAGACACTGGGTGT
28299171 TAACTTTGCT
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
37 15 0.32
38 13 0.28
41 19 0.40
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.33
Consensus pattern (37 bp):
TCGATGAGACACTGGGTGTCACTTTACTTCGGATAGA
Found at i:28299177 original size:38 final size:39
Alignment explanation
Indices: 28299075--28299188 Score: 97
Period size: 38 Copynumber: 2.9 Consensus size: 39
28299065 GACCTCGAGT
* * * * *
28299075 CGATGAGACACTGGGTGTCACTATTTTACTTCGGATTGATT
1 CGATGAGACACTGGGTGTTA--ACTTTACTTCGGCTAGATC
* * * *
28299116 CGATGAGATATTGGGT-ATCACTTTACTTCGGCTAGA-C
1 CGATGAGACACTGGGTGTTAACTTTACTTCGGCTAGATC
*
28299153 CGATGAGACACTGGGTGTTAACTTTGCTTCGAGCTA
1 CGATGAGACACTGGGTGTTAACTTTACTTCG-GCTA
28299189 TCTGTTGACA
Statistics
Matches: 57, Mismatches: 14, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
37 14 0.25
38 25 0.44
39 4 0.07
41 14 0.25
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.33
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTTAACTTTACTTCGGCTAGATC
Found at i:28300489 original size:3 final size:3
Alignment explanation
Indices: 28300436--28300469 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
28300426 CAAGATATAG
28300436 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
28300470 CTTATTAGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:28301205 original size:91 final size:92
Alignment explanation
Indices: 28301063--28301245 Score: 359
Period size: 91 Copynumber: 2.0 Consensus size: 92
28301053 AAAAAGGTAT
28301063 TTTTTTACTTTTTTTGCTTCTTTTTTTTTACGTTTATACGTTGTTTAAAAATAAAAAAATGAATG
1 TTTTTTACTTTTTTTGCTTCTTTTTTTTTACGTTTATACGTTGTTTAAAAATAAAAAAATGAATG
28301128 CAAACGAATGGAAG-AAAATAAAGAGA
66 CAAACGAATGGAAGAAAAATAAAGAGA
28301154 TTTTTTACTTTTTTTGCTTCTTTTTTTTTACGTTTATACGTTGTTTAAAAATAAAAAAATGAATG
1 TTTTTTACTTTTTTTGCTTCTTTTTTTTTACGTTTATACGTTGTTTAAAAATAAAAAAATGAATG
28301219 CAAACGAATGGAAGAAAAATAAAGAGA
66 CAAACGAATGGAAGAAAAATAAAGAGA
28301246 AAAGAAAAAA
Statistics
Matches: 91, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
91 79 0.87
92 12 0.13
ACGTcount: A:0.38, C:0.08, G:0.13, T:0.42
Consensus pattern (92 bp):
TTTTTTACTTTTTTTGCTTCTTTTTTTTTACGTTTATACGTTGTTTAAAAATAAAAAAATGAATG
CAAACGAATGGAAGAAAAATAAAGAGA
Found at i:28310644 original size:120 final size:120
Alignment explanation
Indices: 28310431--28315350 Score: 9733
Period size: 120 Copynumber: 41.0 Consensus size: 120
28310421 CAGGTATGCT
* *
28310431 ATGCCAAAACACAGGCCTTTCCTCACGGCCATTCAACAGGCACTGCCTTTTAGCTATTA--ATAC
1 ATGCCAAAATACAGGTCTTTCCTCACGGCCATTCAACAGGCACTGCCTTTTAGC-A-TAGCATAC
*
28310494 CT--T-TAAACTGGATCCTTTAAACTGCGATATCCCGTCTTCATACTCATCAGCCCCCTA
64 CTGCTGT-TA-T-GATCCTTTAAACTGCGATATCCCGTCTTCATACTCATCAGCCCCCTA
28310551 ATGCCAAAATACAGGTCTTTCCTCACGGCCATTCAACAGGCACTGCCTTTTAGCATAGCATACCT
1 ATGCCAAAATACAGGTCTTTCCTCACGGCCATTCAACAGGCACTGCCTTTTAGCATAGCATACCT
28310616 GCTGTTATGATCCTTTAAACTGCGATATCCCGTCTTCATACTCATCAGCCCCCTA
66 GCTGTTATGATCCTTTAAACTGCGATATCCCGTCTTCATACTCATCAGCCCCCTA
28310671 ATGCCAAAATACAGGTCTTTCCTCACGGCCATTCAACAGGCACTGCCTTTTAGCATAGCATACCT
1 ATGCCAAAATACAGGTCTTTCCTCACGGCCATTCAACAGGCACTGCCTTTTAGCATAGCATACCT
28310736 GCTGTTATGATCCTTTAAACTGCGATATCCCGTCTTCATACTCATCAGCCCCCTA
66 GCTGTTATGATCCTTTAAACTGCGATATCCCGTCTTCATACTCATCAGCCCCCTA
28310791 ATGCCAAAATACAGGTCTTTCCTCACGGCCATTCAACAGGCACTGCCTTTTAGCATAGCATACCT
1 ATGCCAAAATACAGGTCTTTCCTCACGGCCATTCAACAGGCACTGCCTTTTAGCATAGCATACCT
28310856 GCTGTTATGATCCTTTAAACTGCGATATCCCGTCTTCATACTCATCAGCCCCCTA
66 GCTGTTATGATCCTTTAAACTGCGATATCCCGTCTTCATACTCATCAGCCCCCTA
28310911 ATGCCAAAATACAGGTCTTTCCTCACGGCCATTCAACAGGCACTGCCTTTTAGCATAGCATACCT
1 ATGCCAAAATACAGGTCTTTCCTCACGGCCATTCAACAGGCACTGCCTTTTAGCATAGCATACCT
28310976 GCTGTTATGATCCTTTAAACTGCGATATCCCGTCTTCATACTCATCAGCCCCCTA
66 GCTGTTATGATCCTTTAAACTGCGATATCCCGTCTTCATACTCATCAGCCCCCTA
28311031 ATGCCAAAATACAGGTCTTTCCTCACGGCCATTCAACAGGCACTGCCTTTTAGCATAGCATACCT
1 ATGCCAAAATACAGGTCTTTCCTCACGGCCATTCAACAGGCACTGCCTTTTAGCATAGCATACCT
28311096 GCTGTTATGATCCTTTAAACTGCGATATCCCGTCTTCATACTCATCAGCCCCCTA
66 GCTGTTATGATCCTTTAAACTGCGATATCCCGTCTTCATACTCATCAGCCCCCTA
28311151 ATGCCAAAATACAGGTCTTTCCTCACGGCCATTCAACAGGCACTGCCTTTTAGCATAGCATACCT
1 ATGCCAAAATACAGGTCTTTCCTCACGGCCATTCAACAGGCACTGCCTTTTAGCATAGCATACCT
28311216 GCTGTTATGATCCTTTAAACTGCGATATCCCGTCTTCATACTCATCAGCCCCCTA
66 GCTGTTATGATCCTTTAAACTGCGATATCCCGTCTTCATACTCATCAGCCCCCTA
28311271 ATGCCAAAATACAGGTCTTTCCTCACGGCCATTCAACAGGCACTGCCTTTTAGCATAGCATACCT
1 ATGCCAAAATACAGGTCTTTCCTCACGGCCATTCAACAGGCACTGCCTTTTAGCATAGCATACCT
28311336 GCTGTTATGATCCTTTAAACTGCGATATCCCGTCTTCATACTCATCAGCCCCCTA
66 GCTGTTATGATCCTTTAAACTGCGATATCCCGTCTTCATACTCATCAGCCCCCTA
28311391 ATGCCAAAATACAGGTCTTTCCTCACGGCCATTCAACAGGCACTGCCTTTTAGCATAGCATACCT
1 ATGCCAAAATACAGGTCTTTCCTCACGGCCATTCAACAGGCACTGCCTTTTAGCATAGCATACCT
28311456 GCTGTTATGATCCTTTAAACTGCGATATCCCGTCTTCATACTCATCAGCCCCCTA
66 GCTGTTATGATCCTTTAAACTGCGATATCCCGTCTTCATACTCATCAGCCCCCTA
28311511 ATGCCAAAATACAGGTCTTTCCTCACGGCCATTCAACAGGCACTGCCTTTTAGCATAGCATACCT
1 ATGCCAAAATACAGGTCTTTCCTCACGGCCATTCAACAGGCACTGCCTTTTAGCATAGCATACCT
28311576 GCTGTTATGATCCTTTAAACTGCGATATCCCGTCTTCATACTCATCAGCCCCCTA
66 GCTGTTATGATCCTTTAAACTGCGATATCCCGTCTTCATACTCATCAGCCCCCTA
28311631 ATGCCAAAATACAGGTCTTTCCTCACGGCCATTCAACAGGCACTGCCTTTTAGCATAGCATACCT
1 ATGCCAAAATACAGGTCTTTCCTCACGGCCATTCAACAGGCACTGCCTTTTAGCATAGCATACCT
28311696 GCTGTTATGATCCTTTAAACTGCGATATCCCGTCTTCATACTCATCAGCCCCCTA
66 GCTGTTATGATCCTTTAAACTGCGATATCCCGTCTTCATACTCATCAGCCCCCTA
28311751 ATGCCAAAATACAGGTCTTTCCTCACGGCCATTCAACAGGCACTGCCTTTTAGCATAGCATACCT
1 ATGCCAAAATACAGGTCTTTCCTCACGGCCATTCAACAGGCACTGCCTTTTAGCATAGCATACCT
28311816 GCTGTTATGATCCTTTAAACTGCGATATCCCGTCTTCATACTCATCAGCCCCCTA
66 GCTGTTATGATCCTTTAAACTGCGATATCCCGTCTTCATACTCATCAGCCCCCTA
28311871 ATGCCAAAATACAGGTCTTTCCTCACGGCCATTCAACAGGCACTGCCTTTTAGCATAGCATACCT
1 ATGCCAAAATACAGGTCTTTCCTCACGGCCATTCAACAGGCACTGCCTTTTAGCATAGCATACCT
28311936 GCTGTTATGATCCTTTAAACTGCGATATCCCGTCTTCATACTCATCAGCCCCCTA
66 GCTGTTATGATCCTTTAAACTGCGATATCCCGTCTTCATACTCATCAGCCCCCTA
28311991 ATGCCAAAATACAGGTCTTTCCTCACGGCCATTCAACAGGCACTGCCTTTTAGCATAGCATACCT
1 ATGCCAAAATACAGGTCTTTCCTCACGGCCATTCAACAGGCACTGCCTTTTAGCATAGCATACCT
28312056 GCTGTTATGATCCTTTAAACTGCGATATCCCGTCTTCATACTCATCAGCCCCCTA
66 GCTGTTATGATCCTTTAAACTGCGATATCCCGTCTTCATACTCATCAGCCCCCTA
28312111 ATGCCAAAATACAGGTCTTTCCTCACGGCCATTCAACAGGCACTGCCTTTTAGCATAGCATACCT
1 ATGCCAAAATACAGGTCTTTCCTCACGGCCATTCAACAGGCACTGCCTTTTAGCATAGCATACCT
28312176 GCTGTTATGATCCTTTAAACTGCGATATCCCGTCTTCATACTCATCAGCCCCCTA
66 GCTGTTATGATCCTTTAAACTGCGATATCCCGTCTTCATACTCATCAGCCCCCTA
28312231 ATGCCAAAATACAGGTCTTTCCTCACGGCCATTCAACAGGCACTGCCTTTTAGCATAGCATACCT
1 ATGCCAAAATACAGGTCTTTCCTCACGGCCATTCAACAGGCACTGCCTTTTAGCATAGCATACCT
28312296 GCTGTTATGATCCTTTAAACTGCGATATCCCGTCTTCATACTCATCAGCCCCCTA
66 GCTGTTATGATCCTTTAAACTGCGATATCCCGTCTTCATACTCATCAGCCCCCTA
28312351 ATGCCAAAATACAGGTCTTTCCTCACGGCCATTCAACAGGCACTGCCTTTTAGCATAGCATACCT
1 ATGCCAAAATACAGGTCTTTCCTCACGGCCATTCAACAGGCACTGCCTTTTAGCATAGCATACCT
28312416 GCTGTTATGATCCTTTAAACTGCGATATCCCGTCTTCATACTCATCAGCCCCCTA
66 GCTGTTATGATCCTTTAAACTGCGATATCCCGTCTTCATACTCATCAGCCCCCTA
28312471 ATGCCAAAATACAGGTCTTTCCTCACGGCCATTCAACAGGCACTGCCTTTTAGCATAGCATACCT
1 ATGCCAAAATACAGGTCTTTCCTCACGGCCATTCAACAGGCACTGCCTTTTAGCATAGCATACCT
28312536 GCTGTTATGATCCTTTAAACTGCGATATCCCGTCTTCATACTCATCAGCCCCCTA
66 GCTGTTATGATCCTTTAAACTGCGATATCCCGTCTTCATACTCATCAGCCCCCTA
28312591 ATGCCAAAATACAGGTCTTTCCTCACGGCCATTCAACAGGCACTGCCTTTTAGCATAGCATACCT
1 ATGCCAAAATACAGGTCTTTCCTCACGGCCATTCAACAGGCACTGCCTTTTAGCATAGCATACCT
28312656 GCTGTTATGATCCTTTAAACTGCGATATCCCGTCTTCATACTCATCAGCCCCCTA
66 GCTGTTATGATCCTTTAAACTGCGATATCCCGTCTTCATACTCATCAGCCCCCTA
28312711 ATGCCAAAATACAGGTCTTTCCTCACGGCCATTCAACAGGCACTGCCTTTTAGCATAGCATACCT
1 ATGCCAAAATACAGGTCTTTCCTCACGGCCATTCAACAGGCACTGCCTTTTAGCATAGCATACCT
28312776 GCTGTTATGATCCTTTAAACTGCGATATCCCGTCTTCATACTCATCAGCCCCCTA
66 GCTGTTATGATCCTTTAAACTGCGATATCCCGTCTTCATACTCATCAGCCCCCTA
28312831 ATGCCAAAATACAGGTCTTTCCTCACGGCCATTCAACAGGCACTGCCTTTTAGCATAGCATACCT
1 ATGCCAAAATACAGGTCTTTCCTCACGGCCATTCAACAGGCACTGCCTTTTAGCATAGCATACCT
28312896 GCTGTTATGATCCTTTAAACTGCGATATCCCGTCTTCATACTCATCAGCCCCCTA
66 GCTGTTATGATCCTTTAAACTGCGATATCCCGTCTTCATACTCATCAGCCCCCTA
28312951 ATGCCAAAATACAGGTCTTTCCTCACGGCCATTCAACAGGCACTGCCTTTTAGCATAGCATACCT
1 ATGCCAAAATACAGGTCTTTCCTCACGGCCATTCAACAGGCACTGCCTTTTAGCATAGCATACCT
28313016 GCTGTTATGATCCTTTAAACTGCGATATCCCGTCTTCATACTCATCAGCCCCCTA
66 GCTGTTATGATCCTTTAAACTGCGATATCCCGTCTTCATACTCATCAGCCCCCTA
28313071 ATGCCAAAATACAGGTCTTTCCTCACGGCCATTCAACAGGCACTGCCTTTTAGCATAGCATACCT
1 ATGCCAAAATACAGGTCTTTCCTCACGGCCATTCAACAGGCACTGCCTTTTAGCATAGCATACCT
28313136 GCTGTTATGATCCTTTAAACTGCGATATCCCGTCTTCATACTCATCAGCCCCCTA
66 GCTGTTATGATCCTTTAAACTGCGATATCCCGTCTTCATACTCATCAGCCCCCTA
28313191 ATGCCAAAATACAGGTCTTTCCTCACGGCCATTCAACAGGCACTGCCTTTTAGCATAGCATACCT
1 ATGCCAAAATACAGGTCTTTCCTCACGGCCATTCAACAGGCACTGCCTTTTAGCATAGCATACCT
28313256 GCTGTTATGATCCTTTAAACTGCGATATCCCGTCTTCATACTCATCAGCCCCCTA
66 GCTGTTATGATCCTTTAAACTGCGATATCCCGTCTTCATACTCATCAGCCCCCTA
28313311 ATGCCAAAATACAGGTCTTTCCTCACGGCCATTCAACAGGCACTGCCTTTTAGCATAGCATACCT
1 ATGCCAAAATACAGGTCTTTCCTCACGGCCATTCAACAGGCACTGCCTTTTAGCATAGCATACCT
28313376 GCTGTTATGATCCTTTAAACTGCGATATCCCGTCTTCATACTCATCAGCCCCCTA
66 GCTGTTATGATCCTTTAAACTGCGATATCCCGTCTTCATACTCATCAGCCCCCTA
28313431 ATGCCAAAATACAGGTCTTTCCTCACGGCCATTCAACAGGCACTGCCTTTTAGCATAGCATACCT
1 ATGCCAAAATACAGGTCTTTCCTCACGGCCATTCAACAGGCACTGCCTTTTAGCATAGCATACCT
28313496 GCTGTTATGATCCTTTAAACTGCGATATCCCGTCTTCATACTCATCAGCCCCCTA
66 GCTGTTATGATCCTTTAAACTGCGATATCCCGTCTTCATACTCATCAGCCCCCTA
28313551 ATGCCAAAATACAGGTCTTTCCTCACGGCCATTCAACAGGCACTGCCTTTTAGCATAGCATACCT
1 ATGCCAAAATACAGGTCTTTCCTCACGGCCATTCAACAGGCACTGCCTTTTAGCATAGCATACCT
28313616 GCTGTTATGATCCTTTAAACTGCGATATCCCGTCTTCATACTCATCAGCCCCCTA
66 GCTGTTATGATCCTTTAAACTGCGATATCCCGTCTTCATACTCATCAGCCCCCTA
28313671 ATGCCAAAATACAGGTCTTTCCTCACGGCCATTCAACAGGCACTGCCTTTTAGCATAGCATACCT
1 ATGCCAAAATACAGGTCTTTCCTCACGGCCATTCAACAGGCACTGCCTTTTAGCATAGCATACCT
28313736 GCTGTTATGATCCTTTAAACTGCGATATCCCGTCTTCATACTCATCAGCCCCCTA
66 GCTGTTATGATCCTTTAAACTGCGATATCCCGTCTTCATACTCATCAGCCCCCTA
28313791 ATGCCAAAATACAGGTCTTTCCTCACGGCCATTCAACAGGCACTGCCTTTTAGCATAGCATACCT
1 ATGCCAAAATACAGGTCTTTCCTCACGGCCATTCAACAGGCACTGCCTTTTAGCATAGCATACCT
28313856 GCTGTTATGATCCTTTAAACTGCGATATCCCGTCTTCATACTCATCAGCCCCCTA
66 GCTGTTATGATCCTTTAAACTGCGATATCCCGTCTTCATACTCATCAGCCCCCTA
28313911 ATGCCAAAATACAGGTCTTTCCTCACGGCCATTCAACAGGCACTGCCTTTTAGCATAGCATACCT
1 ATGCCAAAATACAGGTCTTTCCTCACGGCCATTCAACAGGCACTGCCTTTTAGCATAGCATACCT
28313976 GCTGTTATGATCCTTTAAACTGCGATATCCCGTCTTCATACTCATCAGCCCCCTA
66 GCTGTTATGATCCTTTAAACTGCGATATCCCGTCTTCATACTCATCAGCCCCCTA
28314031 ATGCCAAAATACAGGTCTTTCCTCACGGCCATTCAACAGGCACTGCCTTTTAGCATAGCATACCT
1 ATGCCAAAATACAGGTCTTTCCTCACGGCCATTCAACAGGCACTGCCTTTTAGCATAGCATACCT
28314096 GCTGTTATGATCCTTTAAACTGCGATATCCCGTCTTCATACTCATCAGCCCCCTA
66 GCTGTTATGATCCTTTAAACTGCGATATCCCGTCTTCATACTCATCAGCCCCCTA
28314151 ATGCCAAAATACAGGTCTTTCCTCACGGCCATTCAACAGGCACTGCCTTTTAGCATAGCATACCT
1 ATGCCAAAATACAGGTCTTTCCTCACGGCCATTCAACAGGCACTGCCTTTTAGCATAGCATACCT
28314216 GCTGTTATGATCCTTTAAACTGCGATATCCCGTCTTCATACTCATCAGCCCCCTA
66 GCTGTTATGATCCTTTAAACTGCGATATCCCGTCTTCATACTCATCAGCCCCCTA
28314271 ATGCCAAAATACAGGTCTTTCCTCACGGCCATTCAACAGGCACTGCCTTTTAGCATAGCATACCT
1 ATGCCAAAATACAGGTCTTTCCTCACGGCCATTCAACAGGCACTGCCTTTTAGCATAGCATACCT
28314336 GCTGTTATGATCCTTTAAACTGCGATATCCCGTCTTCATACTCATCAGCCCCCTA
66 GCTGTTATGATCCTTTAAACTGCGATATCCCGTCTTCATACTCATCAGCCCCCTA
28314391 ATGCCAAAATACAGGTCTTTCCTCACGGCCATTCAACAGGCACTGCCTTTTAGCATAGCATACCT
1 ATGCCAAAATACAGGTCTTTCCTCACGGCCATTCAACAGGCACTGCCTTTTAGCATAGCATACCT
28314456 GCTGTTATGATCCTTTAAACTGCGATATCCCGTCTTCATACTCATCAGCCCCCTA
66 GCTGTTATGATCCTTTAAACTGCGATATCCCGTCTTCATACTCATCAGCCCCCTA
28314511 ATGCCAAAATACAGGTCTTTCCTCACGGCCATTCAACAGGCACTGCCTTTTAGCATAGCATACCT
1 ATGCCAAAATACAGGTCTTTCCTCACGGCCATTCAACAGGCACTGCCTTTTAGCATAGCATACCT
28314576 GCTGTTATGATCCTTTAAACTGCGATATCCCGTCTTCATACTCATCAGCCCCCTA
66 GCTGTTATGATCCTTTAAACTGCGATATCCCGTCTTCATACTCATCAGCCCCCTA
28314631 ATGCCAAAATACAGGTCTTTCCTCACGGCCATTCAACAGGCACTGCCTTTTAGCATAGCATACCT
1 ATGCCAAAATACAGGTCTTTCCTCACGGCCATTCAACAGGCACTGCCTTTTAGCATAGCATACCT
28314696 GCTGTTATGATCCTTTAAACTGCGATATCCCGTCTTCATACTCATCAGCCCCCTA
66 GCTGTTATGATCCTTTAAACTGCGATATCCCGTCTTCATACTCATCAGCCCCCTA
28314751 ATGCCAAAATACAGGTCTTTCCTCACGGCCATTCAACAGGCACTGCCTTTTAGCATAGCATACCT
1 ATGCCAAAATACAGGTCTTTCCTCACGGCCATTCAACAGGCACTGCCTTTTAGCATAGCATACCT
28314816 GCTGTTATGATCCTTTAAACTGCGATATCCCGTCTTCATACTCATCAGCCCCCTA
66 GCTGTTATGATCCTTTAAACTGCGATATCCCGTCTTCATACTCATCAGCCCCCTA
28314871 ATGCCAAAATACAGGTCTTTCCTCACGGCCATTCAACAGGCACTGCCTTTTAGCATAGCATACCT
1 ATGCCAAAATACAGGTCTTTCCTCACGGCCATTCAACAGGCACTGCCTTTTAGCATAGCATACCT
28314936 GCTGTTATGATCCTTTAAACTGCGATATCCCGTCTTCATACTCATCAGCCCCCTA
66 GCTGTTATGATCCTTTAAACTGCGATATCCCGTCTTCATACTCATCAGCCCCCTA
28314991 ATGCCAAAATACAGGTCTTTCCTCACGGCCATTCAACAGGCACTGCCTTTTAGCATAGCATACCT
1 ATGCCAAAATACAGGTCTTTCCTCACGGCCATTCAACAGGCACTGCCTTTTAGCATAGCATACCT
28315056 GCTGTTATGATCCTTTAAACTGCGATATCCCGTCTTCATACTCATCAGCCCCCTA
66 GCTGTTATGATCCTTTAAACTGCGATATCCCGTCTTCATACTCATCAGCCCCCTA
28315111 ATGCCAAAATACAGGTCTTTCCTCACGGCCATTCAACAGGCACTGCCTTTTAGCATAGCATACCT
1 ATGCCAAAATACAGGTCTTTCCTCACGGCCATTCAACAGGCACTGCCTTTTAGCATAGCATACCT
28315176 GCTGTTATGATCCTTTAAACTGCGATATCCCGTCTTCATACTCATCAGCCCCCTA
66 GCTGTTATGATCCTTTAAACTGCGATATCCCGTCTTCATACTCATCAGCCCCCTA
28315231 ATGCCAAAATACAGGTCTTTCCTCACGGCCATTCAACAGGCACTGCCTTTTAGCATAGCATACCT
1 ATGCCAAAATACAGGTCTTTCCTCACGGCCATTCAACAGGCACTGCCTTTTAGCATAGCATACCT
28315296 GCTGTTATGATCCTTTAAACTGCGATATCCCGTCTTCATACTCATCAGCCCCCTA
66 GCTGTTATGATCCTTTAAACTGCGATATCCCGTCTTCATACTCATCAGCCCCCTA
28315351 TGGTTGATTG
Statistics
Matches: 4792, Mismatches: 3, Indels: 10
1.00 0.00 0.00
Matches are distributed among these distances:
118 2 0.00
119 1 0.00
120 4785 1.00
121 1 0.00
122 2 0.00
123 1 0.00
ACGTcount: A:0.25, C:0.32, G:0.14, T:0.29
Consensus pattern (120 bp):
ATGCCAAAATACAGGTCTTTCCTCACGGCCATTCAACAGGCACTGCCTTTTAGCATAGCATACCT
GCTGTTATGATCCTTTAAACTGCGATATCCCGTCTTCATACTCATCAGCCCCCTA
Done.